-- dump date 20140620_032849 -- class Genbank::misc_feature -- table misc_feature_note -- id note 395960000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 395960000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 395960000003 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 395960000004 Walker A motif; other site 395960000005 ATP binding site [chemical binding]; other site 395960000006 Walker B motif; other site 395960000007 arginine finger; other site 395960000008 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 395960000009 DnaA box-binding interface [nucleotide binding]; other site 395960000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 395960000011 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 395960000012 putative DNA binding surface [nucleotide binding]; other site 395960000013 dimer interface [polypeptide binding]; other site 395960000014 beta-clamp/clamp loader binding surface; other site 395960000015 beta-clamp/translesion DNA polymerase binding surface; other site 395960000016 recombination protein F; Reviewed; Region: recF; PRK00064 395960000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960000018 Walker A/P-loop; other site 395960000019 ATP binding site [chemical binding]; other site 395960000020 Q-loop/lid; other site 395960000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960000022 ABC transporter signature motif; other site 395960000023 Walker B; other site 395960000024 D-loop; other site 395960000025 H-loop/switch region; other site 395960000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 395960000027 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 395960000028 Mg2+ binding site [ion binding]; other site 395960000029 G-X-G motif; other site 395960000030 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 395960000031 anchoring element; other site 395960000032 dimer interface [polypeptide binding]; other site 395960000033 ATP binding site [chemical binding]; other site 395960000034 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 395960000035 active site 395960000036 putative metal-binding site [ion binding]; other site 395960000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 395960000038 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 395960000039 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 395960000040 dimer interface [polypeptide binding]; other site 395960000041 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 395960000042 active site 395960000043 Fe binding site [ion binding]; other site 395960000044 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395960000045 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 395960000046 putative DNA binding site [nucleotide binding]; other site 395960000047 putative Zn2+ binding site [ion binding]; other site 395960000048 AsnC family; Region: AsnC_trans_reg; pfam01037 395960000049 PAS domain; Region: PAS_9; pfam13426 395960000050 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395960000051 HWE histidine kinase; Region: HWE_HK; pfam07536 395960000052 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 395960000053 tetramer interface [polypeptide binding]; other site 395960000054 dimer interface [polypeptide binding]; other site 395960000055 circadian clock protein KaiC; Reviewed; Region: PRK09302 395960000056 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 395960000057 Walker A motif; other site 395960000058 ATP binding site [chemical binding]; other site 395960000059 Walker B motif; other site 395960000060 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 395960000061 Walker A motif; other site 395960000062 ATP binding site [chemical binding]; other site 395960000063 Walker B motif; other site 395960000064 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395960000065 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 395960000066 putative DNA binding site [nucleotide binding]; other site 395960000067 putative Zn2+ binding site [ion binding]; other site 395960000068 AsnC family; Region: AsnC_trans_reg; pfam01037 395960000069 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 395960000070 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395960000071 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 395960000072 metal-binding site [ion binding] 395960000073 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395960000074 Soluble P-type ATPase [General function prediction only]; Region: COG4087 395960000075 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 395960000076 FixH; Region: FixH; pfam05751 395960000077 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 395960000078 4Fe-4S binding domain; Region: Fer4_5; pfam12801 395960000079 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 395960000080 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 395960000081 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 395960000082 Cytochrome c; Region: Cytochrom_C; pfam00034 395960000083 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 395960000084 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 395960000085 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 395960000086 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 395960000087 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 395960000088 Low-spin heme binding site [chemical binding]; other site 395960000089 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 395960000090 Putative water exit pathway; other site 395960000091 Binuclear center (active site) [active] 395960000092 Putative proton exit pathway; other site 395960000093 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 395960000094 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 395960000095 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 395960000096 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395960000097 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 395960000098 putative NAD(P) binding site [chemical binding]; other site 395960000099 active site 395960000100 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 395960000101 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 395960000102 putative catalytic residue [active] 395960000103 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395960000104 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 395960000105 putative C-terminal domain interface [polypeptide binding]; other site 395960000106 putative GSH binding site (G-site) [chemical binding]; other site 395960000107 putative dimer interface [polypeptide binding]; other site 395960000108 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 395960000109 putative N-terminal domain interface [polypeptide binding]; other site 395960000110 putative dimer interface [polypeptide binding]; other site 395960000111 putative substrate binding pocket (H-site) [chemical binding]; other site 395960000112 short chain dehydrogenase; Provisional; Region: PRK08278 395960000113 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 395960000114 NAD(P) binding site [chemical binding]; other site 395960000115 homodimer interface [polypeptide binding]; other site 395960000116 active site 395960000117 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 395960000118 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 395960000119 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 395960000120 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 395960000121 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 395960000122 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 395960000123 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 395960000124 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 395960000125 purine monophosphate binding site [chemical binding]; other site 395960000126 dimer interface [polypeptide binding]; other site 395960000127 putative catalytic residues [active] 395960000128 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 395960000129 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 395960000130 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 395960000131 NusB family; Region: NusB; pfam01029 395960000132 putative RNA binding site [nucleotide binding]; other site 395960000133 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 395960000134 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 395960000135 S-adenosylmethionine binding site [chemical binding]; other site 395960000136 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 395960000137 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 395960000138 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 395960000139 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 395960000140 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 395960000141 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 395960000142 putative tRNA-binding site [nucleotide binding]; other site 395960000143 B3/4 domain; Region: B3_4; pfam03483 395960000144 tRNA synthetase B5 domain; Region: B5; smart00874 395960000145 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 395960000146 dimer interface [polypeptide binding]; other site 395960000147 motif 1; other site 395960000148 motif 3; other site 395960000149 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 395960000150 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 395960000151 putative active site [active] 395960000152 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 395960000153 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 395960000154 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 395960000155 dimer interface [polypeptide binding]; other site 395960000156 motif 1; other site 395960000157 active site 395960000158 motif 2; other site 395960000159 motif 3; other site 395960000160 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 395960000161 23S rRNA binding site [nucleotide binding]; other site 395960000162 L21 binding site [polypeptide binding]; other site 395960000163 L13 binding site [polypeptide binding]; other site 395960000164 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 395960000165 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 395960000166 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 395960000167 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 395960000168 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395960000169 epoxyqueuosine reductase; Region: TIGR00276 395960000170 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 395960000171 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395960000172 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 395960000173 C-terminal domain interface [polypeptide binding]; other site 395960000174 GSH binding site (G-site) [chemical binding]; other site 395960000175 dimer interface [polypeptide binding]; other site 395960000176 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 395960000177 N-terminal domain interface [polypeptide binding]; other site 395960000178 dimer interface [polypeptide binding]; other site 395960000179 substrate binding pocket (H-site) [chemical binding]; other site 395960000180 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 395960000181 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 395960000182 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 395960000183 putative NAD(P) binding site [chemical binding]; other site 395960000184 active site 395960000185 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 395960000186 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 395960000187 catalytic site [active] 395960000188 putative active site [active] 395960000189 putative substrate binding site [chemical binding]; other site 395960000190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 395960000191 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 395960000192 OstA-like protein; Region: OstA; pfam03968 395960000193 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 395960000194 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 395960000195 Walker A/P-loop; other site 395960000196 ATP binding site [chemical binding]; other site 395960000197 Q-loop/lid; other site 395960000198 ABC transporter signature motif; other site 395960000199 Walker B; other site 395960000200 D-loop; other site 395960000201 H-loop/switch region; other site 395960000202 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 395960000203 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 395960000204 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 395960000205 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 395960000206 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 395960000207 30S subunit binding site; other site 395960000208 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 395960000209 active site 395960000210 phosphorylation site [posttranslational modification] 395960000211 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 395960000212 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395960000213 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 395960000214 putative dimer interface [polypeptide binding]; other site 395960000215 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395960000216 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 395960000217 Walker A/P-loop; other site 395960000218 ATP binding site [chemical binding]; other site 395960000219 Q-loop/lid; other site 395960000220 ABC transporter signature motif; other site 395960000221 Walker B; other site 395960000222 D-loop; other site 395960000223 H-loop/switch region; other site 395960000224 TOBE domain; Region: TOBE_2; pfam08402 395960000225 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395960000226 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 395960000227 dimer interface [polypeptide binding]; other site 395960000228 conserved gate region; other site 395960000229 putative PBP binding loops; other site 395960000230 ABC-ATPase subunit interface; other site 395960000231 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 395960000232 putative PBP binding loops; other site 395960000233 dimer interface [polypeptide binding]; other site 395960000234 ABC-ATPase subunit interface; other site 395960000235 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395960000236 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395960000237 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395960000238 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395960000239 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 395960000240 GIY-YIG motif/motif A; other site 395960000241 putative active site [active] 395960000242 putative metal binding site [ion binding]; other site 395960000243 TIGR02300 family protein; Region: FYDLN_acid 395960000244 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 395960000245 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 395960000246 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 395960000247 hinge; other site 395960000248 active site 395960000249 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 395960000250 putative acyl-acceptor binding pocket; other site 395960000251 cytidylate kinase; Provisional; Region: cmk; PRK00023 395960000252 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 395960000253 CMP-binding site; other site 395960000254 The sites determining sugar specificity; other site 395960000255 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 395960000256 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 395960000257 RNA binding site [nucleotide binding]; other site 395960000258 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 395960000259 RNA binding site [nucleotide binding]; other site 395960000260 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 395960000261 RNA binding site [nucleotide binding]; other site 395960000262 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 395960000263 RNA binding site [nucleotide binding]; other site 395960000264 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 395960000265 RNA binding site [nucleotide binding]; other site 395960000266 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 395960000267 RNA binding site [nucleotide binding]; other site 395960000268 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 395960000269 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 395960000270 tandem repeat interface [polypeptide binding]; other site 395960000271 oligomer interface [polypeptide binding]; other site 395960000272 active site residues [active] 395960000273 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 395960000274 IHF dimer interface [polypeptide binding]; other site 395960000275 IHF - DNA interface [nucleotide binding]; other site 395960000276 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 395960000277 active site 395960000278 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 395960000279 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 395960000280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960000281 catalytic residue [active] 395960000282 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 395960000283 substrate binding site [chemical binding]; other site 395960000284 active site 395960000285 catalytic residues [active] 395960000286 heterodimer interface [polypeptide binding]; other site 395960000287 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 395960000288 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 395960000289 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 395960000290 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395960000291 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 395960000292 catalytic residues [active] 395960000293 Part of AAA domain; Region: AAA_19; pfam13245 395960000294 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 395960000295 Family description; Region: UvrD_C_2; pfam13538 395960000296 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 395960000297 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 395960000298 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 395960000299 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 395960000300 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 395960000301 Substrate binding site; other site 395960000302 metal-binding site 395960000303 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 395960000304 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 395960000305 Phosphotransferase enzyme family; Region: APH; pfam01636 395960000306 PAS fold; Region: PAS_7; pfam12860 395960000307 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395960000308 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 395960000309 dimer interface [polypeptide binding]; other site 395960000310 phosphorylation site [posttranslational modification] 395960000311 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 395960000312 ATP binding site [chemical binding]; other site 395960000313 Mg2+ binding site [ion binding]; other site 395960000314 G-X-G motif; other site 395960000315 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 395960000316 trimer interface [polypeptide binding]; other site 395960000317 active site 395960000318 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 395960000319 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 395960000320 Flavoprotein; Region: Flavoprotein; pfam02441 395960000321 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 395960000322 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 395960000323 ABC1 family; Region: ABC1; cl17513 395960000324 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 395960000325 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 395960000326 S-adenosylmethionine binding site [chemical binding]; other site 395960000327 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 395960000328 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 395960000329 DNA binding site [nucleotide binding] 395960000330 catalytic residue [active] 395960000331 H2TH interface [polypeptide binding]; other site 395960000332 putative catalytic residues [active] 395960000333 turnover-facilitating residue; other site 395960000334 intercalation triad [nucleotide binding]; other site 395960000335 8OG recognition residue [nucleotide binding]; other site 395960000336 putative reading head residues; other site 395960000337 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 395960000338 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 395960000339 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 395960000340 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395960000341 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 395960000342 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 395960000343 ATP binding site [chemical binding]; other site 395960000344 substrate interface [chemical binding]; other site 395960000345 Transmembrane secretion effector; Region: MFS_3; pfam05977 395960000346 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 395960000347 putative substrate translocation pore; other site 395960000348 Phasin protein; Region: Phasin_2; cl11491 395960000349 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 395960000350 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960000351 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960000352 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 395960000353 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 395960000354 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960000355 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960000356 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960000357 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395960000358 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 395960000359 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395960000360 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395960000361 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960000362 Walker A/P-loop; other site 395960000363 ATP binding site [chemical binding]; other site 395960000364 Q-loop/lid; other site 395960000365 ABC transporter signature motif; other site 395960000366 Walker B; other site 395960000367 D-loop; other site 395960000368 H-loop/switch region; other site 395960000369 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960000370 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395960000371 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960000372 Walker A/P-loop; other site 395960000373 ATP binding site [chemical binding]; other site 395960000374 Q-loop/lid; other site 395960000375 ABC transporter signature motif; other site 395960000376 Walker B; other site 395960000377 D-loop; other site 395960000378 H-loop/switch region; other site 395960000379 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960000380 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395960000381 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 395960000382 dimer interface [polypeptide binding]; other site 395960000383 conserved gate region; other site 395960000384 putative PBP binding loops; other site 395960000385 ABC-ATPase subunit interface; other site 395960000386 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395960000387 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 395960000388 dimer interface [polypeptide binding]; other site 395960000389 conserved gate region; other site 395960000390 putative PBP binding loops; other site 395960000391 ABC-ATPase subunit interface; other site 395960000392 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395960000393 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 395960000394 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 395960000395 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 395960000396 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 395960000397 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 395960000398 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 395960000399 active site 395960000400 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 395960000401 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 395960000402 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395960000403 DNA-binding site [nucleotide binding]; DNA binding site 395960000404 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 395960000405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960000406 homodimer interface [polypeptide binding]; other site 395960000407 catalytic residue [active] 395960000408 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960000409 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960000410 putative ligand binding site [chemical binding]; other site 395960000411 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395960000412 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 395960000413 putative NAD(P) binding site [chemical binding]; other site 395960000414 catalytic Zn binding site [ion binding]; other site 395960000415 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 395960000416 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395960000417 PYR/PP interface [polypeptide binding]; other site 395960000418 dimer interface [polypeptide binding]; other site 395960000419 TPP binding site [chemical binding]; other site 395960000420 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395960000421 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 395960000422 TPP-binding site; other site 395960000423 dimer interface [polypeptide binding]; other site 395960000424 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395960000425 classical (c) SDRs; Region: SDR_c; cd05233 395960000426 NAD(P) binding site [chemical binding]; other site 395960000427 active site 395960000428 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960000429 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960000430 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395960000431 Magnetospirillum NAD(P)+-dependent aldehyde dehydrogenase MSR-1-like; Region: ALDH_MGR_2402; cd07108 395960000432 NAD(P) binding site [chemical binding]; other site 395960000433 catalytic residues [active] 395960000434 catalytic residues [active] 395960000435 SnoaL-like domain; Region: SnoaL_2; pfam12680 395960000436 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 395960000437 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395960000438 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 395960000439 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 395960000440 NAD binding site [chemical binding]; other site 395960000441 substrate binding site [chemical binding]; other site 395960000442 homodimer interface [polypeptide binding]; other site 395960000443 active site 395960000444 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 395960000445 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 395960000446 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 395960000447 NADP binding site [chemical binding]; other site 395960000448 active site 395960000449 putative substrate binding site [chemical binding]; other site 395960000450 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 395960000451 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 395960000452 substrate binding site; other site 395960000453 tetramer interface; other site 395960000454 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 395960000455 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 395960000456 Phytochrome region; Region: PHY; pfam00360 395960000457 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 395960000458 dimer interface [polypeptide binding]; other site 395960000459 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 395960000460 ATP binding site [chemical binding]; other site 395960000461 Mg2+ binding site [ion binding]; other site 395960000462 G-X-G motif; other site 395960000463 Ion channel; Region: Ion_trans_2; pfam07885 395960000464 TrkA-N domain; Region: TrkA_N; pfam02254 395960000465 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 395960000466 TrkA-N domain; Region: TrkA_N; pfam02254 395960000467 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 395960000468 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395960000469 active site 395960000470 metal binding site [ion binding]; metal-binding site 395960000471 hexamer interface [polypeptide binding]; other site 395960000472 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 395960000473 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395960000474 active site 395960000475 metal binding site [ion binding]; metal-binding site 395960000476 hexamer interface [polypeptide binding]; other site 395960000477 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395960000478 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395960000479 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395960000480 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 395960000481 dimer interface [polypeptide binding]; other site 395960000482 conserved gate region; other site 395960000483 putative PBP binding loops; other site 395960000484 ABC-ATPase subunit interface; other site 395960000485 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 395960000486 dimer interface [polypeptide binding]; other site 395960000487 conserved gate region; other site 395960000488 putative PBP binding loops; other site 395960000489 ABC-ATPase subunit interface; other site 395960000490 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395960000491 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960000492 Walker A/P-loop; other site 395960000493 ATP binding site [chemical binding]; other site 395960000494 Q-loop/lid; other site 395960000495 ABC transporter signature motif; other site 395960000496 Walker B; other site 395960000497 D-loop; other site 395960000498 H-loop/switch region; other site 395960000499 TOBE domain; Region: TOBE_2; pfam08402 395960000500 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 395960000501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960000502 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 395960000503 dimerization interface [polypeptide binding]; other site 395960000504 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 395960000505 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960000506 Walker A/P-loop; other site 395960000507 ATP binding site [chemical binding]; other site 395960000508 Q-loop/lid; other site 395960000509 ABC transporter signature motif; other site 395960000510 Walker B; other site 395960000511 D-loop; other site 395960000512 H-loop/switch region; other site 395960000513 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 395960000514 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395960000515 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 395960000516 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 395960000517 catalytic loop [active] 395960000518 iron binding site [ion binding]; other site 395960000519 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 395960000520 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 395960000521 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 395960000522 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 395960000523 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 395960000524 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 395960000525 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395960000526 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395960000527 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 395960000528 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 395960000529 active site 395960000530 phosphorylation site [posttranslational modification] 395960000531 intermolecular recognition site; other site 395960000532 dimerization interface [polypeptide binding]; other site 395960000533 CheB methylesterase; Region: CheB_methylest; pfam01339 395960000534 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395960000535 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 395960000536 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 395960000537 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395960000538 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960000539 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960000540 dimer interface [polypeptide binding]; other site 395960000541 putative CheW interface [polypeptide binding]; other site 395960000542 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 395960000543 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 395960000544 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 395960000545 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 395960000546 putative binding surface; other site 395960000547 active site 395960000548 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395960000549 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 395960000550 ATP binding site [chemical binding]; other site 395960000551 Mg2+ binding site [ion binding]; other site 395960000552 G-X-G motif; other site 395960000553 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 395960000554 Response regulator receiver domain; Region: Response_reg; pfam00072 395960000555 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 395960000556 active site 395960000557 phosphorylation site [posttranslational modification] 395960000558 intermolecular recognition site; other site 395960000559 dimerization interface [polypeptide binding]; other site 395960000560 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 395960000561 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 395960000562 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 395960000563 active site 395960000564 phosphorylation site [posttranslational modification] 395960000565 intermolecular recognition site; other site 395960000566 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395960000567 Zn2+ binding site [ion binding]; other site 395960000568 Mg2+ binding site [ion binding]; other site 395960000569 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 395960000570 nucleotide binding site [chemical binding]; other site 395960000571 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 395960000572 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 395960000573 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 395960000574 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395960000575 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 395960000576 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395960000577 EamA-like transporter family; Region: EamA; cl17759 395960000578 GTPase CgtA; Reviewed; Region: obgE; PRK12299 395960000579 GTP1/OBG; Region: GTP1_OBG; pfam01018 395960000580 Obg GTPase; Region: Obg; cd01898 395960000581 G1 box; other site 395960000582 GTP/Mg2+ binding site [chemical binding]; other site 395960000583 Switch I region; other site 395960000584 G2 box; other site 395960000585 G3 box; other site 395960000586 Switch II region; other site 395960000587 G4 box; other site 395960000588 G5 box; other site 395960000589 gamma-glutamyl kinase; Provisional; Region: PRK05429 395960000590 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 395960000591 nucleotide binding site [chemical binding]; other site 395960000592 homotetrameric interface [polypeptide binding]; other site 395960000593 putative phosphate binding site [ion binding]; other site 395960000594 putative allosteric binding site; other site 395960000595 PUA domain; Region: PUA; pfam01472 395960000596 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 395960000597 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 395960000598 putative catalytic cysteine [active] 395960000599 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 395960000600 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 395960000601 active site 395960000602 (T/H)XGH motif; other site 395960000603 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 395960000604 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 395960000605 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 395960000606 Peptidase family M23; Region: Peptidase_M23; pfam01551 395960000607 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 395960000608 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 395960000609 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 395960000610 protein binding site [polypeptide binding]; other site 395960000611 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 395960000612 Catalytic dyad [active] 395960000613 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 395960000614 putative active site [active] 395960000615 NodB motif; other site 395960000616 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 395960000617 putative active site [active] 395960000618 Ap4A binding site [chemical binding]; other site 395960000619 nudix motif; other site 395960000620 putative metal binding site [ion binding]; other site 395960000621 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 395960000622 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 395960000623 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395960000624 NAD binding site [chemical binding]; other site 395960000625 putative substrate binding site 2 [chemical binding]; other site 395960000626 putative substrate binding site 1 [chemical binding]; other site 395960000627 active site 395960000628 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 395960000629 putative active site [active] 395960000630 Ap4A binding site [chemical binding]; other site 395960000631 nudix motif; other site 395960000632 putative metal binding site [ion binding]; other site 395960000633 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13448 395960000634 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 395960000635 gamma subunit interface [polypeptide binding]; other site 395960000636 epsilon subunit interface [polypeptide binding]; other site 395960000637 LBP interface [polypeptide binding]; other site 395960000638 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 395960000639 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 395960000640 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 395960000641 alpha subunit interaction interface [polypeptide binding]; other site 395960000642 Walker A motif; other site 395960000643 ATP binding site [chemical binding]; other site 395960000644 Walker B motif; other site 395960000645 inhibitor binding site; inhibition site 395960000646 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395960000647 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 395960000648 core domain interface [polypeptide binding]; other site 395960000649 delta subunit interface [polypeptide binding]; other site 395960000650 epsilon subunit interface [polypeptide binding]; other site 395960000651 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 395960000652 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 395960000653 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 395960000654 beta subunit interaction interface [polypeptide binding]; other site 395960000655 Walker A motif; other site 395960000656 ATP binding site [chemical binding]; other site 395960000657 Walker B motif; other site 395960000658 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395960000659 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 395960000660 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 395960000661 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 395960000662 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 395960000663 primosome assembly protein PriA; Validated; Region: PRK05580 395960000664 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 395960000665 ATP binding site [chemical binding]; other site 395960000666 putative Mg++ binding site [ion binding]; other site 395960000667 helicase superfamily c-terminal domain; Region: HELICc; smart00490 395960000668 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 395960000669 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 395960000670 active site 395960000671 DNA binding site [nucleotide binding] 395960000672 Int/Topo IB signature motif; other site 395960000673 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 395960000674 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 395960000675 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395960000676 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395960000677 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395960000678 short chain dehydrogenase; Provisional; Region: PRK06123 395960000679 classical (c) SDRs; Region: SDR_c; cd05233 395960000680 NAD(P) binding site [chemical binding]; other site 395960000681 active site 395960000682 MAPEG family; Region: MAPEG; cl09190 395960000683 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 395960000684 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 395960000685 E3 interaction surface; other site 395960000686 lipoyl attachment site [posttranslational modification]; other site 395960000687 e3 binding domain; Region: E3_binding; pfam02817 395960000688 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 395960000689 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 395960000690 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 395960000691 TPP-binding site [chemical binding]; other site 395960000692 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 395960000693 dimer interface [polypeptide binding]; other site 395960000694 PYR/PP interface [polypeptide binding]; other site 395960000695 TPP binding site [chemical binding]; other site 395960000696 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 395960000697 CoA binding domain; Region: CoA_binding; smart00881 395960000698 CoA-ligase; Region: Ligase_CoA; pfam00549 395960000699 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 395960000700 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 395960000701 CoA-ligase; Region: Ligase_CoA; pfam00549 395960000702 malate dehydrogenase; Reviewed; Region: PRK06223 395960000703 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 395960000704 NAD(P) binding site [chemical binding]; other site 395960000705 dimer interface [polypeptide binding]; other site 395960000706 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395960000707 substrate binding site [chemical binding]; other site 395960000708 Predicted ATPase [General function prediction only]; Region: COG1485 395960000709 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 395960000710 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 395960000711 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 395960000712 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 395960000713 active site 395960000714 catalytic triad [active] 395960000715 oxyanion hole [active] 395960000716 switch loop; other site 395960000717 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 395960000718 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395960000719 Walker A/P-loop; other site 395960000720 ATP binding site [chemical binding]; other site 395960000721 Q-loop/lid; other site 395960000722 ABC transporter signature motif; other site 395960000723 Walker B; other site 395960000724 D-loop; other site 395960000725 H-loop/switch region; other site 395960000726 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 395960000727 FtsX-like permease family; Region: FtsX; pfam02687 395960000728 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 395960000729 Phosphotransferase enzyme family; Region: APH; pfam01636 395960000730 active site 395960000731 ATP binding site [chemical binding]; other site 395960000732 antibiotic binding site [chemical binding]; other site 395960000733 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395960000734 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960000735 Coenzyme A binding pocket [chemical binding]; other site 395960000736 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 395960000737 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 395960000738 aconitate hydratase; Validated; Region: PRK09277 395960000739 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 395960000740 substrate binding site [chemical binding]; other site 395960000741 ligand binding site [chemical binding]; other site 395960000742 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 395960000743 substrate binding site [chemical binding]; other site 395960000744 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 395960000745 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960000746 Walker A/P-loop; other site 395960000747 ATP binding site [chemical binding]; other site 395960000748 Q-loop/lid; other site 395960000749 ABC transporter signature motif; other site 395960000750 Walker B; other site 395960000751 D-loop; other site 395960000752 H-loop/switch region; other site 395960000753 heme exporter protein CcmB; Region: ccmB; TIGR01190 395960000754 heme exporter protein CcmC; Region: ccmC; TIGR01191 395960000755 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 395960000756 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 395960000757 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 395960000758 catalytic residues [active] 395960000759 central insert; other site 395960000760 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 395960000761 intracellular septation protein A; Reviewed; Region: PRK00259 395960000762 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 395960000763 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 395960000764 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 395960000765 P loop; other site 395960000766 GTP binding site [chemical binding]; other site 395960000767 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 395960000768 active site 395960000769 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 395960000770 acetyl-CoA synthetase; Provisional; Region: PRK00174 395960000771 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 395960000772 active site 395960000773 CoA binding site [chemical binding]; other site 395960000774 acyl-activating enzyme (AAE) consensus motif; other site 395960000775 AMP binding site [chemical binding]; other site 395960000776 acetate binding site [chemical binding]; other site 395960000777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395960000778 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395960000779 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395960000780 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395960000781 ligand binding site [chemical binding]; other site 395960000782 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 395960000783 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 395960000784 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 395960000785 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 395960000786 catalytic loop [active] 395960000787 iron binding site [ion binding]; other site 395960000788 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 395960000789 L-aspartate oxidase; Provisional; Region: PRK06175 395960000790 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395960000791 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 395960000792 putative SdhC subunit interface [polypeptide binding]; other site 395960000793 putative proximal heme binding site [chemical binding]; other site 395960000794 putative Iron-sulfur protein interface [polypeptide binding]; other site 395960000795 putative proximal quinone binding site; other site 395960000796 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 395960000797 Iron-sulfur protein interface; other site 395960000798 proximal quinone binding site [chemical binding]; other site 395960000799 SdhD (CybS) interface [polypeptide binding]; other site 395960000800 proximal heme binding site [chemical binding]; other site 395960000801 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 395960000802 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 395960000803 malonyl-CoA synthase; Validated; Region: PRK07514 395960000804 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 395960000805 acyl-activating enzyme (AAE) consensus motif; other site 395960000806 active site 395960000807 AMP binding site [chemical binding]; other site 395960000808 CoA binding site [chemical binding]; other site 395960000809 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 395960000810 Fasciclin domain; Region: Fasciclin; pfam02469 395960000811 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 395960000812 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 395960000813 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 395960000814 Moco binding site; other site 395960000815 metal coordination site [ion binding]; other site 395960000816 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 395960000817 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 395960000818 E-class dimer interface [polypeptide binding]; other site 395960000819 P-class dimer interface [polypeptide binding]; other site 395960000820 active site 395960000821 Cu2+ binding site [ion binding]; other site 395960000822 Zn2+ binding site [ion binding]; other site 395960000823 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 395960000824 tartrate dehydrogenase; Region: TTC; TIGR02089 395960000825 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 395960000826 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 395960000827 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 395960000828 hypothetical protein; Provisional; Region: PRK05208 395960000829 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 395960000830 active site clefts [active] 395960000831 zinc binding site [ion binding]; other site 395960000832 dimer interface [polypeptide binding]; other site 395960000833 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 395960000834 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 395960000835 dimerization interface [polypeptide binding]; other site 395960000836 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960000837 dimer interface [polypeptide binding]; other site 395960000838 putative CheW interface [polypeptide binding]; other site 395960000839 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 395960000840 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 395960000841 substrate binding site [chemical binding]; other site 395960000842 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 395960000843 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 395960000844 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 395960000845 substrate binding site [chemical binding]; other site 395960000846 ligand binding site [chemical binding]; other site 395960000847 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 395960000848 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 395960000849 RimM N-terminal domain; Region: RimM; pfam01782 395960000850 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 395960000851 PRC-barrel domain; Region: PRC; pfam05239 395960000852 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 395960000853 signal recognition particle protein; Provisional; Region: PRK10867 395960000854 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 395960000855 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 395960000856 P loop; other site 395960000857 GTP binding site [chemical binding]; other site 395960000858 Signal peptide binding domain; Region: SRP_SPB; pfam02978 395960000859 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 395960000860 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 395960000861 Uncharacterized conserved protein [Function unknown]; Region: COG2968 395960000862 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 395960000863 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 395960000864 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 395960000865 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 395960000866 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 395960000867 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 395960000868 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 395960000869 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 395960000870 FeS/SAM binding site; other site 395960000871 Predicted methyltransferase [General function prediction only]; Region: COG3897 395960000872 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 395960000873 S-adenosylmethionine binding site [chemical binding]; other site 395960000874 EVE domain; Region: EVE; pfam01878 395960000875 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 395960000876 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 395960000877 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 395960000878 UGMP family protein; Validated; Region: PRK09604 395960000879 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 395960000880 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 395960000881 active site 395960000882 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 395960000883 HemY protein N-terminus; Region: HemY_N; pfam07219 395960000884 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 395960000885 dimerization interface [polypeptide binding]; other site 395960000886 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 395960000887 Ribulose bisphosphate carboxylase like proteins from phototrophic bacteria; Region: RLP_Photo; cd08208 395960000888 dimer interface [polypeptide binding]; other site 395960000889 active site 395960000890 catalytic residue [active] 395960000891 metal binding site [ion binding]; metal-binding site 395960000892 Uncharacterized conserved protein [Function unknown]; Region: COG0432 395960000893 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 395960000894 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 395960000895 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 395960000896 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 395960000897 catalytic residues [active] 395960000898 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 395960000899 Uncharacterized conserved protein [Function unknown]; Region: COG2835 395960000900 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 395960000901 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395960000902 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 395960000903 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 395960000904 active site 395960000905 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 395960000906 catalytic triad [active] 395960000907 dimer interface [polypeptide binding]; other site 395960000908 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395960000909 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395960000910 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960000911 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 395960000912 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395960000913 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 395960000914 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 395960000915 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395960000916 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 395960000917 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 395960000918 active site 395960000919 NTP binding site [chemical binding]; other site 395960000920 metal binding triad [ion binding]; metal-binding site 395960000921 antibiotic binding site [chemical binding]; other site 395960000922 Protein of unknown function DUF86; Region: DUF86; cl01031 395960000923 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 395960000924 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 395960000925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960000926 homodimer interface [polypeptide binding]; other site 395960000927 catalytic residue [active] 395960000928 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 395960000929 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 395960000930 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 395960000931 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 395960000932 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 395960000933 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 395960000934 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 395960000935 putative catalytic site [active] 395960000936 putative phosphate binding site [ion binding]; other site 395960000937 active site 395960000938 metal binding site A [ion binding]; metal-binding site 395960000939 DNA binding site [nucleotide binding] 395960000940 putative AP binding site [nucleotide binding]; other site 395960000941 putative metal binding site B [ion binding]; other site 395960000942 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960000943 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 395960000944 ligand binding site [chemical binding]; other site 395960000945 flexible hinge region; other site 395960000946 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395960000947 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 395960000948 active site 395960000949 phosphorylation site [posttranslational modification] 395960000950 intermolecular recognition site; other site 395960000951 dimerization interface [polypeptide binding]; other site 395960000952 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 395960000953 DNA binding site [nucleotide binding] 395960000954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 395960000955 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 395960000956 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395960000957 catalytic residue [active] 395960000958 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 395960000959 dimerization interface [polypeptide binding]; other site 395960000960 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960000961 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960000962 metal binding site [ion binding]; metal-binding site 395960000963 active site 395960000964 I-site; other site 395960000965 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 395960000966 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 395960000967 HIGH motif; other site 395960000968 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 395960000969 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395960000970 active site 395960000971 KMSKS motif; other site 395960000972 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 395960000973 tRNA binding surface [nucleotide binding]; other site 395960000974 Lipopolysaccharide-assembly; Region: LptE; cl01125 395960000975 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 395960000976 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 395960000977 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 395960000978 ParB-like nuclease domain; Region: ParB; smart00470 395960000979 KorB domain; Region: KorB; pfam08535 395960000980 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395960000981 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 395960000982 P-loop; other site 395960000983 Magnesium ion binding site [ion binding]; other site 395960000984 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 395960000985 Magnesium ion binding site [ion binding]; other site 395960000986 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 395960000987 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 395960000988 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 395960000989 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 395960000990 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 395960000991 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 395960000992 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 395960000993 trmE is a tRNA modification GTPase; Region: trmE; cd04164 395960000994 G1 box; other site 395960000995 GTP/Mg2+ binding site [chemical binding]; other site 395960000996 Switch I region; other site 395960000997 G2 box; other site 395960000998 Switch II region; other site 395960000999 G3 box; other site 395960001000 G4 box; other site 395960001001 G5 box; other site 395960001002 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 395960001003 transcription termination factor Rho; Provisional; Region: rho; PRK09376 395960001004 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 395960001005 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 395960001006 RNA binding site [nucleotide binding]; other site 395960001007 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 395960001008 multimer interface [polypeptide binding]; other site 395960001009 Walker A motif; other site 395960001010 ATP binding site [chemical binding]; other site 395960001011 Walker B motif; other site 395960001012 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 395960001013 PEP synthetase regulatory protein; Provisional; Region: PRK05339 395960001014 Maf-like protein; Region: Maf; pfam02545 395960001015 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 395960001016 active site 395960001017 dimer interface [polypeptide binding]; other site 395960001018 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 395960001019 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 395960001020 CoA-binding site [chemical binding]; other site 395960001021 ATP-binding [chemical binding]; other site 395960001022 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 395960001023 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 395960001024 active site 395960001025 catalytic site [active] 395960001026 substrate binding site [chemical binding]; other site 395960001027 preprotein translocase subunit SecB; Validated; Region: PRK05751 395960001028 SecA binding site; other site 395960001029 Preprotein binding site; other site 395960001030 Tim44-like domain; Region: Tim44; pfam04280 395960001031 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 395960001032 MltA specific insert domain; Region: MltA; smart00925 395960001033 3D domain; Region: 3D; pfam06725 395960001034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 395960001035 Smr domain; Region: Smr; pfam01713 395960001036 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 395960001037 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 395960001038 Walker A motif; other site 395960001039 ATP binding site [chemical binding]; other site 395960001040 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 395960001041 Walker B motif; other site 395960001042 arginine finger; other site 395960001043 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 395960001044 hypothetical protein; Provisional; Region: PRK00944 395960001045 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 395960001046 active site 395960001047 HslU subunit interaction site [polypeptide binding]; other site 395960001048 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 395960001049 putative active site pocket [active] 395960001050 4-fold oligomerization interface [polypeptide binding]; other site 395960001051 metal binding residues [ion binding]; metal-binding site 395960001052 3-fold/trimer interface [polypeptide binding]; other site 395960001053 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 395960001054 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 395960001055 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 395960001056 putative active site [active] 395960001057 oxyanion strand; other site 395960001058 catalytic triad [active] 395960001059 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 395960001060 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 395960001061 catalytic residues [active] 395960001062 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 395960001063 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 395960001064 substrate binding site [chemical binding]; other site 395960001065 glutamase interaction surface [polypeptide binding]; other site 395960001066 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 395960001067 metal binding site [ion binding]; metal-binding site 395960001068 pantothenate kinase; Provisional; Region: PRK05439 395960001069 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 395960001070 ATP-binding site [chemical binding]; other site 395960001071 CoA-binding site [chemical binding]; other site 395960001072 Mg2+-binding site [ion binding]; other site 395960001073 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 395960001074 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 395960001075 dimer interface [polypeptide binding]; other site 395960001076 phosphorylation site [posttranslational modification] 395960001077 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 395960001078 ATP binding site [chemical binding]; other site 395960001079 Mg2+ binding site [ion binding]; other site 395960001080 G-X-G motif; other site 395960001081 Response regulator receiver domain; Region: Response_reg; pfam00072 395960001082 Response regulator receiver domain; Region: Response_reg; pfam00072 395960001083 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 395960001084 active site 395960001085 phosphorylation site [posttranslational modification] 395960001086 intermolecular recognition site; other site 395960001087 dimerization interface [polypeptide binding]; other site 395960001088 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 395960001089 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 395960001090 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 395960001091 Walker A motif; other site 395960001092 ATP binding site [chemical binding]; other site 395960001093 Walker B motif; other site 395960001094 arginine finger; other site 395960001095 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 395960001096 Autoinducer synthetase; Region: Autoind_synth; cl17404 395960001097 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395960001098 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 395960001099 DNA binding residues [nucleotide binding] 395960001100 dimerization interface [polypeptide binding]; other site 395960001101 glutathione synthetase; Provisional; Region: PRK05246 395960001102 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 395960001103 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 395960001104 hypothetical protein; Reviewed; Region: PRK12497 395960001105 Predicted methyltransferases [General function prediction only]; Region: COG0313 395960001106 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 395960001107 putative SAM binding site [chemical binding]; other site 395960001108 putative homodimer interface [polypeptide binding]; other site 395960001109 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960001110 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 395960001111 putative ligand binding site [chemical binding]; other site 395960001112 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395960001113 Predicted transcriptional regulators [Transcription]; Region: COG1733 395960001114 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 395960001115 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 395960001116 HemN C-terminal domain; Region: HemN_C; pfam06969 395960001117 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 395960001118 active site 395960001119 dimerization interface [polypeptide binding]; other site 395960001120 ribonuclease PH; Reviewed; Region: rph; PRK00173 395960001121 Ribonuclease PH; Region: RNase_PH_bact; cd11362 395960001122 hexamer interface [polypeptide binding]; other site 395960001123 active site 395960001124 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 395960001125 heat shock protein GrpE; Provisional; Region: PRK14141 395960001126 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 395960001127 dimer interface [polypeptide binding]; other site 395960001128 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 395960001129 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 395960001130 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 395960001131 nucleotide binding site [chemical binding]; other site 395960001132 NEF interaction site [polypeptide binding]; other site 395960001133 SBD interface [polypeptide binding]; other site 395960001134 chaperone protein DnaJ; Provisional; Region: PRK10767 395960001135 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 395960001136 HSP70 interaction site [polypeptide binding]; other site 395960001137 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 395960001138 substrate binding site [polypeptide binding]; other site 395960001139 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 395960001140 Zn binding sites [ion binding]; other site 395960001141 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 395960001142 dimer interface [polypeptide binding]; other site 395960001143 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 395960001144 S-adenosylmethionine binding site [chemical binding]; other site 395960001145 Predicted flavoprotein [General function prediction only]; Region: COG0431 395960001146 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395960001147 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 395960001148 active site 395960001149 dimer interface [polypeptide binding]; other site 395960001150 Uncharacterized conserved protein [Function unknown]; Region: COG5470 395960001151 dihydrodipicolinate reductase; Provisional; Region: PRK00048 395960001152 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 395960001153 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 395960001154 phosphoglyceromutase; Provisional; Region: PRK05434 395960001155 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 395960001156 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395960001157 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 395960001158 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 395960001159 DNA binding site [nucleotide binding] 395960001160 active site 395960001161 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 395960001162 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 395960001163 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395960001164 minor groove reading motif; other site 395960001165 helix-hairpin-helix signature motif; other site 395960001166 substrate binding pocket [chemical binding]; other site 395960001167 active site 395960001168 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 395960001169 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 395960001170 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 395960001171 CysZ-like protein; Reviewed; Region: PRK12768 395960001172 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 395960001173 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 395960001174 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395960001175 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 395960001176 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 395960001177 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 395960001178 cofactor binding site; other site 395960001179 DNA binding site [nucleotide binding] 395960001180 substrate interaction site [chemical binding]; other site 395960001181 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 395960001182 additional DNA contacts [nucleotide binding]; other site 395960001183 mismatch recognition site; other site 395960001184 active site 395960001185 zinc binding site [ion binding]; other site 395960001186 DNA intercalation site [nucleotide binding]; other site 395960001187 GTP-binding protein LepA; Provisional; Region: PRK05433 395960001188 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 395960001189 G1 box; other site 395960001190 putative GEF interaction site [polypeptide binding]; other site 395960001191 GTP/Mg2+ binding site [chemical binding]; other site 395960001192 Switch I region; other site 395960001193 G2 box; other site 395960001194 G3 box; other site 395960001195 Switch II region; other site 395960001196 G4 box; other site 395960001197 G5 box; other site 395960001198 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 395960001199 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 395960001200 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 395960001201 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 395960001202 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 395960001203 dimerization domain swap beta strand [polypeptide binding]; other site 395960001204 regulatory protein interface [polypeptide binding]; other site 395960001205 active site 395960001206 regulatory phosphorylation site [posttranslational modification]; other site 395960001207 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 395960001208 active pocket/dimerization site; other site 395960001209 active site 395960001210 phosphorylation site [posttranslational modification] 395960001211 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 395960001212 Hpr binding site; other site 395960001213 active site 395960001214 homohexamer subunit interaction site [polypeptide binding]; other site 395960001215 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 395960001216 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 395960001217 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960001218 HAMP domain; Region: HAMP; pfam00672 395960001219 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 395960001220 dimer interface [polypeptide binding]; other site 395960001221 phosphorylation site [posttranslational modification] 395960001222 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 395960001223 ATP binding site [chemical binding]; other site 395960001224 Mg2+ binding site [ion binding]; other site 395960001225 G-X-G motif; other site 395960001226 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395960001227 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 395960001228 active site 395960001229 phosphorylation site [posttranslational modification] 395960001230 intermolecular recognition site; other site 395960001231 dimerization interface [polypeptide binding]; other site 395960001232 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 395960001233 DNA binding site [nucleotide binding] 395960001234 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 395960001235 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 395960001236 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 395960001237 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 395960001238 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 395960001239 active site 395960001240 substrate-binding site [chemical binding]; other site 395960001241 metal-binding site [ion binding] 395960001242 ATP binding site [chemical binding]; other site 395960001243 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 395960001244 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 395960001245 putative active site [active] 395960001246 putative catalytic site [active] 395960001247 putative Mg binding site IVb [ion binding]; other site 395960001248 putative phosphate binding site [ion binding]; other site 395960001249 putative DNA binding site [nucleotide binding]; other site 395960001250 putative Mg binding site IVa [ion binding]; other site 395960001251 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395960001252 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 395960001253 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 395960001254 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 395960001255 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960001256 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 395960001257 DNA binding residues [nucleotide binding] 395960001258 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 395960001259 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 395960001260 RNA binding surface [nucleotide binding]; other site 395960001261 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 395960001262 active site 395960001263 PAS domain; Region: PAS_9; pfam13426 395960001264 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395960001265 PAS domain; Region: PAS_9; pfam13426 395960001266 PAS fold; Region: PAS_3; pfam08447 395960001267 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960001268 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960001269 metal binding site [ion binding]; metal-binding site 395960001270 active site 395960001271 I-site; other site 395960001272 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 395960001273 methionine gamma-lyase; Provisional; Region: PRK07503 395960001274 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 395960001275 homodimer interface [polypeptide binding]; other site 395960001276 substrate-cofactor binding pocket; other site 395960001277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960001278 catalytic residue [active] 395960001279 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 395960001280 dimerization interface [polypeptide binding]; other site 395960001281 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395960001282 putative DNA binding site [nucleotide binding]; other site 395960001283 putative Zn2+ binding site [ion binding]; other site 395960001284 AsnC family; Region: AsnC_trans_reg; pfam01037 395960001285 thioredoxin 2; Provisional; Region: PRK10996 395960001286 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 395960001287 catalytic residues [active] 395960001288 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 395960001289 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 395960001290 putative NAD(P) binding site [chemical binding]; other site 395960001291 putative substrate binding site [chemical binding]; other site 395960001292 catalytic Zn binding site [ion binding]; other site 395960001293 structural Zn binding site [ion binding]; other site 395960001294 ChaB; Region: ChaB; pfam06150 395960001295 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 395960001296 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 395960001297 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 395960001298 Ligand Binding Site [chemical binding]; other site 395960001299 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 395960001300 alpha-galactosidase; Provisional; Region: PRK15076 395960001301 NAD binding site [chemical binding]; other site 395960001302 sugar binding site [chemical binding]; other site 395960001303 divalent metal binding site [ion binding]; other site 395960001304 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 395960001305 dimer interface [polypeptide binding]; other site 395960001306 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 395960001307 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 395960001308 putative substrate binding site [chemical binding]; other site 395960001309 putative ATP binding site [chemical binding]; other site 395960001310 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 395960001311 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 395960001312 putative molybdopterin cofactor binding site [chemical binding]; other site 395960001313 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 395960001314 putative molybdopterin cofactor binding site; other site 395960001315 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 395960001316 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 395960001317 ligand binding site; other site 395960001318 oligomer interface; other site 395960001319 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 395960001320 dimer interface [polypeptide binding]; other site 395960001321 N-terminal domain interface [polypeptide binding]; other site 395960001322 sulfate 1 binding site; other site 395960001323 glycogen synthase; Provisional; Region: PRK14099 395960001324 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 395960001325 ADP-binding pocket [chemical binding]; other site 395960001326 homodimer interface [polypeptide binding]; other site 395960001327 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 395960001328 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 395960001329 substrate binding site [chemical binding]; other site 395960001330 oxyanion hole (OAH) forming residues; other site 395960001331 trimer interface [polypeptide binding]; other site 395960001332 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 395960001333 hypothetical protein; Reviewed; Region: PRK00024 395960001334 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 395960001335 MPN+ (JAMM) motif; other site 395960001336 Zinc-binding site [ion binding]; other site 395960001337 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 395960001338 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 395960001339 putative DNA binding site [nucleotide binding]; other site 395960001340 putative homodimer interface [polypeptide binding]; other site 395960001341 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 395960001342 active site 395960001343 potassium/proton antiporter; Reviewed; Region: PRK05326 395960001344 Transporter associated domain; Region: CorC_HlyC; smart01091 395960001345 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 395960001346 PAS fold; Region: PAS_7; pfam12860 395960001347 PAS domain S-box; Region: sensory_box; TIGR00229 395960001348 PAS domain; Region: PAS; smart00091 395960001349 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960001350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960001351 metal binding site [ion binding]; metal-binding site 395960001352 active site 395960001353 I-site; other site 395960001354 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 395960001355 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 395960001356 Alkaline phosphatase homologues; Region: alkPPc; smart00098 395960001357 active site 395960001358 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 395960001359 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 395960001360 argininosuccinate synthase; Provisional; Region: PRK13820 395960001361 ANP binding site [chemical binding]; other site 395960001362 Substrate Binding Site II [chemical binding]; other site 395960001363 Substrate Binding Site I [chemical binding]; other site 395960001364 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 395960001365 active site 395960001366 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 395960001367 HD domain; Region: HD_3; pfam13023 395960001368 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 395960001369 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 395960001370 FeS/SAM binding site; other site 395960001371 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 395960001372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960001373 short chain dehydrogenase; Provisional; Region: PRK07677 395960001374 NAD(P) binding site [chemical binding]; other site 395960001375 active site 395960001376 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395960001377 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 395960001378 NAD(P) binding site [chemical binding]; other site 395960001379 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 395960001380 hydroxyglutarate oxidase; Provisional; Region: PRK11728 395960001381 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960001382 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960001383 Uncharacterized conserved protein [Function unknown]; Region: COG3339 395960001384 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 395960001385 aromatic arch; other site 395960001386 DCoH dimer interaction site [polypeptide binding]; other site 395960001387 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 395960001388 DCoH tetramer interaction site [polypeptide binding]; other site 395960001389 substrate binding site [chemical binding]; other site 395960001390 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 395960001391 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 395960001392 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 395960001393 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 395960001394 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 395960001395 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 395960001396 N-terminal plug; other site 395960001397 ligand-binding site [chemical binding]; other site 395960001398 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 395960001399 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 395960001400 G1 box; other site 395960001401 putative GEF interaction site [polypeptide binding]; other site 395960001402 GTP/Mg2+ binding site [chemical binding]; other site 395960001403 Switch I region; other site 395960001404 G2 box; other site 395960001405 G3 box; other site 395960001406 Switch II region; other site 395960001407 G4 box; other site 395960001408 G5 box; other site 395960001409 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 395960001410 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 395960001411 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 395960001412 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395960001413 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 395960001414 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 395960001415 dimer interface [polypeptide binding]; other site 395960001416 substrate binding site [chemical binding]; other site 395960001417 metal binding sites [ion binding]; metal-binding site 395960001418 hypothetical protein; Provisional; Region: PRK08262 395960001419 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 395960001420 metal binding site [ion binding]; metal-binding site 395960001421 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 395960001422 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 395960001423 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 395960001424 homodimer interface [polypeptide binding]; other site 395960001425 NADP binding site [chemical binding]; other site 395960001426 substrate binding site [chemical binding]; other site 395960001427 hypothetical protein; Validated; Region: PRK01310 395960001428 enoyl-CoA hydratase; Provisional; Region: PRK06210 395960001429 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 395960001430 substrate binding site [chemical binding]; other site 395960001431 oxyanion hole (OAH) forming residues; other site 395960001432 trimer interface [polypeptide binding]; other site 395960001433 SnoaL-like domain; Region: SnoaL_2; pfam12680 395960001434 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 395960001435 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 395960001436 catalytic triad [active] 395960001437 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 395960001438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960001439 NAD(P) binding site [chemical binding]; other site 395960001440 active site 395960001441 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 395960001442 putative metal binding site [ion binding]; other site 395960001443 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 395960001444 Cytochrome P450; Region: p450; cl12078 395960001445 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395960001446 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 395960001447 dimerization interface [polypeptide binding]; other site 395960001448 ligand binding site [chemical binding]; other site 395960001449 NADP binding site [chemical binding]; other site 395960001450 catalytic site [active] 395960001451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 395960001452 Bacterial SH3 domain; Region: SH3_4; pfam06347 395960001453 Bacterial SH3 domain; Region: SH3_4; pfam06347 395960001454 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395960001455 metal binding site 2 [ion binding]; metal-binding site 395960001456 putative DNA binding helix; other site 395960001457 metal binding site 1 [ion binding]; metal-binding site 395960001458 dimer interface [polypeptide binding]; other site 395960001459 structural Zn2+ binding site [ion binding]; other site 395960001460 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 395960001461 active site 1 [active] 395960001462 dimer interface [polypeptide binding]; other site 395960001463 active site 2 [active] 395960001464 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 395960001465 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 395960001466 dimer interface [polypeptide binding]; other site 395960001467 active site 395960001468 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 395960001469 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 395960001470 NAD binding site [chemical binding]; other site 395960001471 homotetramer interface [polypeptide binding]; other site 395960001472 homodimer interface [polypeptide binding]; other site 395960001473 substrate binding site [chemical binding]; other site 395960001474 active site 395960001475 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 395960001476 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 395960001477 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 395960001478 dimer interface [polypeptide binding]; other site 395960001479 active site 395960001480 heme binding site [chemical binding]; other site 395960001481 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 395960001482 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 395960001483 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960001484 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 395960001485 dimerization interface [polypeptide binding]; other site 395960001486 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 395960001487 PAS domain; Region: PAS_9; pfam13426 395960001488 putative active site [active] 395960001489 heme pocket [chemical binding]; other site 395960001490 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395960001491 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 395960001492 putative active site [active] 395960001493 heme pocket [chemical binding]; other site 395960001494 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 395960001495 putative active site [active] 395960001496 heme pocket [chemical binding]; other site 395960001497 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960001498 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960001499 dimer interface [polypeptide binding]; other site 395960001500 putative CheW interface [polypeptide binding]; other site 395960001501 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 395960001502 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 395960001503 RNase E interface [polypeptide binding]; other site 395960001504 trimer interface [polypeptide binding]; other site 395960001505 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 395960001506 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 395960001507 RNase E interface [polypeptide binding]; other site 395960001508 trimer interface [polypeptide binding]; other site 395960001509 active site 395960001510 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 395960001511 putative nucleic acid binding region [nucleotide binding]; other site 395960001512 G-X-X-G motif; other site 395960001513 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 395960001514 RNA binding site [nucleotide binding]; other site 395960001515 domain interface; other site 395960001516 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 395960001517 16S/18S rRNA binding site [nucleotide binding]; other site 395960001518 S13e-L30e interaction site [polypeptide binding]; other site 395960001519 25S rRNA binding site [nucleotide binding]; other site 395960001520 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 395960001521 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 395960001522 RNA binding site [nucleotide binding]; other site 395960001523 active site 395960001524 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 395960001525 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 395960001526 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 395960001527 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 395960001528 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 395960001529 G1 box; other site 395960001530 putative GEF interaction site [polypeptide binding]; other site 395960001531 GTP/Mg2+ binding site [chemical binding]; other site 395960001532 Switch I region; other site 395960001533 G2 box; other site 395960001534 G3 box; other site 395960001535 Switch II region; other site 395960001536 G4 box; other site 395960001537 G5 box; other site 395960001538 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 395960001539 Translation-initiation factor 2; Region: IF-2; pfam11987 395960001540 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 395960001541 hypothetical protein; Provisional; Region: PRK09190 395960001542 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 395960001543 putative RNA binding cleft [nucleotide binding]; other site 395960001544 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 395960001545 NusA N-terminal domain; Region: NusA_N; pfam08529 395960001546 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 395960001547 RNA binding site [nucleotide binding]; other site 395960001548 homodimer interface [polypeptide binding]; other site 395960001549 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 395960001550 G-X-X-G motif; other site 395960001551 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 395960001552 G-X-X-G motif; other site 395960001553 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 395960001554 ribosome maturation protein RimP; Reviewed; Region: PRK00092 395960001555 Sm and related proteins; Region: Sm_like; cl00259 395960001556 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 395960001557 putative oligomer interface [polypeptide binding]; other site 395960001558 putative RNA binding site [nucleotide binding]; other site 395960001559 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 395960001560 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 395960001561 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 395960001562 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395960001563 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 395960001564 non-specific DNA binding site [nucleotide binding]; other site 395960001565 salt bridge; other site 395960001566 sequence-specific DNA binding site [nucleotide binding]; other site 395960001567 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 395960001568 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 395960001569 putative active site [active] 395960001570 catalytic triad [active] 395960001571 putative dimer interface [polypeptide binding]; other site 395960001572 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 395960001573 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 395960001574 Transporter associated domain; Region: CorC_HlyC; smart01091 395960001575 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 395960001576 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 395960001577 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl17245 395960001578 PhoH-like protein; Region: PhoH; pfam02562 395960001579 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 395960001580 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 395960001581 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 395960001582 FeS/SAM binding site; other site 395960001583 TRAM domain; Region: TRAM; cl01282 395960001584 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395960001585 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 395960001586 motif II; other site 395960001587 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395960001588 metal binding site 2 [ion binding]; metal-binding site 395960001589 putative DNA binding helix; other site 395960001590 metal binding site 1 [ion binding]; metal-binding site 395960001591 dimer interface [polypeptide binding]; other site 395960001592 structural Zn2+ binding site [ion binding]; other site 395960001593 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 395960001594 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960001595 Coenzyme A binding pocket [chemical binding]; other site 395960001596 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 395960001597 Glycoprotease family; Region: Peptidase_M22; pfam00814 395960001598 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 395960001599 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 395960001600 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 395960001601 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 395960001602 active site 395960001603 HIGH motif; other site 395960001604 dimer interface [polypeptide binding]; other site 395960001605 KMSKS motif; other site 395960001606 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 395960001607 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 395960001608 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 395960001609 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395960001610 substrate binding site [chemical binding]; other site 395960001611 ATP binding site [chemical binding]; other site 395960001612 AMP-binding domain protein; Validated; Region: PRK08315 395960001613 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960001614 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 395960001615 acyl-activating enzyme (AAE) consensus motif; other site 395960001616 putative AMP binding site [chemical binding]; other site 395960001617 putative active site [active] 395960001618 putative CoA binding site [chemical binding]; other site 395960001619 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 395960001620 Beta-lactamase; Region: Beta-lactamase; pfam00144 395960001621 succinic semialdehyde dehydrogenase; Region: PLN02278 395960001622 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395960001623 tetramerization interface [polypeptide binding]; other site 395960001624 NAD(P) binding site [chemical binding]; other site 395960001625 catalytic residues [active] 395960001626 Uncharacterized conserved protein [Function unknown]; Region: COG5361 395960001627 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 395960001628 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 395960001629 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395960001630 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 395960001631 putative ligand binding site [chemical binding]; other site 395960001632 NAD binding site [chemical binding]; other site 395960001633 catalytic site [active] 395960001634 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960001635 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 395960001636 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960001637 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960001638 Walker A/P-loop; other site 395960001639 ATP binding site [chemical binding]; other site 395960001640 Q-loop/lid; other site 395960001641 ABC transporter signature motif; other site 395960001642 Walker B; other site 395960001643 D-loop; other site 395960001644 H-loop/switch region; other site 395960001645 NMT1/THI5 like; Region: NMT1; pfam09084 395960001646 Creatinine amidohydrolase; Region: Creatininase; pfam02633 395960001647 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960001648 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 395960001649 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 395960001650 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 395960001651 active site 395960001652 FMN binding site [chemical binding]; other site 395960001653 substrate binding site [chemical binding]; other site 395960001654 3Fe-4S cluster binding site [ion binding]; other site 395960001655 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 395960001656 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395960001657 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 395960001658 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 395960001659 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 395960001660 Predicted membrane protein [Function unknown]; Region: COG2261 395960001661 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 395960001662 classical (c) SDRs; Region: SDR_c; cd05233 395960001663 NAD(P) binding site [chemical binding]; other site 395960001664 active site 395960001665 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960001666 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 395960001667 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960001668 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960001669 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960001670 active site 395960001671 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 395960001672 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 395960001673 substrate binding site [chemical binding]; other site 395960001674 oxyanion hole (OAH) forming residues; other site 395960001675 trimer interface [polypeptide binding]; other site 395960001676 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 395960001677 active site 395960001678 metal binding site [ion binding]; metal-binding site 395960001679 enoyl-CoA hydratase; Provisional; Region: PRK06688 395960001680 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 395960001681 substrate binding site [chemical binding]; other site 395960001682 oxyanion hole (OAH) forming residues; other site 395960001683 trimer interface [polypeptide binding]; other site 395960001684 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960001685 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 395960001686 putative ligand binding site [chemical binding]; other site 395960001687 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 395960001688 Peptidase family M48; Region: Peptidase_M48; cl12018 395960001689 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 395960001690 Ferredoxin [Energy production and conversion]; Region: COG1146 395960001691 4Fe-4S binding domain; Region: Fer4; pfam00037 395960001692 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 395960001693 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 395960001694 RNA binding surface [nucleotide binding]; other site 395960001695 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 395960001696 DEAD/DEAH box helicase; Region: DEAD; pfam00270 395960001697 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 395960001698 nucleotide binding region [chemical binding]; other site 395960001699 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 395960001700 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 395960001701 HAMP domain; Region: HAMP; pfam00672 395960001702 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395960001703 PAS domain; Region: PAS_9; pfam13426 395960001704 putative active site [active] 395960001705 heme pocket [chemical binding]; other site 395960001706 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395960001707 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 395960001708 putative active site [active] 395960001709 heme pocket [chemical binding]; other site 395960001710 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 395960001711 dimer interface [polypeptide binding]; other site 395960001712 phosphorylation site [posttranslational modification] 395960001713 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 395960001714 ATP binding site [chemical binding]; other site 395960001715 Mg2+ binding site [ion binding]; other site 395960001716 G-X-G motif; other site 395960001717 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960001718 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 395960001719 active site 395960001720 phosphorylation site [posttranslational modification] 395960001721 intermolecular recognition site; other site 395960001722 dimerization interface [polypeptide binding]; other site 395960001723 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 395960001724 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 395960001725 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 395960001726 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 395960001727 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 395960001728 metal ion-dependent adhesion site (MIDAS); other site 395960001729 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960001730 Coenzyme A binding pocket [chemical binding]; other site 395960001731 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 395960001732 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 395960001733 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 395960001734 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 395960001735 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 395960001736 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 395960001737 HSP70 interaction site [polypeptide binding]; other site 395960001738 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 395960001739 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 395960001740 Domain of unknown function DUF21; Region: DUF21; pfam01595 395960001741 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 395960001742 Transporter associated domain; Region: CorC_HlyC; smart01091 395960001743 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 395960001744 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 395960001745 active site 395960001746 dimer interface [polypeptide binding]; other site 395960001747 metal binding site [ion binding]; metal-binding site 395960001748 shikimate kinase; Provisional; Region: PRK13946 395960001749 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 395960001750 ADP binding site [chemical binding]; other site 395960001751 magnesium binding site [ion binding]; other site 395960001752 putative shikimate binding site; other site 395960001753 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 395960001754 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 395960001755 active site 395960001756 DNA binding site [nucleotide binding] 395960001757 Int/Topo IB signature motif; other site 395960001758 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 395960001759 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 395960001760 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 395960001761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 395960001762 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 395960001763 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 395960001764 SEC-C motif; Region: SEC-C; pfam02810 395960001765 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 395960001766 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 395960001767 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 395960001768 MutS domain I; Region: MutS_I; pfam01624 395960001769 MutS domain II; Region: MutS_II; pfam05188 395960001770 MutS domain III; Region: MutS_III; pfam05192 395960001771 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 395960001772 Walker A/P-loop; other site 395960001773 ATP binding site [chemical binding]; other site 395960001774 Q-loop/lid; other site 395960001775 ABC transporter signature motif; other site 395960001776 Walker B; other site 395960001777 D-loop; other site 395960001778 H-loop/switch region; other site 395960001779 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 395960001780 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 395960001781 dimer interface [polypeptide binding]; other site 395960001782 active site 395960001783 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395960001784 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 395960001785 putative substrate translocation pore; other site 395960001786 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 395960001787 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960001788 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960001789 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395960001790 MarR family; Region: MarR; pfam01047 395960001791 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395960001792 metal binding site 2 [ion binding]; metal-binding site 395960001793 putative DNA binding helix; other site 395960001794 metal binding site 1 [ion binding]; metal-binding site 395960001795 dimer interface [polypeptide binding]; other site 395960001796 structural Zn2+ binding site [ion binding]; other site 395960001797 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395960001798 EamA-like transporter family; Region: EamA; pfam00892 395960001799 EamA-like transporter family; Region: EamA; pfam00892 395960001800 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 395960001801 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 395960001802 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 395960001803 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 395960001804 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960001805 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960001806 metal binding site [ion binding]; metal-binding site 395960001807 active site 395960001808 I-site; other site 395960001809 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 395960001810 Sensors of blue-light using FAD; Region: BLUF; pfam04940 395960001811 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 395960001812 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 395960001813 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 395960001814 substrate binding pocket [chemical binding]; other site 395960001815 chain length determination region; other site 395960001816 substrate-Mg2+ binding site; other site 395960001817 catalytic residues [active] 395960001818 aspartate-rich region 1; other site 395960001819 active site lid residues [active] 395960001820 aspartate-rich region 2; other site 395960001821 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 395960001822 Transglycosylase; Region: Transgly; cl17702 395960001823 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 395960001824 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960001825 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960001826 metal binding site [ion binding]; metal-binding site 395960001827 active site 395960001828 I-site; other site 395960001829 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 395960001830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 395960001831 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 395960001832 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 395960001833 putative acyltransferase; Provisional; Region: PRK05790 395960001834 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 395960001835 dimer interface [polypeptide binding]; other site 395960001836 active site 395960001837 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 395960001838 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 395960001839 NAD(P) binding site [chemical binding]; other site 395960001840 homotetramer interface [polypeptide binding]; other site 395960001841 homodimer interface [polypeptide binding]; other site 395960001842 active site 395960001843 EamA-like transporter family; Region: EamA; pfam00892 395960001844 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 395960001845 catalytic motif [active] 395960001846 Catalytic residue [active] 395960001847 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 395960001848 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 395960001849 ATP binding site [chemical binding]; other site 395960001850 putative Mg++ binding site [ion binding]; other site 395960001851 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 395960001852 nucleotide binding region [chemical binding]; other site 395960001853 ATP-binding site [chemical binding]; other site 395960001854 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 395960001855 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 395960001856 Predicted membrane protein [Function unknown]; Region: COG4763 395960001857 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395960001858 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 395960001859 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 395960001860 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 395960001861 Porin subfamily; Region: Porin_2; pfam02530 395960001862 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395960001863 MarR family; Region: MarR_2; pfam12802 395960001864 MarR family; Region: MarR_2; cl17246 395960001865 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 395960001866 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 395960001867 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 395960001868 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 395960001869 LrgA family; Region: LrgA; pfam03788 395960001870 LrgB-like family; Region: LrgB; pfam04172 395960001871 Predicted esterase [General function prediction only]; Region: COG0400 395960001872 putative hydrolase; Provisional; Region: PRK11460 395960001873 Domain of unknown function DUF20; Region: UPF0118; pfam01594 395960001874 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395960001875 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 395960001876 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 395960001877 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 395960001878 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960001879 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 395960001880 DNA binding residues [nucleotide binding] 395960001881 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 395960001882 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960001883 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 395960001884 putative dimerization interface [polypeptide binding]; other site 395960001885 putative substrate binding pocket [chemical binding]; other site 395960001886 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 395960001887 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 395960001888 hypothetical protein; Provisional; Region: PRK11171 395960001889 Cupin domain; Region: Cupin_2; pfam07883 395960001890 Cupin domain; Region: Cupin_2; pfam07883 395960001891 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 395960001892 ureidoglycolate hydrolase; Provisional; Region: PRK03606 395960001893 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395960001894 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 395960001895 S-adenosylmethionine binding site [chemical binding]; other site 395960001896 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 395960001897 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 395960001898 active site 395960001899 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 395960001900 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 395960001901 dimer interface [polypeptide binding]; other site 395960001902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960001903 catalytic residue [active] 395960001904 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 395960001905 ATP binding site [chemical binding]; other site 395960001906 active site 395960001907 substrate binding site [chemical binding]; other site 395960001908 Pirin-related protein [General function prediction only]; Region: COG1741 395960001909 Pirin; Region: Pirin; pfam02678 395960001910 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 395960001911 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 395960001912 PAS domain; Region: PAS_9; pfam13426 395960001913 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395960001914 putative active site [active] 395960001915 heme pocket [chemical binding]; other site 395960001916 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 395960001917 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 395960001918 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 395960001919 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 395960001920 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395960001921 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395960001922 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960001923 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 395960001924 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 395960001925 metal ion-dependent adhesion site (MIDAS); other site 395960001926 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 395960001927 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 395960001928 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 395960001929 active site 395960001930 phosphorylation site [posttranslational modification] 395960001931 intermolecular recognition site; other site 395960001932 dimerization interface [polypeptide binding]; other site 395960001933 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 395960001934 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960001935 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 395960001936 dimer interface [polypeptide binding]; other site 395960001937 phosphorylation site [posttranslational modification] 395960001938 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 395960001939 ATP binding site [chemical binding]; other site 395960001940 Mg2+ binding site [ion binding]; other site 395960001941 G-X-G motif; other site 395960001942 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 395960001943 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 395960001944 Walker A/P-loop; other site 395960001945 ATP binding site [chemical binding]; other site 395960001946 Q-loop/lid; other site 395960001947 ABC transporter signature motif; other site 395960001948 Walker B; other site 395960001949 D-loop; other site 395960001950 H-loop/switch region; other site 395960001951 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395960001952 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 395960001953 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 395960001954 Protein of unknown function DUF45; Region: DUF45; pfam01863 395960001955 Transglycosylase; Region: Transgly; pfam00912 395960001956 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 395960001957 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 395960001958 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960001959 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960001960 putative ligand binding site [chemical binding]; other site 395960001961 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 395960001962 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 395960001963 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395960001964 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395960001965 putative active site [active] 395960001966 heme pocket [chemical binding]; other site 395960001967 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 395960001968 dimer interface [polypeptide binding]; other site 395960001969 phosphorylation site [posttranslational modification] 395960001970 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 395960001971 ATP binding site [chemical binding]; other site 395960001972 Mg2+ binding site [ion binding]; other site 395960001973 G-X-G motif; other site 395960001974 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960001975 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 395960001976 active site 395960001977 phosphorylation site [posttranslational modification] 395960001978 intermolecular recognition site; other site 395960001979 dimerization interface [polypeptide binding]; other site 395960001980 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 395960001981 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 395960001982 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 395960001983 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 395960001984 RNA binding site [nucleotide binding]; other site 395960001985 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 395960001986 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 395960001987 Chromate transporter; Region: Chromate_transp; pfam02417 395960001988 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 395960001989 short chain dehydrogenase; Provisional; Region: PRK06197 395960001990 putative NAD(P) binding site [chemical binding]; other site 395960001991 active site 395960001992 amino acid transporter; Region: 2A0306; TIGR00909 395960001993 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 395960001994 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960001995 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960001996 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 395960001997 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960001998 active site 395960001999 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 395960002000 C-terminal peptidase (prc); Region: prc; TIGR00225 395960002001 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 395960002002 protein binding site [polypeptide binding]; other site 395960002003 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 395960002004 Catalytic dyad [active] 395960002005 PII uridylyl-transferase; Provisional; Region: PRK05092 395960002006 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395960002007 metal binding triad; other site 395960002008 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395960002009 HD domain; Region: HD; pfam01966 395960002010 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 395960002011 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 395960002012 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 395960002013 heterotetramer interface [polypeptide binding]; other site 395960002014 active site pocket [active] 395960002015 cleavage site 395960002016 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 395960002017 active site 395960002018 8-oxo-dGMP binding site [chemical binding]; other site 395960002019 nudix motif; other site 395960002020 metal binding site [ion binding]; metal-binding site 395960002021 Transposase; Region: HTH_Tnp_1; cl17663 395960002022 Winged helix-turn helix; Region: HTH_29; pfam13551 395960002023 Homeodomain-like domain; Region: HTH_32; pfam13565 395960002024 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395960002025 Integrase core domain; Region: rve; pfam00665 395960002026 Integrase core domain; Region: rve_3; pfam13683 395960002027 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 395960002028 Methyltransferase domain; Region: Methyltransf_11; pfam08241 395960002029 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 395960002030 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395960002031 active site 395960002032 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 395960002033 GSH binding site [chemical binding]; other site 395960002034 catalytic residues [active] 395960002035 nitrilase; Region: PLN02798 395960002036 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 395960002037 putative active site [active] 395960002038 catalytic triad [active] 395960002039 dimer interface [polypeptide binding]; other site 395960002040 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 395960002041 Predicted membrane protein [Function unknown]; Region: COG2510 395960002042 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 395960002043 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 395960002044 S-adenosylmethionine binding site [chemical binding]; other site 395960002045 aspartate kinase; Reviewed; Region: PRK06635 395960002046 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 395960002047 putative nucleotide binding site [chemical binding]; other site 395960002048 putative catalytic residues [active] 395960002049 putative Mg ion binding site [ion binding]; other site 395960002050 putative aspartate binding site [chemical binding]; other site 395960002051 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 395960002052 putative allosteric regulatory site; other site 395960002053 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 395960002054 putative allosteric regulatory residue; other site 395960002055 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 395960002056 GAF domain; Region: GAF; pfam01590 395960002057 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 395960002058 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 395960002059 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 395960002060 peptide chain release factor 1; Validated; Region: prfA; PRK00591 395960002061 This domain is found in peptide chain release factors; Region: PCRF; smart00937 395960002062 RF-1 domain; Region: RF-1; pfam00472 395960002063 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 395960002064 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 395960002065 S-adenosylmethionine binding site [chemical binding]; other site 395960002066 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 395960002067 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395960002068 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 395960002069 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 395960002070 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 395960002071 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395960002072 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 395960002073 substrate binding site [chemical binding]; other site 395960002074 ATP binding site [chemical binding]; other site 395960002075 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 395960002076 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 395960002077 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 395960002078 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 395960002079 putative NADH binding site [chemical binding]; other site 395960002080 putative active site [active] 395960002081 nudix motif; other site 395960002082 putative metal binding site [ion binding]; other site 395960002083 HIT domain; Region: HIT; pfam01230 395960002084 nucleotide binding site/active site [active] 395960002085 HIT family signature motif; other site 395960002086 catalytic residue [active] 395960002087 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 395960002088 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 395960002089 Walker A motif; other site 395960002090 ATP binding site [chemical binding]; other site 395960002091 Walker B motif; other site 395960002092 arginine finger; other site 395960002093 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 395960002094 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 395960002095 hypothetical protein; Validated; Region: PRK00153 395960002096 recombination protein RecR; Reviewed; Region: recR; PRK00076 395960002097 RecR protein; Region: RecR; pfam02132 395960002098 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 395960002099 tetramer interface [polypeptide binding]; other site 395960002100 putative active site [active] 395960002101 putative metal-binding site [ion binding]; other site 395960002102 muropeptide transporter; Validated; Region: ampG; cl17669 395960002103 muropeptide transporter; Reviewed; Region: ampG; PRK11902 395960002104 RmuC family; Region: RmuC; pfam02646 395960002105 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 395960002106 active site 395960002107 catalytic residues [active] 395960002108 metal binding site [ion binding]; metal-binding site 395960002109 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 395960002110 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 395960002111 putative active site [active] 395960002112 substrate binding site [chemical binding]; other site 395960002113 putative cosubstrate binding site; other site 395960002114 catalytic site [active] 395960002115 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 395960002116 substrate binding site [chemical binding]; other site 395960002117 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 395960002118 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 395960002119 dimerization interface 3.5A [polypeptide binding]; other site 395960002120 active site 395960002121 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 395960002122 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 395960002123 metal binding site [ion binding]; metal-binding site 395960002124 dimer interface [polypeptide binding]; other site 395960002125 Predicted membrane protein [Function unknown]; Region: COG3152 395960002126 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 395960002127 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 395960002128 trimer interface [polypeptide binding]; other site 395960002129 active site 395960002130 substrate binding site [chemical binding]; other site 395960002131 CoA binding site [chemical binding]; other site 395960002132 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 395960002133 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 395960002134 motif II; other site 395960002135 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 395960002136 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 395960002137 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 395960002138 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 395960002139 feedback inhibition sensing region; other site 395960002140 homohexameric interface [polypeptide binding]; other site 395960002141 nucleotide binding site [chemical binding]; other site 395960002142 N-acetyl-L-glutamate binding site [chemical binding]; other site 395960002143 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 395960002144 G1 box; other site 395960002145 GTP/Mg2+ binding site [chemical binding]; other site 395960002146 Switch I region; other site 395960002147 G2 box; other site 395960002148 G3 box; other site 395960002149 Switch II region; other site 395960002150 G4 box; other site 395960002151 G5 box; other site 395960002152 membrane protein insertase; Provisional; Region: PRK01318 395960002153 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 395960002154 Ribonuclease P; Region: Ribonuclease_P; cl00457 395960002155 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 395960002156 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960002157 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 395960002158 ATP binding site [chemical binding]; other site 395960002159 Mg2+ binding site [ion binding]; other site 395960002160 G-X-G motif; other site 395960002161 Predicted transcriptional regulator [Transcription]; Region: COG2932 395960002162 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 395960002163 Catalytic site [active] 395960002164 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 395960002165 ParB-like nuclease domain; Region: ParBc; cl02129 395960002166 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 395960002167 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 395960002168 Penicillinase repressor; Region: Pencillinase_R; cl17580 395960002169 Integrase core domain; Region: rve; pfam00665 395960002170 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 395960002171 AAA domain; Region: AAA_22; pfam13401 395960002172 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 395960002173 DnaA box-binding interface [nucleotide binding]; other site 395960002174 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 395960002175 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 395960002176 DNA binding site [nucleotide binding] 395960002177 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 395960002178 Homeodomain-like domain; Region: HTH_23; cl17451 395960002179 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 395960002180 amidase catalytic site [active] 395960002181 Zn binding residues [ion binding]; other site 395960002182 substrate binding site [chemical binding]; other site 395960002183 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 395960002184 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 395960002185 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 395960002186 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 395960002187 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 395960002188 Terminase-like family; Region: Terminase_6; pfam03237 395960002189 Protein of unknown function (DUF935); Region: DUF935; pfam06074 395960002190 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 395960002191 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 395960002192 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 395960002193 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 395960002194 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 395960002195 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 395960002196 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 395960002197 Baseplate J-like protein; Region: Baseplate_J; cl01294 395960002198 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 395960002199 major tropism determinant; Region: mtd; PHA00653 395960002200 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 395960002201 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 395960002202 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 395960002203 Phage tail tube protein FII; Region: Phage_tube; cl01390 395960002204 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 395960002205 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 395960002206 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 395960002207 Phage Tail Protein X; Region: Phage_tail_X; cl02088 395960002208 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 395960002209 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 395960002210 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 395960002211 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 395960002212 DNA methylase; Region: N6_N4_Mtase; cl17433 395960002213 Eukaryotic translation initiation factor 4G1; Region: eIF_4G1; pfam12152 395960002214 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 395960002215 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 395960002216 RNA polymerase sigma factor; Provisional; Region: PRK12538 395960002217 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960002218 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 395960002219 DNA binding residues [nucleotide binding] 395960002220 flagellin; Provisional; Region: PRK12802 395960002221 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395960002222 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395960002223 flagellar capping protein; Reviewed; Region: fliD; PRK08032 395960002224 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 395960002225 Flagellar protein FliS; Region: FliS; cl00654 395960002226 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 395960002227 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 395960002228 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 395960002229 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 395960002230 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 395960002231 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 395960002232 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 395960002233 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08913 395960002234 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395960002235 enoyl-CoA hydratase; Provisional; Region: PRK05862 395960002236 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 395960002237 substrate binding site [chemical binding]; other site 395960002238 oxyanion hole (OAH) forming residues; other site 395960002239 trimer interface [polypeptide binding]; other site 395960002240 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 395960002241 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 395960002242 acyl-activating enzyme (AAE) consensus motif; other site 395960002243 putative AMP binding site [chemical binding]; other site 395960002244 putative active site [active] 395960002245 putative CoA binding site [chemical binding]; other site 395960002246 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 395960002247 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960002248 active site 395960002249 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 395960002250 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 395960002251 substrate binding site [chemical binding]; other site 395960002252 oxyanion hole (OAH) forming residues; other site 395960002253 trimer interface [polypeptide binding]; other site 395960002254 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 395960002255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960002256 NAD(P) binding site [chemical binding]; other site 395960002257 active site 395960002258 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395960002259 MarR family; Region: MarR_2; pfam12802 395960002260 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395960002261 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 395960002262 putative NAD(P) binding site [chemical binding]; other site 395960002263 structural Zn binding site [ion binding]; other site 395960002264 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 395960002265 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 395960002266 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 395960002267 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 395960002268 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 395960002269 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 395960002270 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 395960002271 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 395960002272 dimer interface [polypeptide binding]; other site 395960002273 acyl-activating enzyme (AAE) consensus motif; other site 395960002274 putative active site [active] 395960002275 putative AMP binding site [chemical binding]; other site 395960002276 putative CoA binding site [chemical binding]; other site 395960002277 chemical substrate binding site [chemical binding]; other site 395960002278 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 395960002279 Rrf2 family protein; Region: rrf2_super; TIGR00738 395960002280 Transcriptional regulator; Region: Rrf2; pfam02082 395960002281 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960002282 Coenzyme A binding pocket [chemical binding]; other site 395960002283 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960002284 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960002285 Walker A/P-loop; other site 395960002286 ATP binding site [chemical binding]; other site 395960002287 Q-loop/lid; other site 395960002288 ABC transporter signature motif; other site 395960002289 Walker B; other site 395960002290 D-loop; other site 395960002291 H-loop/switch region; other site 395960002292 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960002293 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960002294 TM-ABC transporter signature motif; other site 395960002295 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960002296 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960002297 Walker A/P-loop; other site 395960002298 ATP binding site [chemical binding]; other site 395960002299 Q-loop/lid; other site 395960002300 ABC transporter signature motif; other site 395960002301 Walker B; other site 395960002302 D-loop; other site 395960002303 H-loop/switch region; other site 395960002304 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960002305 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960002306 TM-ABC transporter signature motif; other site 395960002307 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960002308 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 395960002309 putative ligand binding site [chemical binding]; other site 395960002310 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 395960002311 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 395960002312 dimer interface [polypeptide binding]; other site 395960002313 acyl-activating enzyme (AAE) consensus motif; other site 395960002314 putative active site [active] 395960002315 putative AMP binding site [chemical binding]; other site 395960002316 putative CoA binding site [chemical binding]; other site 395960002317 chemical substrate binding site [chemical binding]; other site 395960002318 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 395960002319 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 395960002320 catalytic loop [active] 395960002321 iron binding site [ion binding]; other site 395960002322 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395960002323 4-hydroxybenzoyl-CoA reductase, alpha subunit; Region: 4hydrxCoA_A; TIGR03194 395960002324 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395960002325 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395960002326 4-hydroxybenzoyl-CoA reductase, beta subunit; Region: 4hydrxCoA_B; TIGR03195 395960002327 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 395960002328 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960002329 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 395960002330 ligand binding site [chemical binding]; other site 395960002331 flexible hinge region; other site 395960002332 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 395960002333 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 395960002334 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 395960002335 NAD binding site [chemical binding]; other site 395960002336 catalytic Zn binding site [ion binding]; other site 395960002337 substrate binding site [chemical binding]; other site 395960002338 structural Zn binding site [ion binding]; other site 395960002339 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395960002340 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 395960002341 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 395960002342 substrate binding site [chemical binding]; other site 395960002343 oxyanion hole (OAH) forming residues; other site 395960002344 trimer interface [polypeptide binding]; other site 395960002345 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 395960002346 substrate binding site [chemical binding]; other site 395960002347 trimer interface [polypeptide binding]; other site 395960002348 oxyanion hole (OAH) forming residues; other site 395960002349 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 395960002350 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional; Region: PRK12775 395960002351 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 395960002352 FAD binding pocket [chemical binding]; other site 395960002353 FAD binding motif [chemical binding]; other site 395960002354 phosphate binding motif [ion binding]; other site 395960002355 beta-alpha-beta structure motif; other site 395960002356 NAD binding pocket [chemical binding]; other site 395960002357 Iron coordination center [ion binding]; other site 395960002358 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395960002359 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 395960002360 diiron binding motif [ion binding]; other site 395960002361 hypothetical protein; Provisional; Region: PRK01254 395960002362 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 395960002363 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 395960002364 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960002365 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960002366 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960002367 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960002368 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 395960002369 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395960002370 Walker A/P-loop; other site 395960002371 ATP binding site [chemical binding]; other site 395960002372 Q-loop/lid; other site 395960002373 ABC transporter signature motif; other site 395960002374 Walker B; other site 395960002375 D-loop; other site 395960002376 H-loop/switch region; other site 395960002377 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960002378 Walker A/P-loop; other site 395960002379 ATP binding site [chemical binding]; other site 395960002380 Q-loop/lid; other site 395960002381 ABC transporter signature motif; other site 395960002382 Walker B; other site 395960002383 D-loop; other site 395960002384 H-loop/switch region; other site 395960002385 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395960002386 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 395960002387 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395960002388 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 395960002389 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395960002390 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395960002391 Bacterial transcriptional regulator; Region: IclR; pfam01614 395960002392 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 395960002393 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 395960002394 active site 395960002395 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 395960002396 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 395960002397 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 395960002398 active site 395960002399 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960002400 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 395960002401 Walker A/P-loop; other site 395960002402 ATP binding site [chemical binding]; other site 395960002403 Q-loop/lid; other site 395960002404 ABC transporter signature motif; other site 395960002405 Walker B; other site 395960002406 D-loop; other site 395960002407 H-loop/switch region; other site 395960002408 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 395960002409 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960002410 Walker A/P-loop; other site 395960002411 ATP binding site [chemical binding]; other site 395960002412 Q-loop/lid; other site 395960002413 ABC transporter signature motif; other site 395960002414 Walker B; other site 395960002415 D-loop; other site 395960002416 H-loop/switch region; other site 395960002417 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960002418 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 395960002419 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 395960002420 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 395960002421 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 395960002422 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 395960002423 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395960002424 DNA-binding site [nucleotide binding]; DNA binding site 395960002425 UTRA domain; Region: UTRA; pfam07702 395960002426 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 395960002427 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 395960002428 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 395960002429 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 395960002430 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 395960002431 membrane-bound complex binding site; other site 395960002432 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 395960002433 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 395960002434 Walker A/P-loop; other site 395960002435 ATP binding site [chemical binding]; other site 395960002436 Q-loop/lid; other site 395960002437 ABC transporter signature motif; other site 395960002438 Walker B; other site 395960002439 D-loop; other site 395960002440 H-loop/switch region; other site 395960002441 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 395960002442 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 395960002443 trimer interface [polypeptide binding]; other site 395960002444 active site 395960002445 substrate binding site [chemical binding]; other site 395960002446 CoA binding site [chemical binding]; other site 395960002447 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 395960002448 phosphonate metabolism protein PhnM; Region: phosphono_phnM; TIGR02318 395960002449 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 395960002450 active site 395960002451 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 395960002452 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 395960002453 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 395960002454 GIY-YIG motif/motif A; other site 395960002455 putative active site [active] 395960002456 putative metal binding site [ion binding]; other site 395960002457 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 395960002458 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 395960002459 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 395960002460 substrate binding site [chemical binding]; other site 395960002461 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 395960002462 putative FMN binding site [chemical binding]; other site 395960002463 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 395960002464 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 395960002465 putative dimer interface [polypeptide binding]; other site 395960002466 active site pocket [active] 395960002467 putative cataytic base [active] 395960002468 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 395960002469 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 395960002470 homotrimer interface [polypeptide binding]; other site 395960002471 Walker A motif; other site 395960002472 GTP binding site [chemical binding]; other site 395960002473 Walker B motif; other site 395960002474 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 395960002475 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 395960002476 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 395960002477 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 395960002478 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 395960002479 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 395960002480 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 395960002481 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 395960002482 homodimer interface [polypeptide binding]; other site 395960002483 Walker A motif; other site 395960002484 ATP binding site [chemical binding]; other site 395960002485 hydroxycobalamin binding site [chemical binding]; other site 395960002486 Walker B motif; other site 395960002487 cobyric acid synthase; Provisional; Region: PRK00784 395960002488 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 395960002489 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 395960002490 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 395960002491 catalytic triad [active] 395960002492 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 395960002493 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 395960002494 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 395960002495 intersubunit interface [polypeptide binding]; other site 395960002496 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 395960002497 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 395960002498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960002499 homodimer interface [polypeptide binding]; other site 395960002500 catalytic residue [active] 395960002501 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 395960002502 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395960002503 Walker A/P-loop; other site 395960002504 ATP binding site [chemical binding]; other site 395960002505 Q-loop/lid; other site 395960002506 ABC transporter signature motif; other site 395960002507 Walker B; other site 395960002508 D-loop; other site 395960002509 H-loop/switch region; other site 395960002510 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 395960002511 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 395960002512 ABC-ATPase subunit interface; other site 395960002513 dimer interface [polypeptide binding]; other site 395960002514 putative PBP binding regions; other site 395960002515 High-affinity nickel-transport protein; Region: NicO; cl00964 395960002516 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 395960002517 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 395960002518 S-adenosylmethionine binding site [chemical binding]; other site 395960002519 Protein of unknown function (DUF3419); Region: DUF3419; pfam11899 395960002520 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395960002521 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395960002522 TadE-like protein; Region: TadE; pfam07811 395960002523 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395960002524 TadE-like protein; Region: TadE; pfam07811 395960002525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960002526 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960002527 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 395960002528 dimerization interface [polypeptide binding]; other site 395960002529 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 395960002530 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 395960002531 putative dimer interface [polypeptide binding]; other site 395960002532 [2Fe-2S] cluster binding site [ion binding]; other site 395960002533 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 395960002534 putative dimer interface [polypeptide binding]; other site 395960002535 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 395960002536 SLBB domain; Region: SLBB; pfam10531 395960002537 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 395960002538 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 395960002539 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 395960002540 catalytic loop [active] 395960002541 iron binding site [ion binding]; other site 395960002542 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 395960002543 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 395960002544 [4Fe-4S] binding site [ion binding]; other site 395960002545 molybdopterin cofactor binding site; other site 395960002546 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 395960002547 molybdopterin cofactor binding site; other site 395960002548 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 395960002549 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 395960002550 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395960002551 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 395960002552 Cytochrome c553 [Energy production and conversion]; Region: COG2863 395960002553 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395960002554 Cytochrome c; Region: Cytochrom_C; cl11414 395960002555 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960002556 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 395960002557 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 395960002558 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395960002559 Walker A motif; other site 395960002560 ATP binding site [chemical binding]; other site 395960002561 Walker B motif; other site 395960002562 arginine finger; other site 395960002563 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 395960002564 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 395960002565 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960002566 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395960002567 acyl-activating enzyme (AAE) consensus motif; other site 395960002568 acyl-activating enzyme (AAE) consensus motif; other site 395960002569 putative AMP binding site [chemical binding]; other site 395960002570 putative active site [active] 395960002571 putative CoA binding site [chemical binding]; other site 395960002572 decaheme-associated outer membrane protein, MtrB/PioB family; Region: OMP_MtrB_PioB; TIGR03509 395960002573 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 395960002574 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 395960002575 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 395960002576 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 395960002577 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 395960002578 Walker A/P-loop; other site 395960002579 ATP binding site [chemical binding]; other site 395960002580 Q-loop/lid; other site 395960002581 ABC transporter signature motif; other site 395960002582 Walker B; other site 395960002583 D-loop; other site 395960002584 H-loop/switch region; other site 395960002585 TOBE-like domain; Region: TOBE_3; pfam12857 395960002586 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 395960002587 dimer interface [polypeptide binding]; other site 395960002588 conserved gate region; other site 395960002589 putative PBP binding loops; other site 395960002590 ABC-ATPase subunit interface; other site 395960002591 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395960002592 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 395960002593 dimer interface [polypeptide binding]; other site 395960002594 conserved gate region; other site 395960002595 putative PBP binding loops; other site 395960002596 ABC-ATPase subunit interface; other site 395960002597 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 395960002598 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395960002599 substrate binding pocket [chemical binding]; other site 395960002600 membrane-bound complex binding site; other site 395960002601 hinge residues; other site 395960002602 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 395960002603 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 395960002604 Active Sites [active] 395960002605 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 395960002606 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 395960002607 Active Sites [active] 395960002608 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 395960002609 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 395960002610 CysD dimerization site [polypeptide binding]; other site 395960002611 G1 box; other site 395960002612 putative GEF interaction site [polypeptide binding]; other site 395960002613 GTP/Mg2+ binding site [chemical binding]; other site 395960002614 Switch I region; other site 395960002615 G2 box; other site 395960002616 G3 box; other site 395960002617 Switch II region; other site 395960002618 G4 box; other site 395960002619 G5 box; other site 395960002620 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 395960002621 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 395960002622 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 395960002623 ligand-binding site [chemical binding]; other site 395960002624 PAS domain S-box; Region: sensory_box; TIGR00229 395960002625 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 395960002626 putative active site [active] 395960002627 heme pocket [chemical binding]; other site 395960002628 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 395960002629 PAS fold; Region: PAS_3; pfam08447 395960002630 putative active site [active] 395960002631 heme pocket [chemical binding]; other site 395960002632 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395960002633 HWE histidine kinase; Region: HWE_HK; smart00911 395960002634 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395960002635 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960002636 Walker A/P-loop; other site 395960002637 ATP binding site [chemical binding]; other site 395960002638 Q-loop/lid; other site 395960002639 ABC transporter signature motif; other site 395960002640 Walker B; other site 395960002641 D-loop; other site 395960002642 H-loop/switch region; other site 395960002643 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960002644 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395960002645 Amidase; Region: Amidase; pfam01425 395960002646 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 395960002647 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960002648 Walker A/P-loop; other site 395960002649 ATP binding site [chemical binding]; other site 395960002650 Q-loop/lid; other site 395960002651 ABC transporter signature motif; other site 395960002652 Walker B; other site 395960002653 D-loop; other site 395960002654 H-loop/switch region; other site 395960002655 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 395960002656 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395960002657 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 395960002658 dimer interface [polypeptide binding]; other site 395960002659 conserved gate region; other site 395960002660 putative PBP binding loops; other site 395960002661 ABC-ATPase subunit interface; other site 395960002662 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395960002663 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 395960002664 dimer interface [polypeptide binding]; other site 395960002665 conserved gate region; other site 395960002666 putative PBP binding loops; other site 395960002667 ABC-ATPase subunit interface; other site 395960002668 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395960002669 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_8; cd08495 395960002670 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_8; cd08495 395960002671 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395960002672 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395960002673 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 395960002674 S-adenosylmethionine binding site [chemical binding]; other site 395960002675 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 395960002676 EF-hand domain pair; Region: EF_hand_5; pfam13499 395960002677 Ca2+ binding site [ion binding]; other site 395960002678 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 395960002679 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 395960002680 N-terminal plug; other site 395960002681 ligand-binding site [chemical binding]; other site 395960002682 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960002683 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 395960002684 ligand binding site [chemical binding]; other site 395960002685 flexible hinge region; other site 395960002686 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 395960002687 putative switch regulator; other site 395960002688 non-specific DNA interactions [nucleotide binding]; other site 395960002689 DNA binding site [nucleotide binding] 395960002690 sequence specific DNA binding site [nucleotide binding]; other site 395960002691 putative cAMP binding site [chemical binding]; other site 395960002692 PAS fold; Region: PAS_3; pfam08447 395960002693 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 395960002694 G4 box; other site 395960002695 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960002696 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960002697 metal binding site [ion binding]; metal-binding site 395960002698 active site 395960002699 I-site; other site 395960002700 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 395960002701 hypothetical protein; Provisional; Region: PRK11770 395960002702 Domain of unknown function (DUF307); Region: DUF307; pfam03733 395960002703 Domain of unknown function (DUF307); Region: DUF307; pfam03733 395960002704 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 395960002705 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 395960002706 PAS fold; Region: PAS_7; pfam12860 395960002707 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960002708 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960002709 metal binding site [ion binding]; metal-binding site 395960002710 active site 395960002711 I-site; other site 395960002712 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 395960002713 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 395960002714 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960002715 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960002716 active site 395960002717 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395960002718 Cytochrome c; Region: Cytochrom_C; pfam00034 395960002719 PAS fold; Region: PAS_4; pfam08448 395960002720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960002721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960002722 metal binding site [ion binding]; metal-binding site 395960002723 active site 395960002724 I-site; other site 395960002725 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 395960002726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960002727 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 395960002728 NAD(P) binding site [chemical binding]; other site 395960002729 active site 395960002730 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 395960002731 Cytochrome P450; Region: p450; cl12078 395960002732 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395960002733 cyclase homology domain; Region: CHD; cd07302 395960002734 nucleotidyl binding site; other site 395960002735 metal binding site [ion binding]; metal-binding site 395960002736 dimer interface [polypeptide binding]; other site 395960002737 heat shock protein HtpX; Provisional; Region: PRK01345 395960002738 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395960002739 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 395960002740 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 395960002741 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960002742 catalytic residue [active] 395960002743 LssY C-terminus; Region: LssY_C; pfam14067 395960002744 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 395960002745 Catalytic site; other site 395960002746 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 395960002747 Caspase domain; Region: Peptidase_C14; pfam00656 395960002748 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 395960002749 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 395960002750 active site 395960002751 zinc binding site [ion binding]; other site 395960002752 Predicted transcriptional regulator [Transcription]; Region: COG2932 395960002753 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 395960002754 Catalytic site [active] 395960002755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 395960002756 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 395960002757 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 395960002758 quinone interaction residues [chemical binding]; other site 395960002759 active site 395960002760 catalytic residues [active] 395960002761 FMN binding site [chemical binding]; other site 395960002762 substrate binding site [chemical binding]; other site 395960002763 putative hydrolase; Provisional; Region: PRK02113 395960002764 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 395960002765 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 395960002766 active site clefts [active] 395960002767 zinc binding site [ion binding]; other site 395960002768 dimer interface [polypeptide binding]; other site 395960002769 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 395960002770 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 395960002771 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 395960002772 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 395960002773 active site 395960002774 DNA binding site [nucleotide binding] 395960002775 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 395960002776 DNA binding site [nucleotide binding] 395960002777 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 395960002778 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395960002779 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 395960002780 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 395960002781 S-adenosylmethionine binding site [chemical binding]; other site 395960002782 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960002783 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960002784 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960002785 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960002786 putative ligand binding site [chemical binding]; other site 395960002787 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 395960002788 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 395960002789 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 395960002790 putative Mg++ binding site [ion binding]; other site 395960002791 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 395960002792 nucleotide binding region [chemical binding]; other site 395960002793 ATP-binding site [chemical binding]; other site 395960002794 DEAD/H associated; Region: DEAD_assoc; pfam08494 395960002795 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395960002796 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 395960002797 putative active site [active] 395960002798 putative metal binding site [ion binding]; other site 395960002799 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960002800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960002801 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 395960002802 dimerization interface [polypeptide binding]; other site 395960002803 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 395960002804 EamA-like transporter family; Region: EamA; pfam00892 395960002805 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 395960002806 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 395960002807 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 395960002808 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395960002809 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395960002810 Sel1-like repeats; Region: SEL1; smart00671 395960002811 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 395960002812 TPR motif; other site 395960002813 binding surface 395960002814 Sel1-like repeats; Region: SEL1; smart00671 395960002815 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960002816 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960002817 SnoaL-like domain; Region: SnoaL_2; pfam12680 395960002818 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 395960002819 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 395960002820 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 395960002821 FAD binding site [chemical binding]; other site 395960002822 substrate binding site [chemical binding]; other site 395960002823 catalytic residues [active] 395960002824 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 395960002825 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 395960002826 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 395960002827 dimer interface [polypeptide binding]; other site 395960002828 active site 395960002829 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 395960002830 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 395960002831 substrate binding site [chemical binding]; other site 395960002832 oxyanion hole (OAH) forming residues; other site 395960002833 trimer interface [polypeptide binding]; other site 395960002834 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 395960002835 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395960002836 glutathionine S-transferase; Provisional; Region: PRK10542 395960002837 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 395960002838 C-terminal domain interface [polypeptide binding]; other site 395960002839 GSH binding site (G-site) [chemical binding]; other site 395960002840 dimer interface [polypeptide binding]; other site 395960002841 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 395960002842 dimer interface [polypeptide binding]; other site 395960002843 N-terminal domain interface [polypeptide binding]; other site 395960002844 substrate binding pocket (H-site) [chemical binding]; other site 395960002845 MarR family; Region: MarR_2; pfam12802 395960002846 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395960002847 glutamate--cysteine ligase; Region: PLN02611 395960002848 PAN domain; Region: PAN_4; pfam14295 395960002849 putative binding site; other site 395960002850 PAN domain; Region: PAN_4; pfam14295 395960002851 putative binding site; other site 395960002852 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 395960002853 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 395960002854 Catalytic site [active] 395960002855 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 395960002856 protease TldD; Provisional; Region: tldD; PRK10735 395960002857 Protein of unknown function (DUF433); Region: DUF433; pfam04255 395960002858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 395960002859 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395960002860 MarR family; Region: MarR_2; cl17246 395960002861 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 395960002862 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 395960002863 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 395960002864 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 395960002865 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 395960002866 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 395960002867 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 395960002868 Subunit I/III interface [polypeptide binding]; other site 395960002869 D-pathway; other site 395960002870 Subunit I/VIIc interface [polypeptide binding]; other site 395960002871 Subunit I/IV interface [polypeptide binding]; other site 395960002872 Subunit I/II interface [polypeptide binding]; other site 395960002873 Low-spin heme (heme a) binding site [chemical binding]; other site 395960002874 Subunit I/VIIa interface [polypeptide binding]; other site 395960002875 Subunit I/VIa interface [polypeptide binding]; other site 395960002876 Dimer interface; other site 395960002877 Putative water exit pathway; other site 395960002878 Binuclear center (heme a3/CuB) [ion binding]; other site 395960002879 K-pathway; other site 395960002880 Subunit I/Vb interface [polypeptide binding]; other site 395960002881 Putative proton exit pathway; other site 395960002882 Subunit I/VIb interface; other site 395960002883 Subunit I/VIc interface [polypeptide binding]; other site 395960002884 Electron transfer pathway; other site 395960002885 Subunit I/VIIIb interface [polypeptide binding]; other site 395960002886 Subunit I/VIIb interface [polypeptide binding]; other site 395960002887 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 395960002888 UbiA prenyltransferase family; Region: UbiA; pfam01040 395960002889 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 395960002890 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 395960002891 Subunit III/VIIa interface [polypeptide binding]; other site 395960002892 Phospholipid binding site [chemical binding]; other site 395960002893 Subunit I/III interface [polypeptide binding]; other site 395960002894 Subunit III/VIb interface [polypeptide binding]; other site 395960002895 Subunit III/VIa interface; other site 395960002896 Subunit III/Vb interface [polypeptide binding]; other site 395960002897 Protein of unknown function (DUF983); Region: DUF983; cl02211 395960002898 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 395960002899 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 395960002900 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 395960002901 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960002902 catalytic residue [active] 395960002903 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 395960002904 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 395960002905 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 395960002906 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395960002907 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 395960002908 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 395960002909 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 395960002910 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 395960002911 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 395960002912 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 395960002913 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 395960002914 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 395960002915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 395960002916 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 395960002917 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 395960002918 putative catalytic residue [active] 395960002919 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 395960002920 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 395960002921 putative substrate translocation pore; other site 395960002922 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395960002923 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 395960002924 active site 395960002925 phosphorylation site [posttranslational modification] 395960002926 intermolecular recognition site; other site 395960002927 dimerization interface [polypeptide binding]; other site 395960002928 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 395960002929 DNA binding residues [nucleotide binding] 395960002930 dimerization interface [polypeptide binding]; other site 395960002931 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 395960002932 Na binding site [ion binding]; other site 395960002933 PAS fold; Region: PAS_7; pfam12860 395960002934 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960002935 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 395960002936 dimer interface [polypeptide binding]; other site 395960002937 phosphorylation site [posttranslational modification] 395960002938 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 395960002939 ATP binding site [chemical binding]; other site 395960002940 Mg2+ binding site [ion binding]; other site 395960002941 G-X-G motif; other site 395960002942 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960002943 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 395960002944 active site 395960002945 phosphorylation site [posttranslational modification] 395960002946 intermolecular recognition site; other site 395960002947 dimerization interface [polypeptide binding]; other site 395960002948 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 395960002949 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 395960002950 substrate-cofactor binding pocket; other site 395960002951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960002952 catalytic residue [active] 395960002953 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 395960002954 HAMP domain; Region: HAMP; pfam00672 395960002955 dimerization interface [polypeptide binding]; other site 395960002956 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960002957 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960002958 dimer interface [polypeptide binding]; other site 395960002959 putative CheW interface [polypeptide binding]; other site 395960002960 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960002961 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 395960002962 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 395960002963 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 395960002964 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 395960002965 ABC-ATPase subunit interface; other site 395960002966 dimer interface [polypeptide binding]; other site 395960002967 putative PBP binding regions; other site 395960002968 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 395960002969 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 395960002970 metal binding site [ion binding]; metal-binding site 395960002971 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395960002972 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 395960002973 P-loop, Walker A motif; other site 395960002974 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 395960002975 Base recognition motif; other site 395960002976 G4 box; other site 395960002977 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 395960002978 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 395960002979 FOG: WD40 repeat [General function prediction only]; Region: COG2319 395960002980 structural tetrad; other site 395960002981 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 395960002982 MgtC family; Region: MgtC; pfam02308 395960002983 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 395960002984 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 395960002985 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 395960002986 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395960002987 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 395960002988 homotrimer interaction site [polypeptide binding]; other site 395960002989 putative active site [active] 395960002990 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960002991 Coenzyme A binding pocket [chemical binding]; other site 395960002992 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 395960002993 dimer interface [polypeptide binding]; other site 395960002994 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 395960002995 active site 395960002996 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395960002997 catalytic residues [active] 395960002998 substrate binding site [chemical binding]; other site 395960002999 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 395960003000 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 395960003001 active site 395960003002 Zn binding site [ion binding]; other site 395960003003 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 395960003004 High-affinity nickel-transport protein; Region: NicO; cl00964 395960003005 High-affinity nickel-transport protein; Region: NicO; cl00964 395960003006 ferrochelatase; Reviewed; Region: hemH; PRK00035 395960003007 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 395960003008 C-terminal domain interface [polypeptide binding]; other site 395960003009 active site 395960003010 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 395960003011 active site 395960003012 N-terminal domain interface [polypeptide binding]; other site 395960003013 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 395960003014 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 395960003015 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 395960003016 Helix-turn-helix domain; Region: HTH_18; pfam12833 395960003017 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960003018 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 395960003019 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 395960003020 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 395960003021 putative active site [active] 395960003022 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 395960003023 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 395960003024 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960003025 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 395960003026 dimer interface [polypeptide binding]; other site 395960003027 conserved gate region; other site 395960003028 putative PBP binding loops; other site 395960003029 ABC-ATPase subunit interface; other site 395960003030 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960003031 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960003032 Walker A/P-loop; other site 395960003033 ATP binding site [chemical binding]; other site 395960003034 Q-loop/lid; other site 395960003035 ABC transporter signature motif; other site 395960003036 Walker B; other site 395960003037 D-loop; other site 395960003038 H-loop/switch region; other site 395960003039 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 395960003040 NMT1/THI5 like; Region: NMT1; pfam09084 395960003041 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960003042 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960003043 metal binding site [ion binding]; metal-binding site 395960003044 active site 395960003045 I-site; other site 395960003046 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 395960003047 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 395960003048 active site 395960003049 tetramer interface; other site 395960003050 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 395960003051 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395960003052 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395960003053 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 395960003054 putative dimer interface [polypeptide binding]; other site 395960003055 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 395960003056 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 395960003057 active site 395960003058 dimer interface [polypeptide binding]; other site 395960003059 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 395960003060 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 395960003061 active site 395960003062 FMN binding site [chemical binding]; other site 395960003063 substrate binding site [chemical binding]; other site 395960003064 3Fe-4S cluster binding site [ion binding]; other site 395960003065 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 395960003066 domain interface; other site 395960003067 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 395960003068 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 395960003069 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 395960003070 putative active site [active] 395960003071 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 395960003072 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 395960003073 putative active site [active] 395960003074 putative NTP binding site [chemical binding]; other site 395960003075 putative nucleic acid binding site [nucleotide binding]; other site 395960003076 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395960003077 classical (c) SDRs; Region: SDR_c; cd05233 395960003078 NAD(P) binding site [chemical binding]; other site 395960003079 active site 395960003080 classical (c) SDRs; Region: SDR_c; cd05233 395960003081 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 395960003082 NAD(P) binding site [chemical binding]; other site 395960003083 active site 395960003084 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 395960003085 active site 395960003086 oxyanion hole [active] 395960003087 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 395960003088 catalytic triad [active] 395960003089 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 395960003090 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395960003091 dimer interface [polypeptide binding]; other site 395960003092 active site 395960003093 catalytic residue [active] 395960003094 Transglycosylase SLT domain; Region: SLT_2; pfam13406 395960003095 murein hydrolase B; Provisional; Region: PRK10760; cl17906 395960003096 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 395960003097 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395960003098 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395960003099 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960003100 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 395960003101 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 395960003102 active site 395960003103 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 395960003104 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 395960003105 Response regulator receiver domain; Region: Response_reg; pfam00072 395960003106 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 395960003107 active site 395960003108 phosphorylation site [posttranslational modification] 395960003109 intermolecular recognition site; other site 395960003110 dimerization interface [polypeptide binding]; other site 395960003111 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 395960003112 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395960003113 Pirin-related protein [General function prediction only]; Region: COG1741 395960003114 Pirin; Region: Pirin; pfam02678 395960003115 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960003116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960003117 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 395960003118 putative effector binding pocket; other site 395960003119 dimerization interface [polypeptide binding]; other site 395960003120 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 395960003121 hypothetical protein; Validated; Region: PRK00228 395960003122 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 395960003123 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 395960003124 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 395960003125 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 395960003126 PAS fold; Region: PAS_3; pfam08447 395960003127 putative active site [active] 395960003128 heme pocket [chemical binding]; other site 395960003129 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960003130 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960003131 metal binding site [ion binding]; metal-binding site 395960003132 active site 395960003133 I-site; other site 395960003134 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 395960003135 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 395960003136 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 395960003137 NAD(P) binding site [chemical binding]; other site 395960003138 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 395960003139 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 395960003140 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 395960003141 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 395960003142 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395960003143 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960003144 Walker A/P-loop; other site 395960003145 ATP binding site [chemical binding]; other site 395960003146 Q-loop/lid; other site 395960003147 ABC transporter signature motif; other site 395960003148 Walker B; other site 395960003149 D-loop; other site 395960003150 H-loop/switch region; other site 395960003151 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 395960003152 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960003153 Coenzyme A binding pocket [chemical binding]; other site 395960003154 hypothetical protein; Validated; Region: PRK09039 395960003155 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395960003156 ligand binding site [chemical binding]; other site 395960003157 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 395960003158 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 395960003159 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 395960003160 S-adenosylmethionine binding site [chemical binding]; other site 395960003161 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 395960003162 salt bridge; other site 395960003163 non-specific DNA binding site [nucleotide binding]; other site 395960003164 sequence-specific DNA binding site [nucleotide binding]; other site 395960003165 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 395960003166 Flavoprotein; Region: Flavoprotein; pfam02441 395960003167 polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases; Region: ubiX_pad; TIGR00421 395960003168 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 395960003169 SCP-2 sterol transfer family; Region: SCP2; cl01225 395960003170 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 395960003171 Peptidase family U32; Region: Peptidase_U32; pfam01136 395960003172 putative protease; Provisional; Region: PRK15447 395960003173 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 395960003174 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 395960003175 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395960003176 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960003177 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960003178 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 395960003179 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 395960003180 active site 395960003181 dimerization interface [polypeptide binding]; other site 395960003182 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395960003183 Sel1-like repeats; Region: SEL1; smart00671 395960003184 Sel1-like repeats; Region: SEL1; smart00671 395960003185 Sel1-like repeats; Region: SEL1; smart00671 395960003186 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 395960003187 active site 395960003188 thiamine phosphate binding site [chemical binding]; other site 395960003189 pyrophosphate binding site [ion binding]; other site 395960003190 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 395960003191 active site 395960003192 intersubunit interface [polypeptide binding]; other site 395960003193 catalytic residue [active] 395960003194 PemK-like protein; Region: PemK; pfam02452 395960003195 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 395960003196 Phosphoglycerate kinase; Region: PGK; pfam00162 395960003197 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 395960003198 substrate binding site [chemical binding]; other site 395960003199 hinge regions; other site 395960003200 ADP binding site [chemical binding]; other site 395960003201 catalytic site [active] 395960003202 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 395960003203 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 395960003204 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 395960003205 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 395960003206 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 395960003207 TPP-binding site [chemical binding]; other site 395960003208 dimer interface [polypeptide binding]; other site 395960003209 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 395960003210 PYR/PP interface [polypeptide binding]; other site 395960003211 dimer interface [polypeptide binding]; other site 395960003212 TPP binding site [chemical binding]; other site 395960003213 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395960003214 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 395960003215 Cell division protein ZapA; Region: ZapA; pfam05164 395960003216 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 395960003217 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 395960003218 S-adenosylmethionine binding site [chemical binding]; other site 395960003219 multidrug efflux protein; Reviewed; Region: PRK01766 395960003220 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 395960003221 cation binding site [ion binding]; other site 395960003222 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 395960003223 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 395960003224 RNA binding surface [nucleotide binding]; other site 395960003225 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 395960003226 S-adenosylmethionine binding site [chemical binding]; other site 395960003227 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 395960003228 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 395960003229 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 395960003230 TPP-binding site; other site 395960003231 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 395960003232 PYR/PP interface [polypeptide binding]; other site 395960003233 dimer interface [polypeptide binding]; other site 395960003234 TPP binding site [chemical binding]; other site 395960003235 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395960003236 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 395960003237 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 395960003238 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 395960003239 putative active site [active] 395960003240 Zn binding site [ion binding]; other site 395960003241 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 395960003242 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 395960003243 putative active site [active] 395960003244 putative metal binding site [ion binding]; other site 395960003245 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 395960003246 enoyl-CoA hydratase; Provisional; Region: PRK06688 395960003247 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 395960003248 substrate binding site [chemical binding]; other site 395960003249 oxyanion hole (OAH) forming residues; other site 395960003250 trimer interface [polypeptide binding]; other site 395960003251 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960003252 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960003253 active site 395960003254 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 395960003255 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 395960003256 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 395960003257 active site 395960003258 DNA binding site [nucleotide binding] 395960003259 Int/Topo IB signature motif; other site 395960003260 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 395960003261 active site 395960003262 DNA binding site [nucleotide binding] 395960003263 Int/Topo IB signature motif; other site 395960003264 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 395960003265 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395960003266 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 395960003267 Walker A motif; other site 395960003268 ATP binding site [chemical binding]; other site 395960003269 Walker B motif; other site 395960003270 arginine finger; other site 395960003271 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395960003272 Integrase core domain; Region: rve; pfam00665 395960003273 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 395960003274 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 395960003275 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 395960003276 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 395960003277 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 395960003278 Alg9-like mannosyltransferase family; Region: Glyco_transf_22; cl17751 395960003279 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 395960003280 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395960003281 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 395960003282 motif II; other site 395960003283 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 395960003284 Homeodomain-like domain; Region: HTH_23; pfam13384 395960003285 DDE superfamily endonuclease; Region: DDE_3; pfam13358 395960003286 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 395960003287 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395960003288 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960003289 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960003290 Outer membrane efflux protein; Region: OEP; pfam02321 395960003291 Outer membrane efflux protein; Region: OEP; pfam02321 395960003292 Protein of unknown function, DUF; Region: DUF411; cl01142 395960003293 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cl00365 395960003294 core domain interface [polypeptide binding]; other site 395960003295 delta subunit interface [polypeptide binding]; other site 395960003296 epsilon subunit interface [polypeptide binding]; other site 395960003297 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 395960003298 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 395960003299 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 395960003300 Walker A motif; other site 395960003301 ATP binding site [chemical binding]; other site 395960003302 Walker B motif; other site 395960003303 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395960003304 Capsid triplex subunit 2; Provisional; Region: PHA03258 395960003305 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 395960003306 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 395960003307 F0F1 ATP synthase subunit C; Provisional; Region: PRK13468 395960003308 F0F1 ATP synthase subunit A; Provisional; Region: PRK13421 395960003309 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 395960003310 N-ATPase, AtpR subunit; Region: AtpR; pfam12966 395960003311 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 395960003312 F0F1 ATP synthase subunit epsilon; Provisional; Region: PRK13447 395960003313 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 395960003314 gamma subunit interface [polypeptide binding]; other site 395960003315 epsilon subunit interface [polypeptide binding]; other site 395960003316 LBP interface [polypeptide binding]; other site 395960003317 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 395960003318 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 395960003319 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 395960003320 alpha subunit interaction interface [polypeptide binding]; other site 395960003321 Walker A motif; other site 395960003322 ATP binding site [chemical binding]; other site 395960003323 Walker B motif; other site 395960003324 inhibitor binding site; inhibition site 395960003325 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395960003326 RNA polymerase sigma factor; Provisional; Region: PRK12539 395960003327 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960003328 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 395960003329 DNA binding residues [nucleotide binding] 395960003330 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 395960003331 OpgC protein; Region: OpgC_C; pfam10129 395960003332 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395960003333 RNA polymerase sigma factor; Provisional; Region: PRK12539 395960003334 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960003335 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 395960003336 DNA binding residues [nucleotide binding] 395960003337 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 395960003338 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 395960003339 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 395960003340 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395960003341 Soluble P-type ATPase [General function prediction only]; Region: COG4087 395960003342 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 395960003343 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 395960003344 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395960003345 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 395960003346 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 395960003347 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 395960003348 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395960003349 Beta-Casp domain; Region: Beta-Casp; smart01027 395960003350 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 395960003351 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 395960003352 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 395960003353 LTXXQ motif family protein; Region: LTXXQ; pfam07813 395960003354 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_3; cd06217 395960003355 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395960003356 FAD binding pocket [chemical binding]; other site 395960003357 FAD binding motif [chemical binding]; other site 395960003358 phosphate binding motif [ion binding]; other site 395960003359 beta-alpha-beta structure motif; other site 395960003360 NAD binding pocket [chemical binding]; other site 395960003361 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 395960003362 catalytic loop [active] 395960003363 iron binding site [ion binding]; other site 395960003364 Outer membrane efflux protein; Region: OEP; pfam02321 395960003365 Outer membrane efflux protein; Region: OEP; pfam02321 395960003366 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 395960003367 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 395960003368 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 395960003369 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 395960003370 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 395960003371 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 395960003372 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 395960003373 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395960003374 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395960003375 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395960003376 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 395960003377 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 395960003378 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 395960003379 OpgC protein; Region: OpgC_C; pfam10129 395960003380 Fic family protein [Function unknown]; Region: COG3177 395960003381 Fic/DOC family; Region: Fic; pfam02661 395960003382 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395960003383 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 395960003384 Walker A motif; other site 395960003385 ATP binding site [chemical binding]; other site 395960003386 Walker B motif; other site 395960003387 arginine finger; other site 395960003388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 395960003389 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 395960003390 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395960003391 Transposase; Region: HTH_Tnp_1; pfam01527 395960003392 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395960003393 Tetratricopeptide repeat; Region: TPR_1; pfam00515 395960003394 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395960003395 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 395960003396 Methyltransferase domain; Region: Methyltransf_26; pfam13659 395960003397 PglZ domain; Region: PglZ; pfam08665 395960003398 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 395960003399 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 395960003400 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 395960003401 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 395960003402 homodimer interface [polypeptide binding]; other site 395960003403 putative active site [active] 395960003404 catalytic site [active] 395960003405 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 395960003406 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 395960003407 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 395960003408 active site 395960003409 catalytic site [active] 395960003410 substrate binding site [chemical binding]; other site 395960003411 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 395960003412 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 395960003413 GIY-YIG motif/motif A; other site 395960003414 putative active site [active] 395960003415 putative metal binding site [ion binding]; other site 395960003416 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 395960003417 Walker A motif; other site 395960003418 ATP binding site [chemical binding]; other site 395960003419 Walker B motif; other site 395960003420 arginine finger; other site 395960003421 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 395960003422 coenzyme F420 hydrogenase, subunit alpha; Region: frhA; TIGR03295 395960003423 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 395960003424 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 395960003425 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 395960003426 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 395960003427 hydrogenase 1 large subunit; Provisional; Region: PRK10170 395960003428 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 395960003429 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 395960003430 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 395960003431 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 395960003432 putative substrate-binding site; other site 395960003433 nickel binding site [ion binding]; other site 395960003434 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 395960003435 HupF/HypC family; Region: HupF_HypC; pfam01455 395960003436 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 395960003437 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 395960003438 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 395960003439 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 395960003440 Rubredoxin; Region: Rubredoxin; pfam00301 395960003441 iron binding site [ion binding]; other site 395960003442 Protein of unknown function (DUF3457); Region: DUF3457; pfam11939 395960003443 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 395960003444 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 395960003445 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 395960003446 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 395960003447 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 395960003448 Acylphosphatase; Region: Acylphosphatase; pfam00708 395960003449 HypF finger; Region: zf-HYPF; pfam07503 395960003450 HypF finger; Region: zf-HYPF; pfam07503 395960003451 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 395960003452 HupF/HypC family; Region: HupF_HypC; pfam01455 395960003453 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 395960003454 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 395960003455 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 395960003456 dimerization interface [polypeptide binding]; other site 395960003457 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 395960003458 ATP binding site [chemical binding]; other site 395960003459 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395960003460 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 395960003461 active site 395960003462 phosphorylation site [posttranslational modification] 395960003463 intermolecular recognition site; other site 395960003464 dimerization interface [polypeptide binding]; other site 395960003465 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 395960003466 Walker A motif; other site 395960003467 ATP binding site [chemical binding]; other site 395960003468 Walker B motif; other site 395960003469 arginine finger; other site 395960003470 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395960003471 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395960003472 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 395960003473 putative active site [active] 395960003474 heme pocket [chemical binding]; other site 395960003475 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 395960003476 dimer interface [polypeptide binding]; other site 395960003477 phosphorylation site [posttranslational modification] 395960003478 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 395960003479 ATP binding site [chemical binding]; other site 395960003480 Mg2+ binding site [ion binding]; other site 395960003481 G-X-G motif; other site 395960003482 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 395960003483 PAS fold; Region: PAS_3; pfam08447 395960003484 putative active site [active] 395960003485 heme pocket [chemical binding]; other site 395960003486 PAS domain S-box; Region: sensory_box; TIGR00229 395960003487 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 395960003488 putative active site [active] 395960003489 heme pocket [chemical binding]; other site 395960003490 PAS domain S-box; Region: sensory_box; TIGR00229 395960003491 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 395960003492 dimer interface [polypeptide binding]; other site 395960003493 phosphorylation site [posttranslational modification] 395960003494 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 395960003495 ATP binding site [chemical binding]; other site 395960003496 Mg2+ binding site [ion binding]; other site 395960003497 G-X-G motif; other site 395960003498 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960003499 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 395960003500 active site 395960003501 phosphorylation site [posttranslational modification] 395960003502 intermolecular recognition site; other site 395960003503 dimerization interface [polypeptide binding]; other site 395960003504 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 395960003505 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395960003506 Bacterial transcriptional regulator; Region: IclR; pfam01614 395960003507 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 395960003508 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395960003509 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 395960003510 alpha subunit interface [polypeptide binding]; other site 395960003511 active site 395960003512 substrate binding site [chemical binding]; other site 395960003513 Fe binding site [ion binding]; other site 395960003514 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 395960003515 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 395960003516 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395960003517 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960003518 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395960003519 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960003520 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960003521 TM-ABC transporter signature motif; other site 395960003522 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960003523 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960003524 TM-ABC transporter signature motif; other site 395960003525 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960003526 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960003527 Walker A/P-loop; other site 395960003528 ATP binding site [chemical binding]; other site 395960003529 Q-loop/lid; other site 395960003530 ABC transporter signature motif; other site 395960003531 Walker B; other site 395960003532 D-loop; other site 395960003533 H-loop/switch region; other site 395960003534 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960003535 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960003536 Walker A/P-loop; other site 395960003537 ATP binding site [chemical binding]; other site 395960003538 Q-loop/lid; other site 395960003539 ABC transporter signature motif; other site 395960003540 Walker B; other site 395960003541 D-loop; other site 395960003542 H-loop/switch region; other site 395960003543 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 395960003544 GAF domain; Region: GAF; pfam01590 395960003545 Phytochrome region; Region: PHY; pfam00360 395960003546 HWE histidine kinase; Region: HWE_HK; pfam07536 395960003547 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960003548 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 395960003549 active site 395960003550 phosphorylation site [posttranslational modification] 395960003551 intermolecular recognition site; other site 395960003552 dimerization interface [polypeptide binding]; other site 395960003553 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960003554 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 395960003555 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 395960003556 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 395960003557 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960003558 ligand binding site [chemical binding]; other site 395960003559 flexible hinge region; other site 395960003560 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 395960003561 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 395960003562 catalytic core [active] 395960003563 Cysteine-rich small domain; Region: zf-like; cl00946 395960003564 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960003565 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960003566 active site 395960003567 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395960003568 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395960003569 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 395960003570 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 395960003571 dimerization interface [polypeptide binding]; other site 395960003572 putative DNA binding site [nucleotide binding]; other site 395960003573 putative Zn2+ binding site [ion binding]; other site 395960003574 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 395960003575 active site residue [active] 395960003576 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 395960003577 S-adenosylmethionine binding site [chemical binding]; other site 395960003578 Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also...; Region: ArsC_15kD; cd03033 395960003579 putative catalytic residues [active] 395960003580 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 395960003581 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 395960003582 molybdenum transport protein ModD; Provisional; Region: PRK06096 395960003583 dimerization interface [polypeptide binding]; other site 395960003584 active site 395960003585 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 395960003586 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960003587 acyl-activating enzyme (AAE) consensus motif; other site 395960003588 AMP binding site [chemical binding]; other site 395960003589 active site 395960003590 CoA binding site [chemical binding]; other site 395960003591 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 395960003592 active site 395960003593 Ap6A binding site [chemical binding]; other site 395960003594 nudix motif; other site 395960003595 metal binding site [ion binding]; metal-binding site 395960003596 The A subunit of Uncharacterized proteins with similarity to Protocatechuate 4,5-dioxygenase (LigAB); Region: LigA_like_1; cd07925 395960003597 putative dimer interface [polypeptide binding]; other site 395960003598 putative tetramer interface [polypeptide binding]; other site 395960003599 putative active site [active] 395960003600 The B subunit of unknown Class III extradiol dioxygenases with similarity to Protocatechuate 4,5-dioxygenase; Region: PCA_45_Doxase_B_like_1; cd07949 395960003601 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 395960003602 putative active site [active] 395960003603 Fe(II) binding site [ion binding]; other site 395960003604 putative dimer interface [polypeptide binding]; other site 395960003605 putative tetramer interface [polypeptide binding]; other site 395960003606 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 395960003607 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960003608 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 395960003609 Cytochrome P450; Region: p450; cl12078 395960003610 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 395960003611 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395960003612 SCP-2 sterol transfer family; Region: SCP2; pfam02036 395960003613 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 395960003614 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 395960003615 putative catalytic residue [active] 395960003616 Predicted permeases [General function prediction only]; Region: COG0730 395960003617 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 395960003618 4Fe-4S binding domain; Region: Fer4_5; pfam12801 395960003619 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 395960003620 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 395960003621 Predicted transcriptional regulators [Transcription]; Region: COG1695 395960003622 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 395960003623 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 395960003624 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 395960003625 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 395960003626 [2Fe-2S] cluster binding site [ion binding]; other site 395960003627 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cd00562 395960003628 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 395960003629 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 395960003630 dimerization interface [polypeptide binding]; other site 395960003631 putative DNA binding site [nucleotide binding]; other site 395960003632 putative Zn2+ binding site [ion binding]; other site 395960003633 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960003634 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 395960003635 E3 interaction surface; other site 395960003636 lipoyl attachment site [posttranslational modification]; other site 395960003637 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960003638 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395960003639 Protein export membrane protein; Region: SecD_SecF; cl14618 395960003640 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 395960003641 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 395960003642 catalytic residues [active] 395960003643 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 395960003644 FAD binding pocket [chemical binding]; other site 395960003645 FAD binding motif [chemical binding]; other site 395960003646 phosphate binding motif [ion binding]; other site 395960003647 beta-alpha-beta structure motif; other site 395960003648 NAD binding pocket [chemical binding]; other site 395960003649 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; pfam00173 395960003650 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 395960003651 DNA methylase; Region: N6_N4_Mtase; pfam01555 395960003652 Predicted metalloprotease [General function prediction only]; Region: COG2321 395960003653 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 395960003654 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 395960003655 MPT binding site; other site 395960003656 trimer interface [polypeptide binding]; other site 395960003657 Coenzyme A transferase; Region: CoA_trans; smart00882 395960003658 Coenzyme A transferase; Region: CoA_trans; cl17247 395960003659 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395960003660 MarR family; Region: MarR; pfam01047 395960003661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960003662 Coenzyme A binding pocket [chemical binding]; other site 395960003663 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 395960003664 active site 395960003665 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 395960003666 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 395960003667 FeS/SAM binding site; other site 395960003668 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 395960003669 RNA/DNA hybrid binding site [nucleotide binding]; other site 395960003670 active site 395960003671 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 395960003672 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 395960003673 Fe-S cluster binding site [ion binding]; other site 395960003674 active site 395960003675 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395960003676 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 395960003677 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 395960003678 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 395960003679 binding surface 395960003680 TPR motif; other site 395960003681 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 395960003682 binding surface 395960003683 TPR motif; other site 395960003684 TPR repeat; Region: TPR_11; pfam13414 395960003685 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 395960003686 binding surface 395960003687 TPR motif; other site 395960003688 TPR repeat; Region: TPR_11; pfam13414 395960003689 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 395960003690 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 395960003691 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 395960003692 substrate binding pocket [chemical binding]; other site 395960003693 chain length determination region; other site 395960003694 substrate-Mg2+ binding site; other site 395960003695 catalytic residues [active] 395960003696 aspartate-rich region 1; other site 395960003697 active site lid residues [active] 395960003698 aspartate-rich region 2; other site 395960003699 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 395960003700 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 395960003701 Methyltransferase domain; Region: Methyltransf_26; pfam13659 395960003702 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 395960003703 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 395960003704 tandem repeat interface [polypeptide binding]; other site 395960003705 oligomer interface [polypeptide binding]; other site 395960003706 active site residues [active] 395960003707 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 395960003708 dimer interface [polypeptide binding]; other site 395960003709 motif 1; other site 395960003710 active site 395960003711 motif 2; other site 395960003712 motif 3; other site 395960003713 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 395960003714 putative active site [active] 395960003715 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 395960003716 Predicted membrane protein [Function unknown]; Region: COG3174 395960003717 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 395960003718 pyruvate phosphate dikinase; Provisional; Region: PRK09279 395960003719 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 395960003720 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 395960003721 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 395960003722 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 395960003723 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 395960003724 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 395960003725 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 395960003726 dimerization interface [polypeptide binding]; other site 395960003727 active site 395960003728 L-aspartate oxidase; Provisional; Region: PRK07512 395960003729 L-aspartate oxidase; Provisional; Region: PRK06175 395960003730 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395960003731 quinolinate synthetase; Provisional; Region: PRK09375 395960003732 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 395960003733 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 395960003734 NADP binding site [chemical binding]; other site 395960003735 dimer interface [polypeptide binding]; other site 395960003736 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 395960003737 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 395960003738 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 395960003739 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 395960003740 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 395960003741 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 395960003742 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 395960003743 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 395960003744 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395960003745 dihydroorotase; Validated; Region: PRK09060 395960003746 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 395960003747 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 395960003748 active site 395960003749 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 395960003750 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 395960003751 nudix motif; other site 395960003752 Uncharacterized conserved protein [Function unknown]; Region: COG2135 395960003753 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 395960003754 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395960003755 FAD binding domain; Region: FAD_binding_4; pfam01565 395960003756 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 395960003757 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 395960003758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960003759 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395960003760 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960003761 benzoate transport; Region: 2A0115; TIGR00895 395960003762 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 395960003763 putative substrate translocation pore; other site 395960003764 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 395960003765 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 395960003766 active site 395960003767 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 395960003768 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 395960003769 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 395960003770 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 395960003771 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395960003772 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 395960003773 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395960003774 catalytic residue [active] 395960003775 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 395960003776 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 395960003777 ligand binding site [chemical binding]; other site 395960003778 flexible hinge region; other site 395960003779 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 395960003780 non-specific DNA interactions [nucleotide binding]; other site 395960003781 DNA binding site [nucleotide binding] 395960003782 sequence specific DNA binding site [nucleotide binding]; other site 395960003783 putative cAMP binding site [chemical binding]; other site 395960003784 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 395960003785 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 395960003786 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 395960003787 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 395960003788 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 395960003789 dimerization interface [polypeptide binding]; other site 395960003790 active site 395960003791 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 395960003792 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960003793 FAD binding site [chemical binding]; other site 395960003794 substrate binding pocket [chemical binding]; other site 395960003795 catalytic base [active] 395960003796 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395960003797 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960003798 dimer interface [polypeptide binding]; other site 395960003799 putative CheW interface [polypeptide binding]; other site 395960003800 hypothetical protein; Validated; Region: PRK00110 395960003801 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 395960003802 active site 395960003803 putative DNA-binding cleft [nucleotide binding]; other site 395960003804 dimer interface [polypeptide binding]; other site 395960003805 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 395960003806 RuvA N terminal domain; Region: RuvA_N; pfam01330 395960003807 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 395960003808 active site 395960003809 catalytic motif [active] 395960003810 Zn binding site [ion binding]; other site 395960003811 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 395960003812 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 395960003813 Walker A motif; other site 395960003814 ATP binding site [chemical binding]; other site 395960003815 Walker B motif; other site 395960003816 arginine finger; other site 395960003817 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 395960003818 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 395960003819 active site 395960003820 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 395960003821 OpgC protein; Region: OpgC_C; pfam10129 395960003822 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395960003823 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 395960003824 SnoaL-like domain; Region: SnoaL_2; pfam12680 395960003825 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960003826 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960003827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 395960003828 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 395960003829 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960003830 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 395960003831 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 395960003832 classical (c) SDRs; Region: SDR_c; cd05233 395960003833 NAD(P) binding site [chemical binding]; other site 395960003834 active site 395960003835 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395960003836 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 395960003837 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960003838 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960003839 WHG domain; Region: WHG; pfam13305 395960003840 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 395960003841 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 395960003842 Uncharacterized conserved protein [Function unknown]; Region: COG2128 395960003843 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 395960003844 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960003845 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 395960003846 TolQ protein; Region: tolQ; TIGR02796 395960003847 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 395960003848 TolR protein; Region: tolR; TIGR02801 395960003849 translocation protein TolB; Provisional; Region: tolB; PRK05137 395960003850 TolB amino-terminal domain; Region: TolB_N; pfam04052 395960003851 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395960003852 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395960003853 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395960003854 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395960003855 PAS fold; Region: PAS_7; pfam12860 395960003856 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960003857 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960003858 metal binding site [ion binding]; metal-binding site 395960003859 active site 395960003860 I-site; other site 395960003861 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 395960003862 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 395960003863 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 395960003864 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395960003865 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395960003866 ligand binding site [chemical binding]; other site 395960003867 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 395960003868 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 395960003869 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 395960003870 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 395960003871 Ligand Binding Site [chemical binding]; other site 395960003872 FtsH Extracellular; Region: FtsH_ext; pfam06480 395960003873 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 395960003874 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 395960003875 Walker A motif; other site 395960003876 ATP binding site [chemical binding]; other site 395960003877 Walker B motif; other site 395960003878 arginine finger; other site 395960003879 Peptidase family M41; Region: Peptidase_M41; pfam01434 395960003880 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 395960003881 Predicted membrane protein [Function unknown]; Region: COG4541 395960003882 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 395960003883 FAD binding domain; Region: FAD_binding_4; pfam01565 395960003884 FAD binding domain; Region: FAD_binding_4; pfam01565 395960003885 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 395960003886 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 395960003887 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 395960003888 Cysteine-rich domain; Region: CCG; pfam02754 395960003889 Cysteine-rich domain; Region: CCG; pfam02754 395960003890 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 395960003891 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 395960003892 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 395960003893 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 395960003894 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 395960003895 L-lactate permease; Region: Lactate_perm; cl00701 395960003896 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 395960003897 chaperonin GroEL; Reviewed; Region: groEL; PRK12852 395960003898 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 395960003899 ring oligomerisation interface [polypeptide binding]; other site 395960003900 ATP/Mg binding site [chemical binding]; other site 395960003901 stacking interactions; other site 395960003902 hinge regions; other site 395960003903 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 395960003904 oligomerisation interface [polypeptide binding]; other site 395960003905 mobile loop; other site 395960003906 roof hairpin; other site 395960003907 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 395960003908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395960003909 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395960003910 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 395960003911 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 395960003912 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 395960003913 putative active site [active] 395960003914 YdjC motif; other site 395960003915 Mg binding site [ion binding]; other site 395960003916 putative homodimer interface [polypeptide binding]; other site 395960003917 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 395960003918 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 395960003919 Ligand binding site; other site 395960003920 Putative Catalytic site; other site 395960003921 DXD motif; other site 395960003922 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 395960003923 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 395960003924 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 395960003925 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 395960003926 motif 1; other site 395960003927 dimer interface [polypeptide binding]; other site 395960003928 active site 395960003929 motif 2; other site 395960003930 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 395960003931 motif 3; other site 395960003932 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 395960003933 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 395960003934 UbiA prenyltransferase family; Region: UbiA; pfam01040 395960003935 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 395960003936 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 395960003937 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 395960003938 active site 395960003939 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 395960003940 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 395960003941 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 395960003942 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 395960003943 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 395960003944 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 395960003945 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 395960003946 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 395960003947 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 395960003948 generic binding surface II; other site 395960003949 generic binding surface I; other site 395960003950 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 395960003951 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 395960003952 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 395960003953 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 395960003954 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395960003955 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 395960003956 nucleoside/Zn binding site; other site 395960003957 dimer interface [polypeptide binding]; other site 395960003958 catalytic motif [active] 395960003959 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395960003960 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 395960003961 RNA binding surface [nucleotide binding]; other site 395960003962 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 395960003963 active site 395960003964 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 395960003965 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 395960003966 S-adenosylmethionine binding site [chemical binding]; other site 395960003967 HemK family putative methylases; Region: hemK_fam; TIGR00536 395960003968 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 395960003969 S-adenosylmethionine binding site [chemical binding]; other site 395960003970 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 395960003971 MoaE homodimer interface [polypeptide binding]; other site 395960003972 MoaD interaction [polypeptide binding]; other site 395960003973 active site residues [active] 395960003974 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 395960003975 MoaE interaction surface [polypeptide binding]; other site 395960003976 MoeB interaction surface [polypeptide binding]; other site 395960003977 thiocarboxylated glycine; other site 395960003978 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395960003979 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 395960003980 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 395960003981 GIY-YIG motif/motif A; other site 395960003982 active site 395960003983 catalytic site [active] 395960003984 putative DNA binding site [nucleotide binding]; other site 395960003985 metal binding site [ion binding]; metal-binding site 395960003986 UvrB/uvrC motif; Region: UVR; pfam02151 395960003987 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 395960003988 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960003989 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 395960003990 DNA-binding site [nucleotide binding]; DNA binding site 395960003991 RNA-binding motif; other site 395960003992 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 395960003993 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 395960003994 Response regulator receiver domain; Region: Response_reg; pfam00072 395960003995 active site 395960003996 phosphorylation site [posttranslational modification] 395960003997 intermolecular recognition site; other site 395960003998 dimerization interface [polypeptide binding]; other site 395960003999 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; cd03440 395960004000 active site 1 [active] 395960004001 active site 2 [active] 395960004002 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 395960004003 active site 1 [active] 395960004004 dimer interface [polypeptide binding]; other site 395960004005 hexamer interface [polypeptide binding]; other site 395960004006 active site 2 [active] 395960004007 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 395960004008 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 395960004009 dimer interface [polypeptide binding]; other site 395960004010 motif 1; other site 395960004011 motif 2; other site 395960004012 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 395960004013 active site 395960004014 motif 3; other site 395960004015 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 395960004016 anticodon binding site; other site 395960004017 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 395960004018 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 395960004019 inhibitor-cofactor binding pocket; inhibition site 395960004020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960004021 catalytic residue [active] 395960004022 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 395960004023 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 395960004024 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 395960004025 active site 395960004026 motif I; other site 395960004027 motif II; other site 395960004028 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 395960004029 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 395960004030 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 395960004031 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 395960004032 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 395960004033 Protein of unknown function DUF58; Region: DUF58; pfam01882 395960004034 MoxR-like ATPases [General function prediction only]; Region: COG0714 395960004035 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 395960004036 Walker A motif; other site 395960004037 ATP binding site [chemical binding]; other site 395960004038 Walker B motif; other site 395960004039 arginine finger; other site 395960004040 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 395960004041 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 395960004042 putative active site [active] 395960004043 putative CoA binding site [chemical binding]; other site 395960004044 nudix motif; other site 395960004045 metal binding site [ion binding]; metal-binding site 395960004046 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 395960004047 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 395960004048 active site 395960004049 NTP binding site [chemical binding]; other site 395960004050 metal binding triad [ion binding]; metal-binding site 395960004051 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 395960004052 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 395960004053 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 395960004054 FeS/SAM binding site; other site 395960004055 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 395960004056 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 395960004057 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 395960004058 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 395960004059 [2Fe-2S] cluster binding site [ion binding]; other site 395960004060 cytochrome b; Provisional; Region: CYTB; MTH00191 395960004061 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 395960004062 Qi binding site; other site 395960004063 intrachain domain interface; other site 395960004064 interchain domain interface [polypeptide binding]; other site 395960004065 heme bH binding site [chemical binding]; other site 395960004066 heme bL binding site [chemical binding]; other site 395960004067 Qo binding site; other site 395960004068 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 395960004069 interchain domain interface [polypeptide binding]; other site 395960004070 intrachain domain interface; other site 395960004071 Qi binding site; other site 395960004072 Qo binding site; other site 395960004073 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 395960004074 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395960004075 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 395960004076 classical (c) SDRs; Region: SDR_c; cd05233 395960004077 NAD(P) binding site [chemical binding]; other site 395960004078 active site 395960004079 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 395960004080 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 395960004081 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 395960004082 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 395960004083 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 395960004084 HSP70 interaction site [polypeptide binding]; other site 395960004085 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 395960004086 substrate binding site [polypeptide binding]; other site 395960004087 dimer interface [polypeptide binding]; other site 395960004088 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 395960004089 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 395960004090 NAD binding site [chemical binding]; other site 395960004091 homotetramer interface [polypeptide binding]; other site 395960004092 homodimer interface [polypeptide binding]; other site 395960004093 substrate binding site [chemical binding]; other site 395960004094 active site 395960004095 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 395960004096 catalytic core [active] 395960004097 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 395960004098 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 395960004099 Tetramer interface [polypeptide binding]; other site 395960004100 active site 395960004101 FMN-binding site [chemical binding]; other site 395960004102 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395960004103 cyclase homology domain; Region: CHD; cd07302 395960004104 nucleotidyl binding site; other site 395960004105 metal binding site [ion binding]; metal-binding site 395960004106 dimer interface [polypeptide binding]; other site 395960004107 ATP-dependent Clp protease adaptor; Reviewed; Region: clpS; PRK13019 395960004108 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 395960004109 metal ion-dependent adhesion site (MIDAS); other site 395960004110 putative alcohol dehydrogenase; Provisional; Region: PRK09860 395960004111 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 395960004112 dimer interface [polypeptide binding]; other site 395960004113 active site 395960004114 metal binding site [ion binding]; metal-binding site 395960004115 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395960004116 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395960004117 NAD(P) binding site [chemical binding]; other site 395960004118 catalytic residues [active] 395960004119 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 395960004120 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 395960004121 Walker A motif; other site 395960004122 ATP binding site [chemical binding]; other site 395960004123 Walker B motif; other site 395960004124 arginine finger; other site 395960004125 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395960004126 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 395960004127 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 395960004128 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 395960004129 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 395960004130 metal ion-dependent adhesion site (MIDAS); other site 395960004131 AAA domain; Region: AAA_14; pfam13173 395960004132 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 395960004133 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 395960004134 Uncharacterized conserved protein [Function unknown]; Region: COG5476 395960004135 MlrC C-terminus; Region: MlrC_C; pfam07171 395960004136 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395960004137 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960004138 Walker A/P-loop; other site 395960004139 ATP binding site [chemical binding]; other site 395960004140 Q-loop/lid; other site 395960004141 ABC transporter signature motif; other site 395960004142 Walker B; other site 395960004143 D-loop; other site 395960004144 H-loop/switch region; other site 395960004145 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960004146 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960004147 Walker A/P-loop; other site 395960004148 ATP binding site [chemical binding]; other site 395960004149 Q-loop/lid; other site 395960004150 ABC transporter signature motif; other site 395960004151 Walker B; other site 395960004152 D-loop; other site 395960004153 H-loop/switch region; other site 395960004154 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960004155 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395960004156 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395960004157 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 395960004158 dimer interface [polypeptide binding]; other site 395960004159 conserved gate region; other site 395960004160 putative PBP binding loops; other site 395960004161 ABC-ATPase subunit interface; other site 395960004162 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395960004163 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 395960004164 dimer interface [polypeptide binding]; other site 395960004165 conserved gate region; other site 395960004166 putative PBP binding loops; other site 395960004167 ABC-ATPase subunit interface; other site 395960004168 hypothetical protein; Provisional; Region: PRK07338 395960004169 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 395960004170 metal binding site [ion binding]; metal-binding site 395960004171 dimer interface [polypeptide binding]; other site 395960004172 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395960004173 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 395960004174 FOG: CBS domain [General function prediction only]; Region: COG0517 395960004175 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 395960004176 CHAD domain; Region: CHAD; pfam05235 395960004177 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 395960004178 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 395960004179 dimer interface [polypeptide binding]; other site 395960004180 PYR/PP interface [polypeptide binding]; other site 395960004181 TPP binding site [chemical binding]; other site 395960004182 substrate binding site [chemical binding]; other site 395960004183 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 395960004184 TPP-binding site; other site 395960004185 4Fe-4S binding domain; Region: Fer4; pfam00037 395960004186 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 395960004187 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 395960004188 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 395960004189 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 395960004190 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 395960004191 dimer interface [polypeptide binding]; other site 395960004192 PYR/PP interface [polypeptide binding]; other site 395960004193 TPP binding site [chemical binding]; other site 395960004194 substrate binding site [chemical binding]; other site 395960004195 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 395960004196 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 395960004197 TPP-binding site [chemical binding]; other site 395960004198 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 395960004199 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 395960004200 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960004201 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 395960004202 acyl-activating enzyme (AAE) consensus motif; other site 395960004203 AMP binding site [chemical binding]; other site 395960004204 active site 395960004205 CoA binding site [chemical binding]; other site 395960004206 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960004207 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960004208 TM-ABC transporter signature motif; other site 395960004209 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960004210 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960004211 TM-ABC transporter signature motif; other site 395960004212 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960004213 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960004214 Walker A/P-loop; other site 395960004215 ATP binding site [chemical binding]; other site 395960004216 Q-loop/lid; other site 395960004217 ABC transporter signature motif; other site 395960004218 Walker B; other site 395960004219 D-loop; other site 395960004220 H-loop/switch region; other site 395960004221 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960004222 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960004223 Walker A/P-loop; other site 395960004224 ATP binding site [chemical binding]; other site 395960004225 Q-loop/lid; other site 395960004226 ABC transporter signature motif; other site 395960004227 Walker B; other site 395960004228 D-loop; other site 395960004229 H-loop/switch region; other site 395960004230 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 395960004231 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 395960004232 acyl-activating enzyme (AAE) consensus motif; other site 395960004233 putative AMP binding site [chemical binding]; other site 395960004234 putative active site [active] 395960004235 putative CoA binding site [chemical binding]; other site 395960004236 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960004237 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960004238 putative ligand binding site [chemical binding]; other site 395960004239 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 395960004240 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960004241 active site 395960004242 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 395960004243 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 395960004244 active site 395960004245 enoyl-CoA hydratase; Provisional; Region: PRK08290 395960004246 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 395960004247 substrate binding site [chemical binding]; other site 395960004248 oxyanion hole (OAH) forming residues; other site 395960004249 trimer interface [polypeptide binding]; other site 395960004250 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395960004251 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 395960004252 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 395960004253 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 395960004254 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 395960004255 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 395960004256 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960004257 acyl-activating enzyme (AAE) consensus motif; other site 395960004258 AMP binding site [chemical binding]; other site 395960004259 active site 395960004260 CoA binding site [chemical binding]; other site 395960004261 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 395960004262 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 395960004263 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 395960004264 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 395960004265 Response regulator receiver domain; Region: Response_reg; pfam00072 395960004266 active site 395960004267 phosphorylation site [posttranslational modification] 395960004268 intermolecular recognition site; other site 395960004269 dimerization interface [polypeptide binding]; other site 395960004270 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 395960004271 DNA binding residues [nucleotide binding] 395960004272 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395960004273 Na binding site [ion binding]; other site 395960004274 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960004275 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 395960004276 dimer interface [polypeptide binding]; other site 395960004277 phosphorylation site [posttranslational modification] 395960004278 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 395960004279 ATP binding site [chemical binding]; other site 395960004280 Mg2+ binding site [ion binding]; other site 395960004281 G-X-G motif; other site 395960004282 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960004283 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 395960004284 active site 395960004285 phosphorylation site [posttranslational modification] 395960004286 intermolecular recognition site; other site 395960004287 dimerization interface [polypeptide binding]; other site 395960004288 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960004289 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 395960004290 putative ligand binding site [chemical binding]; other site 395960004291 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960004292 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960004293 TM-ABC transporter signature motif; other site 395960004294 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960004295 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960004296 TM-ABC transporter signature motif; other site 395960004297 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 395960004298 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960004299 Walker A/P-loop; other site 395960004300 ATP binding site [chemical binding]; other site 395960004301 Q-loop/lid; other site 395960004302 ABC transporter signature motif; other site 395960004303 Walker B; other site 395960004304 D-loop; other site 395960004305 H-loop/switch region; other site 395960004306 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 395960004307 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960004308 Walker A/P-loop; other site 395960004309 ATP binding site [chemical binding]; other site 395960004310 Q-loop/lid; other site 395960004311 ABC transporter signature motif; other site 395960004312 Walker B; other site 395960004313 D-loop; other site 395960004314 H-loop/switch region; other site 395960004315 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 395960004316 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 395960004317 cobalamin synthase; Reviewed; Region: cobS; PRK00235 395960004318 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 395960004319 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 395960004320 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395960004321 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 395960004322 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 395960004323 motif II; other site 395960004324 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 395960004325 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 395960004326 Ligand Binding Site [chemical binding]; other site 395960004327 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 395960004328 Ligand Binding Site [chemical binding]; other site 395960004329 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395960004330 FAD binding domain; Region: FAD_binding_4; pfam01565 395960004331 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 395960004332 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 395960004333 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 395960004334 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 395960004335 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 395960004336 MgtE intracellular N domain; Region: MgtE_N; cl15244 395960004337 FliG C-terminal domain; Region: FliG_C; pfam01706 395960004338 flagellar assembly protein H; Validated; Region: fliH; PRK06032 395960004339 Flagellar assembly protein FliH; Region: FliH; pfam02108 395960004340 flagellar motor switch protein; Reviewed; Region: PRK08916 395960004341 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395960004342 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 395960004343 Walker A motif; other site 395960004344 ATP binding site [chemical binding]; other site 395960004345 Walker B motif; other site 395960004346 arginine finger; other site 395960004347 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395960004348 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 395960004349 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395960004350 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 395960004351 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 395960004352 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 395960004353 AAA domain; Region: AAA_30; pfam13604 395960004354 Walker A motif; other site 395960004355 ATP binding site [chemical binding]; other site 395960004356 Family description; Region: UvrD_C_2; pfam13538 395960004357 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 395960004358 S-adenosylmethionine binding site [chemical binding]; other site 395960004359 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 395960004360 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 395960004361 dimerization interface [polypeptide binding]; other site 395960004362 DPS ferroxidase diiron center [ion binding]; other site 395960004363 ion pore; other site 395960004364 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 395960004365 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 395960004366 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 395960004367 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 395960004368 catalytic site [active] 395960004369 subunit interface [polypeptide binding]; other site 395960004370 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395960004371 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 395960004372 catalytic site [active] 395960004373 Yqey-like protein; Region: YqeY; pfam09424 395960004374 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 395960004375 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; some contain an N-terminal GntR family winged HTH DNA-binding domain; Region: SRPBCC_CalC_Aha1-like_GntR-HTH; cd08893 395960004376 putative hydrophobic ligand binding site [chemical binding]; other site 395960004377 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 395960004378 dimerization interface [polypeptide binding]; other site 395960004379 putative DNA binding site [nucleotide binding]; other site 395960004380 putative Zn2+ binding site [ion binding]; other site 395960004381 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395960004382 N-formylglutamate amidohydrolase; Region: FGase; cl01522 395960004383 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 395960004384 putative active site pocket [active] 395960004385 dimerization interface [polypeptide binding]; other site 395960004386 putative catalytic residue [active] 395960004387 LIM is a small protein-protein interaction domain, containing two zinc fingers; Region: LIM; cl02475 395960004388 Zn binding site [ion binding]; other site 395960004389 DNA primase; Validated; Region: dnaG; PRK05667 395960004390 CHC2 zinc finger; Region: zf-CHC2; cl17510 395960004391 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 395960004392 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 395960004393 active site 395960004394 metal binding site [ion binding]; metal-binding site 395960004395 interdomain interaction site; other site 395960004396 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 395960004397 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 395960004398 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 395960004399 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 395960004400 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 395960004401 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960004402 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 395960004403 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 395960004404 DNA binding residues [nucleotide binding] 395960004405 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 395960004406 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 395960004407 sequence-specific DNA binding site [nucleotide binding]; other site 395960004408 salt bridge; other site 395960004409 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 395960004410 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 395960004411 dimerization interface [polypeptide binding]; other site 395960004412 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960004413 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960004414 metal binding site [ion binding]; metal-binding site 395960004415 active site 395960004416 I-site; other site 395960004417 short chain dehydrogenase; Provisional; Region: PRK06181 395960004418 classical (c) SDRs; Region: SDR_c; cd05233 395960004419 NAD(P) binding site [chemical binding]; other site 395960004420 active site 395960004421 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 395960004422 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 395960004423 dimer interface [polypeptide binding]; other site 395960004424 active site 395960004425 CoA binding pocket [chemical binding]; other site 395960004426 Cupin domain; Region: Cupin_2; cl17218 395960004427 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 395960004428 intracellular protease, PfpI family; Region: PfpI; TIGR01382 395960004429 proposed catalytic triad [active] 395960004430 conserved cys residue [active] 395960004431 Transglycosylase SLT domain; Region: SLT_2; pfam13406 395960004432 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 395960004433 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395960004434 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 395960004435 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 395960004436 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 395960004437 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 395960004438 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 395960004439 Ligand Binding Site [chemical binding]; other site 395960004440 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 395960004441 S-adenosylmethionine binding site [chemical binding]; other site 395960004442 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 395960004443 active site 395960004444 catalytic residues [active] 395960004445 DNA binding site [nucleotide binding] 395960004446 Int/Topo IB signature motif; other site 395960004447 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 395960004448 HsdM N-terminal domain; Region: HsdM_N; pfam12161 395960004449 Methyltransferase domain; Region: Methyltransf_26; pfam13659 395960004450 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 395960004451 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395960004452 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395960004453 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 395960004454 non-specific DNA binding site [nucleotide binding]; other site 395960004455 salt bridge; other site 395960004456 sequence-specific DNA binding site [nucleotide binding]; other site 395960004457 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 395960004458 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395960004459 active site 395960004460 metal binding site [ion binding]; metal-binding site 395960004461 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 395960004462 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 395960004463 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 395960004464 active site 395960004465 FMN binding site [chemical binding]; other site 395960004466 substrate binding site [chemical binding]; other site 395960004467 homotetramer interface [polypeptide binding]; other site 395960004468 catalytic residue [active] 395960004469 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 395960004470 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 395960004471 PAS domain; Region: PAS_9; pfam13426 395960004472 putative active site [active] 395960004473 heme pocket [chemical binding]; other site 395960004474 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395960004475 putative active site [active] 395960004476 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960004477 heme pocket [chemical binding]; other site 395960004478 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 395960004479 dimer interface [polypeptide binding]; other site 395960004480 phosphorylation site [posttranslational modification] 395960004481 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 395960004482 ATP binding site [chemical binding]; other site 395960004483 Mg2+ binding site [ion binding]; other site 395960004484 G-X-G motif; other site 395960004485 Response regulator receiver domain; Region: Response_reg; pfam00072 395960004486 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 395960004487 active site 395960004488 phosphorylation site [posttranslational modification] 395960004489 intermolecular recognition site; other site 395960004490 dimerization interface [polypeptide binding]; other site 395960004491 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395960004492 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 395960004493 active site 395960004494 phosphorylation site [posttranslational modification] 395960004495 intermolecular recognition site; other site 395960004496 dimerization interface [polypeptide binding]; other site 395960004497 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 395960004498 DNA binding residues [nucleotide binding] 395960004499 dimerization interface [polypeptide binding]; other site 395960004500 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395960004501 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395960004502 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395960004503 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 395960004504 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 395960004505 dimerization interface [polypeptide binding]; other site 395960004506 DPS ferroxidase diiron center [ion binding]; other site 395960004507 ion pore; other site 395960004508 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 395960004509 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960004510 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 395960004511 ATP binding site [chemical binding]; other site 395960004512 Mg2+ binding site [ion binding]; other site 395960004513 G-X-G motif; other site 395960004514 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395960004515 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960004516 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960004517 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 395960004518 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960004519 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 395960004520 DNA binding residues [nucleotide binding] 395960004521 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 395960004522 Cupin; Region: Cupin_1; smart00835 395960004523 Cupin; Region: Cupin_1; smart00835 395960004524 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 395960004525 CrcB-like protein; Region: CRCB; cl09114 395960004526 camphor resistance protein CrcB; Provisional; Region: PRK14233 395960004527 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 395960004528 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960004529 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960004530 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960004531 pyruvate dehydrogenase; Provisional; Region: PRK09124 395960004532 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 395960004533 PYR/PP interface [polypeptide binding]; other site 395960004534 tetramer interface [polypeptide binding]; other site 395960004535 dimer interface [polypeptide binding]; other site 395960004536 TPP binding site [chemical binding]; other site 395960004537 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395960004538 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 395960004539 TPP-binding site [chemical binding]; other site 395960004540 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 395960004541 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 395960004542 putative molybdopterin cofactor binding site [chemical binding]; other site 395960004543 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 395960004544 putative molybdopterin cofactor binding site; other site 395960004545 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 395960004546 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 395960004547 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 395960004548 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960004549 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395960004550 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960004551 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395960004552 Histidine kinase; Region: HisKA_2; pfam07568 395960004553 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 395960004554 ATP binding site [chemical binding]; other site 395960004555 Mg2+ binding site [ion binding]; other site 395960004556 G-X-G motif; other site 395960004557 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 395960004558 Fusaric acid resistance protein family; Region: FUSC; pfam04632 395960004559 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 395960004560 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 395960004561 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 395960004562 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960004563 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960004564 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395960004565 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960004566 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 395960004567 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395960004568 substrate binding site [chemical binding]; other site 395960004569 activation loop (A-loop); other site 395960004570 Predicted ATPase [General function prediction only]; Region: COG3899 395960004571 AAA ATPase domain; Region: AAA_16; pfam13191 395960004572 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395960004573 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 395960004574 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395960004575 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 395960004576 dimer interface [polypeptide binding]; other site 395960004577 phosphorylation site [posttranslational modification] 395960004578 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 395960004579 ATP binding site [chemical binding]; other site 395960004580 Mg2+ binding site [ion binding]; other site 395960004581 G-X-G motif; other site 395960004582 fumarate hydratase; Reviewed; Region: fumC; PRK00485 395960004583 Class II fumarases; Region: Fumarase_classII; cd01362 395960004584 active site 395960004585 tetramer interface [polypeptide binding]; other site 395960004586 Uncharacterized conserved protein [Function unknown]; Region: COG2966 395960004587 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 395960004588 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 395960004589 Cupin domain; Region: Cupin_2; cl17218 395960004590 malate:quinone oxidoreductase; Validated; Region: PRK05257 395960004591 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 395960004592 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 395960004593 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395960004594 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395960004595 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960004596 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960004597 active site 395960004598 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395960004599 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395960004600 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 395960004601 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960004602 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960004603 acyl-activating enzyme (AAE) consensus motif; other site 395960004604 AMP binding site [chemical binding]; other site 395960004605 active site 395960004606 CoA binding site [chemical binding]; other site 395960004607 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 395960004608 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 395960004609 dimer interface [polypeptide binding]; other site 395960004610 PYR/PP interface [polypeptide binding]; other site 395960004611 TPP binding site [chemical binding]; other site 395960004612 substrate binding site [chemical binding]; other site 395960004613 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 395960004614 TPP-binding site [chemical binding]; other site 395960004615 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 395960004616 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960004617 TM-ABC transporter signature motif; other site 395960004618 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960004619 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960004620 TM-ABC transporter signature motif; other site 395960004621 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960004622 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960004623 Walker A/P-loop; other site 395960004624 ATP binding site [chemical binding]; other site 395960004625 Q-loop/lid; other site 395960004626 ABC transporter signature motif; other site 395960004627 Walker B; other site 395960004628 D-loop; other site 395960004629 H-loop/switch region; other site 395960004630 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960004631 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960004632 Walker A/P-loop; other site 395960004633 ATP binding site [chemical binding]; other site 395960004634 Q-loop/lid; other site 395960004635 ABC transporter signature motif; other site 395960004636 Walker B; other site 395960004637 D-loop; other site 395960004638 H-loop/switch region; other site 395960004639 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960004640 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395960004641 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960004642 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960004643 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395960004644 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960004645 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960004646 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 395960004647 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395960004648 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960004649 Walker A/P-loop; other site 395960004650 ATP binding site [chemical binding]; other site 395960004651 Q-loop/lid; other site 395960004652 ABC transporter signature motif; other site 395960004653 Walker B; other site 395960004654 D-loop; other site 395960004655 Calx-beta domain; Region: Calx-beta; cl02522 395960004656 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 395960004657 generic binding surface II; other site 395960004658 generic binding surface I; other site 395960004659 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395960004660 putative catalytic site [active] 395960004661 putative metal binding site [ion binding]; other site 395960004662 putative phosphate binding site [ion binding]; other site 395960004663 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 395960004664 Synechococcus sp. strain PCC 7942 PhoA and related proteins, N-terminal metallophosphatase domain; Region: MPP_PhoA_N; cd08162 395960004665 putative active site [active] 395960004666 putative metal binding site [ion binding]; other site 395960004667 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 395960004668 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 395960004669 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395960004670 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395960004671 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 395960004672 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 395960004673 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 395960004674 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 395960004675 active site 395960004676 catalytic site [active] 395960004677 metal binding site [ion binding]; metal-binding site 395960004678 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 395960004679 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 395960004680 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 395960004681 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395960004682 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395960004683 HTH-like domain; Region: HTH_21; pfam13276 395960004684 Integrase core domain; Region: rve; pfam00665 395960004685 Integrase core domain; Region: rve_3; pfam13683 395960004686 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 395960004687 active site 395960004688 DNA binding site [nucleotide binding] 395960004689 Int/Topo IB signature motif; other site 395960004690 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395960004691 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 395960004692 substrate binding pocket [chemical binding]; other site 395960004693 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960004694 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 395960004695 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960004696 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 395960004697 dimer interface [polypeptide binding]; other site 395960004698 conserved gate region; other site 395960004699 putative PBP binding loops; other site 395960004700 ABC-ATPase subunit interface; other site 395960004701 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960004702 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960004703 Walker A/P-loop; other site 395960004704 ATP binding site [chemical binding]; other site 395960004705 Q-loop/lid; other site 395960004706 ABC transporter signature motif; other site 395960004707 Walker B; other site 395960004708 D-loop; other site 395960004709 H-loop/switch region; other site 395960004710 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 395960004711 Sulfatase; Region: Sulfatase; cl17466 395960004712 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 395960004713 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 395960004714 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 395960004715 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 395960004716 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 395960004717 putative inner membrane protein; Provisional; Region: PRK11099 395960004718 putative inner membrane protein; Provisional; Region: PRK11099 395960004719 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960004720 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395960004721 Walker A/P-loop; other site 395960004722 ATP binding site [chemical binding]; other site 395960004723 Q-loop/lid; other site 395960004724 ABC transporter signature motif; other site 395960004725 Walker B; other site 395960004726 D-loop; other site 395960004727 H-loop/switch region; other site 395960004728 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960004729 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 395960004730 dimer interface [polypeptide binding]; other site 395960004731 conserved gate region; other site 395960004732 putative PBP binding loops; other site 395960004733 ABC-ATPase subunit interface; other site 395960004734 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 395960004735 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960004736 acyl-activating enzyme (AAE) consensus motif; other site 395960004737 AMP binding site [chemical binding]; other site 395960004738 active site 395960004739 CoA binding site [chemical binding]; other site 395960004740 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 395960004741 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 395960004742 FMN binding site [chemical binding]; other site 395960004743 substrate binding site [chemical binding]; other site 395960004744 putative catalytic residue [active] 395960004745 allophanate hydrolase; Provisional; Region: PRK08186 395960004746 Amidase; Region: Amidase; cl11426 395960004747 urea carboxylase; Region: urea_carbox; TIGR02712 395960004748 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395960004749 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395960004750 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 395960004751 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 395960004752 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 395960004753 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 395960004754 carboxyltransferase (CT) interaction site; other site 395960004755 biotinylation site [posttranslational modification]; other site 395960004756 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 395960004757 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 395960004758 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 395960004759 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 395960004760 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960004761 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960004762 Walker A/P-loop; other site 395960004763 ATP binding site [chemical binding]; other site 395960004764 Q-loop/lid; other site 395960004765 ABC transporter signature motif; other site 395960004766 Walker B; other site 395960004767 D-loop; other site 395960004768 H-loop/switch region; other site 395960004769 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960004770 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 395960004771 dimer interface [polypeptide binding]; other site 395960004772 conserved gate region; other site 395960004773 putative PBP binding loops; other site 395960004774 ABC-ATPase subunit interface; other site 395960004775 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395960004776 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 395960004777 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 395960004778 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 395960004779 substrate binding site [chemical binding]; other site 395960004780 oxyanion hole (OAH) forming residues; other site 395960004781 trimer interface [polypeptide binding]; other site 395960004782 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 395960004783 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960004784 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395960004785 acyl-activating enzyme (AAE) consensus motif; other site 395960004786 acyl-activating enzyme (AAE) consensus motif; other site 395960004787 putative AMP binding site [chemical binding]; other site 395960004788 putative active site [active] 395960004789 putative CoA binding site [chemical binding]; other site 395960004790 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395960004791 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 395960004792 Bacterial transcriptional regulator; Region: IclR; pfam01614 395960004793 enoyl-CoA hydratase; Region: PLN02864 395960004794 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 395960004795 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 395960004796 dimer interaction site [polypeptide binding]; other site 395960004797 substrate-binding tunnel; other site 395960004798 active site 395960004799 catalytic site [active] 395960004800 substrate binding site [chemical binding]; other site 395960004801 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960004802 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395960004803 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960004804 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960004805 Walker A/P-loop; other site 395960004806 ATP binding site [chemical binding]; other site 395960004807 Q-loop/lid; other site 395960004808 ABC transporter signature motif; other site 395960004809 Walker B; other site 395960004810 D-loop; other site 395960004811 H-loop/switch region; other site 395960004812 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960004813 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960004814 Walker A/P-loop; other site 395960004815 ATP binding site [chemical binding]; other site 395960004816 Q-loop/lid; other site 395960004817 ABC transporter signature motif; other site 395960004818 Walker B; other site 395960004819 D-loop; other site 395960004820 H-loop/switch region; other site 395960004821 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960004822 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960004823 TM-ABC transporter signature motif; other site 395960004824 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960004825 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960004826 TM-ABC transporter signature motif; other site 395960004827 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395960004828 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960004829 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 395960004830 E3 interaction surface; other site 395960004831 lipoyl attachment site [posttranslational modification]; other site 395960004832 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960004833 YtkA-like; Region: YtkA; pfam13115 395960004834 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 395960004835 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 395960004836 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960004837 catalytic residue [active] 395960004838 serine O-acetyltransferase; Region: cysE; TIGR01172 395960004839 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 395960004840 trimer interface [polypeptide binding]; other site 395960004841 active site 395960004842 substrate binding site [chemical binding]; other site 395960004843 CoA binding site [chemical binding]; other site 395960004844 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 395960004845 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 395960004846 Walker A/P-loop; other site 395960004847 ATP binding site [chemical binding]; other site 395960004848 Q-loop/lid; other site 395960004849 ABC transporter signature motif; other site 395960004850 Walker B; other site 395960004851 D-loop; other site 395960004852 H-loop/switch region; other site 395960004853 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960004854 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 395960004855 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 395960004856 dimer interface [polypeptide binding]; other site 395960004857 conserved gate region; other site 395960004858 ABC-ATPase subunit interface; other site 395960004859 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 395960004860 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 395960004861 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 395960004862 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960004863 acyl-activating enzyme (AAE) consensus motif; other site 395960004864 AMP binding site [chemical binding]; other site 395960004865 active site 395960004866 CoA binding site [chemical binding]; other site 395960004867 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 395960004868 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 395960004869 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 395960004870 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 395960004871 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 395960004872 putative active site pocket [active] 395960004873 dimerization interface [polypeptide binding]; other site 395960004874 putative catalytic residue [active] 395960004875 Fe-only nitrogenase accessory protein AnfO; Region: anfO_nitrog; TIGR02940 395960004876 Fe-only nitrogenase, beta subunit; Region: anfK_nitrog; TIGR02931 395960004877 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 395960004878 Vanadium/alternative nitrogenase delta subunit; Region: AnfG_VnfG; pfam03139 395960004879 nitrogenase iron-iron protein, alpha chain; Region: ANFD; TIGR01861 395960004880 Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase...; Region: Nitrogenase_VFe_alpha; cd01977 395960004881 nitrogenase iron protein; Region: nifH; TIGR01287 395960004882 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 395960004883 Nucleotide-binding sites [chemical binding]; other site 395960004884 Walker A motif; other site 395960004885 Switch I region of nucleotide binding site; other site 395960004886 Fe4S4 binding sites [ion binding]; other site 395960004887 Switch II region of nucleotide binding site; other site 395960004888 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 395960004889 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 395960004890 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 395960004891 Walker A motif; other site 395960004892 ATP binding site [chemical binding]; other site 395960004893 Walker B motif; other site 395960004894 arginine finger; other site 395960004895 AAK_UMPK-MosAB: This CD includes the alpha and beta subunits of the Mo storage protein (MosA and MosB) which are related to uridine monophosphate kinase (UMPK) enzymes that catalyze the phosphorylation of UMP by ATP, yielding UDP, and playing a key role...; Region: AAK_UMPK-MosAB; cd04255 395960004896 putative nucleotide binding site [chemical binding]; other site 395960004897 putative substrate binding site [chemical binding]; other site 395960004898 AAK_UMPK-MosAB: This CD includes the alpha and beta subunits of the Mo storage protein (MosA and MosB) which are related to uridine monophosphate kinase (UMPK) enzymes that catalyze the phosphorylation of UMP by ATP, yielding UDP, and playing a key role...; Region: AAK_UMPK-MosAB; cd04255 395960004899 putative nucleotide binding site [chemical binding]; other site 395960004900 putative substrate binding site [chemical binding]; other site 395960004901 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395960004902 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395960004903 DNA-binding site [nucleotide binding]; DNA binding site 395960004904 FCD domain; Region: FCD; pfam07729 395960004905 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395960004906 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960004907 Walker A/P-loop; other site 395960004908 ATP binding site [chemical binding]; other site 395960004909 Q-loop/lid; other site 395960004910 ABC transporter signature motif; other site 395960004911 Walker B; other site 395960004912 D-loop; other site 395960004913 H-loop/switch region; other site 395960004914 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960004915 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 395960004916 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960004917 Walker A/P-loop; other site 395960004918 ATP binding site [chemical binding]; other site 395960004919 Q-loop/lid; other site 395960004920 ABC transporter signature motif; other site 395960004921 Walker B; other site 395960004922 D-loop; other site 395960004923 H-loop/switch region; other site 395960004924 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 395960004925 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395960004926 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_9; cd08496 395960004927 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395960004928 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 395960004929 dimer interface [polypeptide binding]; other site 395960004930 conserved gate region; other site 395960004931 putative PBP binding loops; other site 395960004932 ABC-ATPase subunit interface; other site 395960004933 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395960004934 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 395960004935 dimer interface [polypeptide binding]; other site 395960004936 conserved gate region; other site 395960004937 ABC-ATPase subunit interface; other site 395960004938 acyl-CoA synthetase; Validated; Region: PRK06178 395960004939 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960004940 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 395960004941 putative AMP binding site [chemical binding]; other site 395960004942 putative active site [active] 395960004943 acyl-activating enzyme (AAE) consensus motif; other site 395960004944 putative CoA binding site [chemical binding]; other site 395960004945 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 395960004946 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395960004947 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395960004948 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 395960004949 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 395960004950 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 395960004951 carboxyltransferase (CT) interaction site; other site 395960004952 biotinylation site [posttranslational modification]; other site 395960004953 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 395960004954 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 395960004955 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; cd03440 395960004956 active site 1 [active] 395960004957 active site 2 [active] 395960004958 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 395960004959 Subunit I/III interface [polypeptide binding]; other site 395960004960 Cytochrome c; Region: Cytochrom_C; pfam00034 395960004961 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 395960004962 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 395960004963 K-pathway; other site 395960004964 Binuclear center (active site) [active] 395960004965 Putative proton exit pathway; other site 395960004966 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 395960004967 MoxR-like ATPases [General function prediction only]; Region: COG0714 395960004968 Walker A motif; other site 395960004969 ATP binding site [chemical binding]; other site 395960004970 Walker B motif; other site 395960004971 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 395960004972 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 395960004973 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 395960004974 metal ion-dependent adhesion site (MIDAS); other site 395960004975 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 395960004976 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 395960004977 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395960004978 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 395960004979 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 395960004980 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 395960004981 Peptidase C26; Region: Peptidase_C26; pfam07722 395960004982 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 395960004983 catalytic triad [active] 395960004984 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 395960004985 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 395960004986 Cl- selectivity filter; other site 395960004987 Cl- binding residues [ion binding]; other site 395960004988 pore gating glutamate residue; other site 395960004989 dimer interface [polypeptide binding]; other site 395960004990 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 395960004991 allophanate hydrolase; Provisional; Region: PRK08186 395960004992 Amidase; Region: Amidase; cl11426 395960004993 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395960004994 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395960004995 DNA-binding site [nucleotide binding]; DNA binding site 395960004996 FCD domain; Region: FCD; pfam07729 395960004997 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 395960004998 SnoaL-like domain; Region: SnoaL_3; pfam13474 395960004999 amidase; Provisional; Region: PRK09201 395960005000 Amidase; Region: Amidase; pfam01425 395960005001 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 395960005002 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395960005003 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960005004 Walker A/P-loop; other site 395960005005 ATP binding site [chemical binding]; other site 395960005006 Q-loop/lid; other site 395960005007 ABC transporter signature motif; other site 395960005008 Walker B; other site 395960005009 D-loop; other site 395960005010 H-loop/switch region; other site 395960005011 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 395960005012 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960005013 Walker A/P-loop; other site 395960005014 ATP binding site [chemical binding]; other site 395960005015 Q-loop/lid; other site 395960005016 ABC transporter signature motif; other site 395960005017 Walker B; other site 395960005018 D-loop; other site 395960005019 H-loop/switch region; other site 395960005020 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960005021 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395960005022 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395960005023 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 395960005024 dimer interface [polypeptide binding]; other site 395960005025 conserved gate region; other site 395960005026 putative PBP binding loops; other site 395960005027 ABC-ATPase subunit interface; other site 395960005028 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395960005029 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 395960005030 dimer interface [polypeptide binding]; other site 395960005031 conserved gate region; other site 395960005032 putative PBP binding loops; other site 395960005033 ABC-ATPase subunit interface; other site 395960005034 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 395960005035 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395960005036 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395960005037 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 395960005038 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395960005039 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 395960005040 dimer interface [polypeptide binding]; other site 395960005041 conserved gate region; other site 395960005042 ABC-ATPase subunit interface; other site 395960005043 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 395960005044 putative PBP binding loops; other site 395960005045 dimer interface [polypeptide binding]; other site 395960005046 ABC-ATPase subunit interface; other site 395960005047 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395960005048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960005049 Walker A/P-loop; other site 395960005050 ATP binding site [chemical binding]; other site 395960005051 Q-loop/lid; other site 395960005052 ABC transporter signature motif; other site 395960005053 Walker B; other site 395960005054 D-loop; other site 395960005055 H-loop/switch region; other site 395960005056 TOBE domain; Region: TOBE_2; pfam08402 395960005057 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 395960005058 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395960005059 active site 395960005060 metal binding site [ion binding]; metal-binding site 395960005061 hexamer interface [polypeptide binding]; other site 395960005062 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 395960005063 Response regulator receiver domain; Region: Response_reg; pfam00072 395960005064 active site 395960005065 phosphorylation site [posttranslational modification] 395960005066 intermolecular recognition site; other site 395960005067 dimerization interface [polypeptide binding]; other site 395960005068 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 395960005069 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 395960005070 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 395960005071 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 395960005072 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395960005073 phosphoglucomutase; Validated; Region: PRK07564 395960005074 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 395960005075 active site 395960005076 substrate binding site [chemical binding]; other site 395960005077 metal binding site [ion binding]; metal-binding site 395960005078 NnrU protein; Region: NnrU; pfam07298 395960005079 NnrS protein; Region: NnrS; pfam05940 395960005080 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 395960005081 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395960005082 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395960005083 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395960005084 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 395960005085 active site 395960005086 phosphorylation site [posttranslational modification] 395960005087 intermolecular recognition site; other site 395960005088 dimerization interface [polypeptide binding]; other site 395960005089 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 395960005090 DNA binding residues [nucleotide binding] 395960005091 dimerization interface [polypeptide binding]; other site 395960005092 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 395960005093 GAF domain; Region: GAF; cl17456 395960005094 Phytochrome region; Region: PHY; pfam00360 395960005095 Histidine kinase; Region: HisKA_3; pfam07730 395960005096 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 395960005097 ATP binding site [chemical binding]; other site 395960005098 Mg2+ binding site [ion binding]; other site 395960005099 G-X-G motif; other site 395960005100 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 395960005101 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 395960005102 PUCC protein; Region: PUCC; pfam03209 395960005103 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 395960005104 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395960005105 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 395960005106 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960005107 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960005108 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 395960005109 Protein export membrane protein; Region: SecD_SecF; cl14618 395960005110 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 395960005111 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 395960005112 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 395960005113 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 395960005114 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 395960005115 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395960005116 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 395960005117 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 395960005118 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 395960005119 domain interfaces; other site 395960005120 active site 395960005121 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 395960005122 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 395960005123 Walker A motif; other site 395960005124 ATP binding site [chemical binding]; other site 395960005125 Walker B motif; other site 395960005126 arginine finger; other site 395960005127 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 395960005128 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 395960005129 metal ion-dependent adhesion site (MIDAS); other site 395960005130 PilZ domain; Region: PilZ; pfam07238 395960005131 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 395960005132 substrate binding site [chemical binding]; other site 395960005133 active site 395960005134 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395960005135 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 395960005136 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395960005137 phytoene desaturase; Region: crtI_fam; TIGR02734 395960005138 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395960005139 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 395960005140 active site lid residues [active] 395960005141 substrate binding pocket [chemical binding]; other site 395960005142 catalytic residues [active] 395960005143 substrate-Mg2+ binding site; other site 395960005144 aspartate-rich region 1; other site 395960005145 aspartate-rich region 2; other site 395960005146 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 395960005147 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 395960005148 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 395960005149 Ligand Binding Site [chemical binding]; other site 395960005150 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 395960005151 phytoene desaturase; Region: crtI_fam; TIGR02734 395960005152 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395960005153 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 395960005154 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 395960005155 substrate binding pocket [chemical binding]; other site 395960005156 chain length determination region; other site 395960005157 substrate-Mg2+ binding site; other site 395960005158 catalytic residues [active] 395960005159 aspartate-rich region 1; other site 395960005160 active site lid residues [active] 395960005161 aspartate-rich region 2; other site 395960005162 O-methyltransferase; Region: Methyltransf_2; pfam00891 395960005163 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 395960005164 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 395960005165 putative NAD(P) binding site [chemical binding]; other site 395960005166 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 395960005167 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 395960005168 Chlide_reductase_Y : Y subunit of chlorophyllide (chlide) reductase (BchY). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase...; Region: Chlide_reductase_Y; cd01980 395960005169 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 395960005170 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 395960005171 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 395960005172 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 395960005173 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 395960005174 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 395960005175 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 395960005176 subunit M interface; other site 395960005177 subunit H interface; other site 395960005178 quinone binding site; other site 395960005179 bacteriopheophytin binding site; other site 395960005180 bacteriochlorophyll binding site; other site 395960005181 cytochrome C subunit interface; other site 395960005182 Fe binding site [ion binding]; other site 395960005183 Subunit M of bacterial photosynthetic reaction center; Region: Photo-RC_M; cd09291 395960005184 subunit H interface; other site 395960005185 subunit L interface; other site 395960005186 bacteriopheophytin binding site; other site 395960005187 carotenoid binding site; other site 395960005188 bacteriochlorophyll binding site; other site 395960005189 cytochrome C interface; other site 395960005190 quinone binding site; other site 395960005191 Fe binding site [ion binding]; other site 395960005192 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 395960005193 PAS domain; Region: PAS; smart00091 395960005194 putative active site [active] 395960005195 heme pocket [chemical binding]; other site 395960005196 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395960005197 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 395960005198 UbiA prenyltransferase family; Region: UbiA; pfam01040 395960005199 PUCC protein; Region: PUCC; pfam03209 395960005200 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 395960005201 TspO/MBR family; Region: TspO_MBR; pfam03073 395960005202 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395960005203 Cytochrome c; Region: Cytochrom_C; cl11414 395960005204 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 395960005205 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395960005206 PAS fold; Region: PAS_2; pfam08446 395960005207 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395960005208 GAF domain; Region: GAF; pfam01590 395960005209 Phytochrome region; Region: PHY; pfam00360 395960005210 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 395960005211 PAS domain; Region: PAS_9; pfam13426 395960005212 putative active site [active] 395960005213 heme pocket [chemical binding]; other site 395960005214 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 395960005215 heme binding pocket [chemical binding]; other site 395960005216 heme ligand [chemical binding]; other site 395960005217 B12 binding domain; Region: B12-binding_2; pfam02607 395960005218 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cd02065 395960005219 B12 binding site [chemical binding]; other site 395960005220 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 395960005221 Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_N; cd01979 395960005222 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 395960005223 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 395960005224 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 395960005225 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 395960005226 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 395960005227 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 395960005228 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 395960005229 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 395960005230 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 395960005231 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 395960005232 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 395960005233 S-adenosylmethionine binding site [chemical binding]; other site 395960005234 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 395960005235 PUCC protein; Region: PUCC; pfam03209 395960005236 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl17581 395960005237 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 395960005238 subunit M interaction residues [polypeptide binding]; other site 395960005239 subunit L interaction residues [polypeptide binding]; other site 395960005240 putative proton transfer pathway, P1; other site 395960005241 putative proton transfer pathway, P2; other site 395960005242 Bacterial PH domain; Region: DUF304; pfam03703 395960005243 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 395960005244 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 395960005245 diiron binding motif [ion binding]; other site 395960005246 putative photosynthetic complex assembly protein 2; Region: photo_alph_chp2; TIGR03055 395960005247 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 395960005248 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 395960005249 substrate-cofactor binding pocket; other site 395960005250 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960005251 catalytic residue [active] 395960005252 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960005253 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960005254 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 395960005255 putative dimerization interface [polypeptide binding]; other site 395960005256 Response regulator receiver domain; Region: Response_reg; pfam00072 395960005257 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 395960005258 active site 395960005259 phosphorylation site [posttranslational modification] 395960005260 intermolecular recognition site; other site 395960005261 dimerization interface [polypeptide binding]; other site 395960005262 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 395960005263 putative binding surface; other site 395960005264 active site 395960005265 Response regulator receiver domain; Region: Response_reg; pfam00072 395960005266 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 395960005267 active site 395960005268 phosphorylation site [posttranslational modification] 395960005269 intermolecular recognition site; other site 395960005270 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960005271 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 395960005272 active site 395960005273 phosphorylation site [posttranslational modification] 395960005274 intermolecular recognition site; other site 395960005275 dimerization interface [polypeptide binding]; other site 395960005276 PAS domain S-box; Region: sensory_box; TIGR00229 395960005277 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 395960005278 putative active site [active] 395960005279 heme pocket [chemical binding]; other site 395960005280 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395960005281 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 395960005282 putative active site [active] 395960005283 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 395960005284 dimer interface [polypeptide binding]; other site 395960005285 phosphorylation site [posttranslational modification] 395960005286 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 395960005287 ATP binding site [chemical binding]; other site 395960005288 Mg2+ binding site [ion binding]; other site 395960005289 G-X-G motif; other site 395960005290 Response regulator receiver domain; Region: Response_reg; pfam00072 395960005291 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 395960005292 active site 395960005293 phosphorylation site [posttranslational modification] 395960005294 intermolecular recognition site; other site 395960005295 dimerization interface [polypeptide binding]; other site 395960005296 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 395960005297 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 395960005298 homodimer interface [polypeptide binding]; other site 395960005299 active site 395960005300 heterodimer interface [polypeptide binding]; other site 395960005301 catalytic residue [active] 395960005302 metal binding site [ion binding]; metal-binding site 395960005303 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 395960005304 multimerization interface [polypeptide binding]; other site 395960005305 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 395960005306 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 395960005307 Walker A motif; other site 395960005308 ATP binding site [chemical binding]; other site 395960005309 Walker B motif; other site 395960005310 arginine finger; other site 395960005311 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960005312 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960005313 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 395960005314 dimerization interface [polypeptide binding]; other site 395960005315 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 395960005316 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395960005317 putative active site [active] 395960005318 catalytic triad [active] 395960005319 putative dimer interface [polypeptide binding]; other site 395960005320 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960005321 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 395960005322 putative ligand binding site [chemical binding]; other site 395960005323 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960005324 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960005325 TM-ABC transporter signature motif; other site 395960005326 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960005327 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960005328 TM-ABC transporter signature motif; other site 395960005329 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960005330 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960005331 Walker A/P-loop; other site 395960005332 ATP binding site [chemical binding]; other site 395960005333 Q-loop/lid; other site 395960005334 ABC transporter signature motif; other site 395960005335 Walker B; other site 395960005336 D-loop; other site 395960005337 H-loop/switch region; other site 395960005338 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960005339 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960005340 Walker A/P-loop; other site 395960005341 ATP binding site [chemical binding]; other site 395960005342 Q-loop/lid; other site 395960005343 ABC transporter signature motif; other site 395960005344 Walker B; other site 395960005345 D-loop; other site 395960005346 H-loop/switch region; other site 395960005347 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395960005348 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395960005349 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 395960005350 catalytic site [active] 395960005351 TAP-like protein; Region: Abhydrolase_4; pfam08386 395960005352 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 395960005353 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 395960005354 homodimer interface [polypeptide binding]; other site 395960005355 substrate-cofactor binding pocket; other site 395960005356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960005357 catalytic residue [active] 395960005358 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 395960005359 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395960005360 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395960005361 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395960005362 inhibitor site; inhibition site 395960005363 active site 395960005364 dimer interface [polypeptide binding]; other site 395960005365 catalytic residue [active] 395960005366 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395960005367 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395960005368 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395960005369 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 395960005370 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 395960005371 Repair protein; Region: Repair_PSII; pfam04536 395960005372 Repair protein; Region: Repair_PSII; pfam04536 395960005373 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395960005374 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 395960005375 putative C-terminal domain interface [polypeptide binding]; other site 395960005376 putative GSH binding site (G-site) [chemical binding]; other site 395960005377 putative dimer interface [polypeptide binding]; other site 395960005378 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 395960005379 putative N-terminal domain interface [polypeptide binding]; other site 395960005380 putative dimer interface [polypeptide binding]; other site 395960005381 putative substrate binding pocket (H-site) [chemical binding]; other site 395960005382 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 395960005383 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395960005384 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 395960005385 FAD binding pocket [chemical binding]; other site 395960005386 FAD binding motif [chemical binding]; other site 395960005387 phosphate binding motif [ion binding]; other site 395960005388 beta-alpha-beta structure motif; other site 395960005389 NAD binding pocket [chemical binding]; other site 395960005390 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395960005391 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395960005392 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 395960005393 Proline dehydrogenase; Region: Pro_dh; pfam01619 395960005394 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 395960005395 Glutamate binding site [chemical binding]; other site 395960005396 NAD binding site [chemical binding]; other site 395960005397 catalytic residues [active] 395960005398 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 395960005399 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 395960005400 catalytic loop [active] 395960005401 iron binding site [ion binding]; other site 395960005402 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395960005403 cyclase homology domain; Region: CHD; cd07302 395960005404 nucleotidyl binding site; other site 395960005405 metal binding site [ion binding]; metal-binding site 395960005406 dimer interface [polypeptide binding]; other site 395960005407 Domain of unknown function (DUF697); Region: DUF697; cl12064 395960005408 hypothetical protein; Provisional; Region: PRK05415 395960005409 YcjX-like family, DUF463; Region: DUF463; pfam04317 395960005410 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 395960005411 short chain dehydrogenase; Provisional; Region: PRK05650 395960005412 classical (c) SDRs; Region: SDR_c; cd05233 395960005413 NAD(P) binding site [chemical binding]; other site 395960005414 active site 395960005415 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 395960005416 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 395960005417 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960005418 catalytic residue [active] 395960005419 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 395960005420 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 395960005421 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 395960005422 RNA binding surface [nucleotide binding]; other site 395960005423 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 395960005424 Cupin domain; Region: Cupin_2; pfam07883 395960005425 glutamate racemase; Provisional; Region: PRK00865 395960005426 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 395960005427 CoenzymeA binding site [chemical binding]; other site 395960005428 subunit interaction site [polypeptide binding]; other site 395960005429 PHB binding site; other site 395960005430 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 395960005431 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 395960005432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960005433 catalytic residue [active] 395960005434 TIR domain; Region: TIR_2; pfam13676 395960005435 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 395960005436 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 395960005437 dimerization interface [polypeptide binding]; other site 395960005438 ATP binding site [chemical binding]; other site 395960005439 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 395960005440 dimerization interface [polypeptide binding]; other site 395960005441 ATP binding site [chemical binding]; other site 395960005442 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 395960005443 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395960005444 Domain of unknown function (DUF427); Region: DUF427; pfam04248 395960005445 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 395960005446 MarR family; Region: MarR_2; pfam12802 395960005447 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 395960005448 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 395960005449 putative di-iron ligands [ion binding]; other site 395960005450 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 395960005451 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 395960005452 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 395960005453 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 395960005454 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 395960005455 putative GSH binding site [chemical binding]; other site 395960005456 catalytic residues [active] 395960005457 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 395960005458 putative ADP-ribose binding site [chemical binding]; other site 395960005459 putative active site [active] 395960005460 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 395960005461 Beta-lactamase; Region: Beta-lactamase; pfam00144 395960005462 benzoylformate decarboxylase; Reviewed; Region: PRK07092 395960005463 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395960005464 PYR/PP interface [polypeptide binding]; other site 395960005465 dimer interface [polypeptide binding]; other site 395960005466 TPP binding site [chemical binding]; other site 395960005467 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395960005468 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 395960005469 TPP-binding site [chemical binding]; other site 395960005470 dimer interface [polypeptide binding]; other site 395960005471 Uncharacterized conserved protein [Function unknown]; Region: COG3777 395960005472 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 395960005473 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 395960005474 active site 2 [active] 395960005475 active site 1 [active] 395960005476 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395960005477 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395960005478 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960005479 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960005480 active site 395960005481 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 395960005482 Cytochrome P450; Region: p450; cl12078 395960005483 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 395960005484 isovaleryl-CoA dehydrogenase; Region: PLN02519 395960005485 substrate binding site [chemical binding]; other site 395960005486 FAD binding site [chemical binding]; other site 395960005487 catalytic base [active] 395960005488 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 395960005489 S-adenosylmethionine binding site [chemical binding]; other site 395960005490 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 395960005491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395960005492 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395960005493 hypothetical protein; Validated; Region: PRK07586 395960005494 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395960005495 PYR/PP interface [polypeptide binding]; other site 395960005496 dimer interface [polypeptide binding]; other site 395960005497 TPP binding site [chemical binding]; other site 395960005498 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 395960005499 TPP-binding site [chemical binding]; other site 395960005500 dimer interface [polypeptide binding]; other site 395960005501 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395960005502 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 395960005503 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 395960005504 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 395960005505 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 395960005506 active site 395960005507 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 395960005508 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 395960005509 putative binding surface; other site 395960005510 active site 395960005511 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 395960005512 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395960005513 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 395960005514 ATP binding site [chemical binding]; other site 395960005515 Mg2+ binding site [ion binding]; other site 395960005516 G-X-G motif; other site 395960005517 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 395960005518 CheW-like domain; Region: CheW; pfam01584 395960005519 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960005520 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 395960005521 active site 395960005522 phosphorylation site [posttranslational modification] 395960005523 intermolecular recognition site; other site 395960005524 dimerization interface [polypeptide binding]; other site 395960005525 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 395960005526 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 395960005527 Response regulator receiver domain; Region: Response_reg; pfam00072 395960005528 active site 395960005529 phosphorylation site [posttranslational modification] 395960005530 intermolecular recognition site; other site 395960005531 dimerization interface [polypeptide binding]; other site 395960005532 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 395960005533 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 395960005534 active site 395960005535 phosphorylation site [posttranslational modification] 395960005536 intermolecular recognition site; other site 395960005537 dimerization interface [polypeptide binding]; other site 395960005538 CheB methylesterase; Region: CheB_methylest; pfam01339 395960005539 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395960005540 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 395960005541 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 395960005542 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395960005543 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 395960005544 active site 395960005545 phosphorylation site [posttranslational modification] 395960005546 intermolecular recognition site; other site 395960005547 dimerization interface [polypeptide binding]; other site 395960005548 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 395960005549 DNA binding site [nucleotide binding] 395960005550 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 395960005551 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 395960005552 Walker A motif/ATP binding site; other site 395960005553 Walker B motif; other site 395960005554 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 395960005555 RNA polymerase sigma factor; Provisional; Region: PRK12514 395960005556 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960005557 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 395960005558 DNA binding residues [nucleotide binding] 395960005559 Anti-sigma-K factor rskA; Region: RskA; pfam10099 395960005560 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 395960005561 FHIPEP family; Region: FHIPEP; pfam00771 395960005562 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 395960005563 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395960005564 putative substrate translocation pore; other site 395960005565 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395960005566 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960005567 dimer interface [polypeptide binding]; other site 395960005568 putative CheW interface [polypeptide binding]; other site 395960005569 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395960005570 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960005571 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960005572 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960005573 metal binding site [ion binding]; metal-binding site 395960005574 active site 395960005575 I-site; other site 395960005576 Hemerythrin; Region: Hemerythrin; cd12107 395960005577 Iron permease FTR1 family; Region: FTR1; cl00475 395960005578 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395960005579 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 395960005580 Protein of unknown function (DUF3222); Region: DUF3222; pfam11519 395960005581 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395960005582 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 395960005583 catalytic site [active] 395960005584 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960005585 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 395960005586 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960005587 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 395960005588 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395960005589 FtsX-like permease family; Region: FtsX; pfam02687 395960005590 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395960005591 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395960005592 Walker A/P-loop; other site 395960005593 ATP binding site [chemical binding]; other site 395960005594 Q-loop/lid; other site 395960005595 ABC transporter signature motif; other site 395960005596 Walker B; other site 395960005597 D-loop; other site 395960005598 H-loop/switch region; other site 395960005599 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960005600 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960005601 putative ligand binding site [chemical binding]; other site 395960005602 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 395960005603 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 395960005604 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 395960005605 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395960005606 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 395960005607 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395960005608 active site 395960005609 catalytic tetrad [active] 395960005610 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960005611 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 395960005612 putative ligand binding site [chemical binding]; other site 395960005613 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960005614 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960005615 metal binding site [ion binding]; metal-binding site 395960005616 active site 395960005617 I-site; other site 395960005618 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 395960005619 active site 395960005620 Hemerythrin-like domain; Region: Hr-like; cd12108 395960005621 Fe binding site [ion binding]; other site 395960005622 YHS domain; Region: YHS; pfam04945 395960005623 YHS domain; Region: YHS; pfam04945 395960005624 Uncharacterized conserved protein [Function unknown]; Region: COG3350 395960005625 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 395960005626 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395960005627 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 395960005628 motif II; other site 395960005629 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 395960005630 putative homodimer interface [polypeptide binding]; other site 395960005631 putative homotetramer interface [polypeptide binding]; other site 395960005632 putative allosteric switch controlling residues; other site 395960005633 putative metal binding site [ion binding]; other site 395960005634 putative homodimer-homodimer interface [polypeptide binding]; other site 395960005635 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 395960005636 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 395960005637 putative active site [active] 395960005638 putative metal binding site [ion binding]; other site 395960005639 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 395960005640 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395960005641 Zn binding site [ion binding]; other site 395960005642 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 395960005643 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 395960005644 FeS/SAM binding site; other site 395960005645 HemN C-terminal domain; Region: HemN_C; pfam06969 395960005646 V4R domain; Region: V4R; cl15268 395960005647 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 395960005648 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 395960005649 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 395960005650 FeS/SAM binding site; other site 395960005651 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395960005652 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 395960005653 active site 395960005654 metal binding site [ion binding]; metal-binding site 395960005655 Protein kinase domain; Region: Pkinase; pfam00069 395960005656 Catalytic domain of Protein Kinases; Region: PKc; cd00180 395960005657 active site 395960005658 ATP binding site [chemical binding]; other site 395960005659 substrate binding site [chemical binding]; other site 395960005660 activation loop (A-loop); other site 395960005661 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 395960005662 Ligand Binding Site [chemical binding]; other site 395960005663 BON domain; Region: BON; pfam04972 395960005664 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 395960005665 BON domain; Region: BON; pfam04972 395960005666 BON domain; Region: BON; pfam04972 395960005667 putative phosphoketolase; Provisional; Region: PRK05261 395960005668 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 395960005669 TPP-binding site; other site 395960005670 XFP C-terminal domain; Region: XFP_C; pfam09363 395960005671 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 395960005672 Response regulator receiver domain; Region: Response_reg; pfam00072 395960005673 active site 395960005674 phosphorylation site [posttranslational modification] 395960005675 intermolecular recognition site; other site 395960005676 dimerization interface [polypeptide binding]; other site 395960005677 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 395960005678 PAS domain; Region: PAS_9; pfam13426 395960005679 putative active site [active] 395960005680 heme pocket [chemical binding]; other site 395960005681 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 395960005682 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395960005683 HAMP domain; Region: HAMP; pfam00672 395960005684 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960005685 dimer interface [polypeptide binding]; other site 395960005686 putative CheW interface [polypeptide binding]; other site 395960005687 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 395960005688 putative binding surface; other site 395960005689 active site 395960005690 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 395960005691 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395960005692 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 395960005693 ATP binding site [chemical binding]; other site 395960005694 Mg2+ binding site [ion binding]; other site 395960005695 G-X-G motif; other site 395960005696 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 395960005697 CheW-like domain; Region: CheW; pfam01584 395960005698 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960005699 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 395960005700 active site 395960005701 phosphorylation site [posttranslational modification] 395960005702 intermolecular recognition site; other site 395960005703 dimerization interface [polypeptide binding]; other site 395960005704 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 395960005705 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395960005706 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 395960005707 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 395960005708 Response regulator receiver domain; Region: Response_reg; pfam00072 395960005709 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 395960005710 active site 395960005711 phosphorylation site [posttranslational modification] 395960005712 intermolecular recognition site; other site 395960005713 dimerization interface [polypeptide binding]; other site 395960005714 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 395960005715 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 395960005716 dimer interface [polypeptide binding]; other site 395960005717 phosphorylation site [posttranslational modification] 395960005718 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 395960005719 ATP binding site [chemical binding]; other site 395960005720 Mg2+ binding site [ion binding]; other site 395960005721 G-X-G motif; other site 395960005722 Response regulator receiver domain; Region: Response_reg; pfam00072 395960005723 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 395960005724 active site 395960005725 phosphorylation site [posttranslational modification] 395960005726 intermolecular recognition site; other site 395960005727 dimerization interface [polypeptide binding]; other site 395960005728 Hpt domain; Region: Hpt; pfam01627 395960005729 putative binding surface; other site 395960005730 active site 395960005731 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395960005732 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 395960005733 active site 395960005734 phosphorylation site [posttranslational modification] 395960005735 intermolecular recognition site; other site 395960005736 dimerization interface [polypeptide binding]; other site 395960005737 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 395960005738 DNA binding residues [nucleotide binding] 395960005739 dimerization interface [polypeptide binding]; other site 395960005740 short chain dehydrogenase; Provisional; Region: PRK08339 395960005741 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 395960005742 putative NAD(P) binding site [chemical binding]; other site 395960005743 putative active site [active] 395960005744 short chain dehydrogenase; Provisional; Region: PRK06949 395960005745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960005746 NAD(P) binding site [chemical binding]; other site 395960005747 active site 395960005748 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 395960005749 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 395960005750 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 395960005751 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 395960005752 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 395960005753 Autotransporter beta-domain; Region: Autotransporter; smart00869 395960005754 choline dehydrogenase; Validated; Region: PRK02106 395960005755 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395960005756 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 395960005757 NAD(P) binding site [chemical binding]; other site 395960005758 catalytic residues [active] 395960005759 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 395960005760 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 395960005761 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 395960005762 putative efflux protein, MATE family; Region: matE; TIGR00797 395960005763 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 395960005764 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 395960005765 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 395960005766 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 395960005767 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 395960005768 camphor resistance protein CrcB; Provisional; Region: PRK14198 395960005769 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 395960005770 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395960005771 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960005772 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 395960005773 Competence-damaged protein; Region: CinA; pfam02464 395960005774 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395960005775 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960005776 active site 395960005777 amidase; Provisional; Region: PRK06170 395960005778 Amidase; Region: Amidase; cl11426 395960005779 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960005780 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 395960005781 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395960005782 acyl-activating enzyme (AAE) consensus motif; other site 395960005783 acyl-activating enzyme (AAE) consensus motif; other site 395960005784 putative AMP binding site [chemical binding]; other site 395960005785 putative active site [active] 395960005786 putative CoA binding site [chemical binding]; other site 395960005787 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 395960005788 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 395960005789 dimer interface [polypeptide binding]; other site 395960005790 active site 395960005791 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960005792 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960005793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960005794 NAD(P) binding site [chemical binding]; other site 395960005795 active site 395960005796 enoyl-CoA hydratase; Provisional; Region: PRK06688 395960005797 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 395960005798 substrate binding site [chemical binding]; other site 395960005799 oxyanion hole (OAH) forming residues; other site 395960005800 trimer interface [polypeptide binding]; other site 395960005801 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 395960005802 acyl-CoA synthetase; Provisional; Region: PRK12582 395960005803 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 395960005804 acyl-activating enzyme (AAE) consensus motif; other site 395960005805 putative AMP binding site [chemical binding]; other site 395960005806 putative active site [active] 395960005807 putative CoA binding site [chemical binding]; other site 395960005808 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960005809 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960005810 active site 395960005811 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960005812 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 395960005813 FAD binding site [chemical binding]; other site 395960005814 substrate binding site [chemical binding]; other site 395960005815 catalytic base [active] 395960005816 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960005817 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 395960005818 FAD binding site [chemical binding]; other site 395960005819 substrate binding site [chemical binding]; other site 395960005820 catalytic base [active] 395960005821 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 395960005822 putative FMN binding site [chemical binding]; other site 395960005823 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 395960005824 enoyl-CoA hydratase; Provisional; Region: PRK05995 395960005825 substrate binding site [chemical binding]; other site 395960005826 oxyanion hole (OAH) forming residues; other site 395960005827 trimer interface [polypeptide binding]; other site 395960005828 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 395960005829 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960005830 ligand binding site [chemical binding]; other site 395960005831 flexible hinge region; other site 395960005832 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 395960005833 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 395960005834 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960005835 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960005836 metal binding site [ion binding]; metal-binding site 395960005837 active site 395960005838 I-site; other site 395960005839 Flagellin N-methylase; Region: FliB; cl00497 395960005840 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 395960005841 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960005842 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960005843 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_2; cd08471 395960005844 putative effector binding pocket; other site 395960005845 putative dimerization interface [polypeptide binding]; other site 395960005846 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 395960005847 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960005848 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 395960005849 acyl-activating enzyme (AAE) consensus motif; other site 395960005850 AMP binding site [chemical binding]; other site 395960005851 active site 395960005852 CoA binding site [chemical binding]; other site 395960005853 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 395960005854 CoenzymeA binding site [chemical binding]; other site 395960005855 subunit interaction site [polypeptide binding]; other site 395960005856 PHB binding site; other site 395960005857 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 395960005858 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 395960005859 substrate binding site [chemical binding]; other site 395960005860 dimer interface [polypeptide binding]; other site 395960005861 NADP binding site [chemical binding]; other site 395960005862 catalytic residues [active] 395960005863 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 395960005864 substrate binding site [chemical binding]; other site 395960005865 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395960005866 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395960005867 NAD(P) binding site [chemical binding]; other site 395960005868 RES domain; Region: RES; pfam08808 395960005869 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 395960005870 Fatty acid desaturase; Region: FA_desaturase; pfam00487 395960005871 putative di-iron ligands [ion binding]; other site 395960005872 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 395960005873 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395960005874 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 395960005875 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 395960005876 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 395960005877 Moco binding site; other site 395960005878 metal coordination site [ion binding]; other site 395960005879 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 395960005880 Cytochrome P450; Region: p450; cl12078 395960005881 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 395960005882 amidase; Provisional; Region: PRK07486 395960005883 Amidase; Region: Amidase; pfam01425 395960005884 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 395960005885 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 395960005886 beta-galactosidase; Region: BGL; TIGR03356 395960005887 short chain dehydrogenase; Provisional; Region: PRK06125 395960005888 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960005889 NAD(P) binding site [chemical binding]; other site 395960005890 active site 395960005891 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960005892 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960005893 Walker A/P-loop; other site 395960005894 ATP binding site [chemical binding]; other site 395960005895 Q-loop/lid; other site 395960005896 ABC transporter signature motif; other site 395960005897 Walker B; other site 395960005898 D-loop; other site 395960005899 H-loop/switch region; other site 395960005900 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960005901 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960005902 Walker A/P-loop; other site 395960005903 ATP binding site [chemical binding]; other site 395960005904 Q-loop/lid; other site 395960005905 ABC transporter signature motif; other site 395960005906 Walker B; other site 395960005907 D-loop; other site 395960005908 H-loop/switch region; other site 395960005909 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960005910 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960005911 TM-ABC transporter signature motif; other site 395960005912 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960005913 TM-ABC transporter signature motif; other site 395960005914 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960005915 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_10; cd06345 395960005916 putative ligand binding site [chemical binding]; other site 395960005917 tartrate dehydrogenase; Region: TTC; TIGR02089 395960005918 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 395960005919 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395960005920 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 395960005921 NAD binding site [chemical binding]; other site 395960005922 allantoate amidohydrolase; Reviewed; Region: PRK09290 395960005923 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 395960005924 active site 395960005925 metal binding site [ion binding]; metal-binding site 395960005926 dimer interface [polypeptide binding]; other site 395960005927 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960005928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960005929 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 395960005930 dimerization interface [polypeptide binding]; other site 395960005931 hypothetical protein; Provisional; Region: PRK05463 395960005932 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395960005933 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_6; cd06340 395960005934 putative ligand binding site [chemical binding]; other site 395960005935 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960005936 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960005937 TM-ABC transporter signature motif; other site 395960005938 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960005939 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960005940 TM-ABC transporter signature motif; other site 395960005941 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960005942 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960005943 Walker A/P-loop; other site 395960005944 ATP binding site [chemical binding]; other site 395960005945 Q-loop/lid; other site 395960005946 ABC transporter signature motif; other site 395960005947 Walker B; other site 395960005948 D-loop; other site 395960005949 H-loop/switch region; other site 395960005950 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960005951 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960005952 Walker A/P-loop; other site 395960005953 ATP binding site [chemical binding]; other site 395960005954 Q-loop/lid; other site 395960005955 ABC transporter signature motif; other site 395960005956 Walker B; other site 395960005957 D-loop; other site 395960005958 H-loop/switch region; other site 395960005959 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 395960005960 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395960005961 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960005962 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960005963 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 395960005964 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 395960005965 active site 395960005966 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395960005967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960005968 NAD(P) binding site [chemical binding]; other site 395960005969 active site 395960005970 enoyl-CoA hydratase; Provisional; Region: PRK05981 395960005971 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 395960005972 substrate binding site [chemical binding]; other site 395960005973 oxyanion hole (OAH) forming residues; other site 395960005974 trimer interface [polypeptide binding]; other site 395960005975 Phosphotransferase enzyme family; Region: APH; pfam01636 395960005976 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 395960005977 putative active site [active] 395960005978 putative substrate binding site [chemical binding]; other site 395960005979 ATP binding site [chemical binding]; other site 395960005980 alpha-amylase/limit dextrinase; Region: PLN02877 395960005981 enoyl-CoA hydratase; Provisional; Region: PRK06494 395960005982 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 395960005983 substrate binding site [chemical binding]; other site 395960005984 oxyanion hole (OAH) forming residues; other site 395960005985 trimer interface [polypeptide binding]; other site 395960005986 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960005987 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 395960005988 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 395960005989 active site 395960005990 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 395960005991 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960005992 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395960005993 acyl-activating enzyme (AAE) consensus motif; other site 395960005994 acyl-activating enzyme (AAE) consensus motif; other site 395960005995 putative AMP binding site [chemical binding]; other site 395960005996 putative active site [active] 395960005997 putative CoA binding site [chemical binding]; other site 395960005998 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 395960005999 short chain dehydrogenase; Provisional; Region: PRK07677 395960006000 NAD(P) binding site [chemical binding]; other site 395960006001 substrate binding site [chemical binding]; other site 395960006002 homotetramer interface [polypeptide binding]; other site 395960006003 active site 395960006004 homodimer interface [polypeptide binding]; other site 395960006005 enoyl-CoA hydratase; Provisional; Region: PRK07509 395960006006 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 395960006007 substrate binding site [chemical binding]; other site 395960006008 oxyanion hole (OAH) forming residues; other site 395960006009 trimer interface [polypeptide binding]; other site 395960006010 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12406 395960006011 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960006012 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395960006013 acyl-activating enzyme (AAE) consensus motif; other site 395960006014 acyl-activating enzyme (AAE) consensus motif; other site 395960006015 putative AMP binding site [chemical binding]; other site 395960006016 putative active site [active] 395960006017 putative CoA binding site [chemical binding]; other site 395960006018 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395960006019 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 395960006020 dimer interface [polypeptide binding]; other site 395960006021 phosphorylation site [posttranslational modification] 395960006022 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 395960006023 ATP binding site [chemical binding]; other site 395960006024 G-X-G motif; other site 395960006025 Response regulator receiver domain; Region: Response_reg; pfam00072 395960006026 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 395960006027 active site 395960006028 phosphorylation site [posttranslational modification] 395960006029 intermolecular recognition site; other site 395960006030 dimerization interface [polypeptide binding]; other site 395960006031 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 395960006032 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960006033 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 395960006034 putative dimerization interface [polypeptide binding]; other site 395960006035 Predicted membrane protein [Function unknown]; Region: COG2855 395960006036 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 395960006037 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 395960006038 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 395960006039 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395960006040 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395960006041 ligand binding site [chemical binding]; other site 395960006042 short chain dehydrogenase; Provisional; Region: PRK07791 395960006043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960006044 NAD(P) binding site [chemical binding]; other site 395960006045 active site 395960006046 thiolase; Provisional; Region: PRK06158 395960006047 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 395960006048 active site 395960006049 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 395960006050 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 395960006051 DUF35 OB-fold domain; Region: DUF35; pfam01796 395960006052 amidase; Provisional; Region: PRK07056 395960006053 Amidase; Region: Amidase; cl11426 395960006054 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 395960006055 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 395960006056 CoenzymeA binding site [chemical binding]; other site 395960006057 subunit interaction site [polypeptide binding]; other site 395960006058 PHB binding site; other site 395960006059 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 395960006060 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395960006061 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395960006062 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 395960006063 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 395960006064 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 395960006065 DctM-like transporters; Region: DctM; pfam06808 395960006066 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 395960006067 hypothetical protein; Provisional; Region: PRK00872 395960006068 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 395960006069 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 395960006070 substrate binding site [chemical binding]; other site 395960006071 oxyanion hole (OAH) forming residues; other site 395960006072 trimer interface [polypeptide binding]; other site 395960006073 feruloyl-CoA synthase; Reviewed; Region: PRK08180 395960006074 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 395960006075 acyl-activating enzyme (AAE) consensus motif; other site 395960006076 putative AMP binding site [chemical binding]; other site 395960006077 putative active site [active] 395960006078 putative CoA binding site [chemical binding]; other site 395960006079 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 395960006080 active site 395960006081 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395960006082 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 395960006083 putative ligand binding site [chemical binding]; other site 395960006084 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960006085 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960006086 metal binding site [ion binding]; metal-binding site 395960006087 active site 395960006088 I-site; other site 395960006089 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960006090 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960006091 Walker A/P-loop; other site 395960006092 ATP binding site [chemical binding]; other site 395960006093 Q-loop/lid; other site 395960006094 ABC transporter signature motif; other site 395960006095 Walker B; other site 395960006096 D-loop; other site 395960006097 H-loop/switch region; other site 395960006098 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960006099 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960006100 TM-ABC transporter signature motif; other site 395960006101 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960006102 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960006103 Walker A/P-loop; other site 395960006104 ATP binding site [chemical binding]; other site 395960006105 Q-loop/lid; other site 395960006106 ABC transporter signature motif; other site 395960006107 Walker B; other site 395960006108 D-loop; other site 395960006109 H-loop/switch region; other site 395960006110 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960006111 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960006112 TM-ABC transporter signature motif; other site 395960006113 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395960006114 MarR family; Region: MarR; pfam01047 395960006115 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 395960006116 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 395960006117 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 395960006118 TrkA-N domain; Region: TrkA_N; pfam02254 395960006119 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 395960006120 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 395960006121 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395960006122 cyclase homology domain; Region: CHD; cd07302 395960006123 nucleotidyl binding site; other site 395960006124 metal binding site [ion binding]; metal-binding site 395960006125 dimer interface [polypeptide binding]; other site 395960006126 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 395960006127 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 395960006128 MOFRL family; Region: MOFRL; pfam05161 395960006129 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960006130 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960006131 putative ligand binding site [chemical binding]; other site 395960006132 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 395960006133 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 395960006134 Fe-S cluster binding site [ion binding]; other site 395960006135 active site 395960006136 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 395960006137 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 395960006138 FeS/SAM binding site; other site 395960006139 Uncharacterized conserved protein [Function unknown]; Region: COG4544 395960006140 DNA Polymerase Y-family; Region: PolY_like; cd03468 395960006141 active site 395960006142 DNA binding site [nucleotide binding] 395960006143 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 395960006144 active site 395960006145 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 395960006146 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 395960006147 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 395960006148 generic binding surface I; other site 395960006149 generic binding surface II; other site 395960006150 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395960006151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960006152 NAD(P) binding site [chemical binding]; other site 395960006153 active site 395960006154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960006155 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 395960006156 substrate binding pocket [chemical binding]; other site 395960006157 dimerization interface [polypeptide binding]; other site 395960006158 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395960006159 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395960006160 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 395960006161 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 395960006162 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960006163 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395960006164 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 395960006165 enoyl-CoA hydratase; Provisional; Region: PRK05862 395960006166 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 395960006167 substrate binding site [chemical binding]; other site 395960006168 oxyanion hole (OAH) forming residues; other site 395960006169 trimer interface [polypeptide binding]; other site 395960006170 RNA polymerase sigma factor; Provisional; Region: PRK12512 395960006171 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960006172 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 395960006173 DNA binding residues [nucleotide binding] 395960006174 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 395960006175 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 395960006176 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 395960006177 N-terminal plug; other site 395960006178 ligand-binding site [chemical binding]; other site 395960006179 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 395960006180 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960006181 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960006182 metal binding site [ion binding]; metal-binding site 395960006183 active site 395960006184 I-site; other site 395960006185 RNA polymerase sigma factor; Provisional; Region: PRK12515 395960006186 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960006187 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 395960006188 DNA binding residues [nucleotide binding] 395960006189 TIGR03809 family protein; Region: TIGR03809 395960006190 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395960006191 HAMP domain; Region: HAMP; pfam00672 395960006192 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960006193 dimer interface [polypeptide binding]; other site 395960006194 putative CheW interface [polypeptide binding]; other site 395960006195 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 395960006196 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 395960006197 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 395960006198 dimerization interface [polypeptide binding]; other site 395960006199 PilZ domain; Region: PilZ; pfam07238 395960006200 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 395960006201 putative cofactor-binding repeat; Region: RR_fam_repeat; TIGR03807 395960006202 putative cofactor-binding repeat; Region: RR_fam_repeat; TIGR03807 395960006203 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 395960006204 putative substrate binding pocket [chemical binding]; other site 395960006205 AC domain interface; other site 395960006206 catalytic triad [active] 395960006207 AB domain interface; other site 395960006208 interchain disulfide; other site 395960006209 membrane ATPase/protein kinase; Provisional; Region: PRK09435 395960006210 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 395960006211 Walker A; other site 395960006212 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 395960006213 G4 box; other site 395960006214 G5 box; other site 395960006215 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; cl00391 395960006216 zinc binding site [ion binding]; other site 395960006217 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; cl00391 395960006218 active site clefts [active] 395960006219 zinc binding site [ion binding]; other site 395960006220 dimer interface [polypeptide binding]; other site 395960006221 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 395960006222 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 395960006223 putative active site [active] 395960006224 homotetrameric interface [polypeptide binding]; other site 395960006225 metal binding site [ion binding]; metal-binding site 395960006226 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 395960006227 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 395960006228 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 395960006229 active site 395960006230 substrate binding site [chemical binding]; other site 395960006231 coenzyme B12 binding site [chemical binding]; other site 395960006232 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 395960006233 B12 binding site [chemical binding]; other site 395960006234 cobalt ligand [ion binding]; other site 395960006235 Uncharacterized conserved protein [Function unknown]; Region: COG3791 395960006236 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 395960006237 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 395960006238 heterodimer interface [polypeptide binding]; other site 395960006239 substrate interaction site [chemical binding]; other site 395960006240 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 395960006241 catalytic center binding site [active] 395960006242 ATP binding site [chemical binding]; other site 395960006243 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 395960006244 homooctamer interface [polypeptide binding]; other site 395960006245 active site 395960006246 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 395960006247 dihydropteroate synthase; Region: DHPS; TIGR01496 395960006248 substrate binding pocket [chemical binding]; other site 395960006249 dimer interface [polypeptide binding]; other site 395960006250 inhibitor binding site; inhibition site 395960006251 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 395960006252 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 395960006253 Zonular occludens toxin (Zot); Region: Zot; cl17485 395960006254 hypothetical protein; Validated; Region: PRK09104 395960006255 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 395960006256 metal binding site [ion binding]; metal-binding site 395960006257 putative dimer interface [polypeptide binding]; other site 395960006258 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 395960006259 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 395960006260 N-terminal plug; other site 395960006261 ligand-binding site [chemical binding]; other site 395960006262 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 395960006263 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 395960006264 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 395960006265 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 395960006266 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 395960006267 dimerization interface [polypeptide binding]; other site 395960006268 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960006269 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960006270 dimer interface [polypeptide binding]; other site 395960006271 putative CheW interface [polypeptide binding]; other site 395960006272 aldolase II superfamily protein; Provisional; Region: PRK07044 395960006273 intersubunit interface [polypeptide binding]; other site 395960006274 active site 395960006275 Zn2+ binding site [ion binding]; other site 395960006276 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 395960006277 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 395960006278 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395960006279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960006280 NAD(P) binding site [chemical binding]; other site 395960006281 active site 395960006282 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960006283 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960006284 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 395960006285 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395960006286 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 395960006287 putative active site [active] 395960006288 heme pocket [chemical binding]; other site 395960006289 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 395960006290 dimer interface [polypeptide binding]; other site 395960006291 phosphorylation site [posttranslational modification] 395960006292 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 395960006293 ATP binding site [chemical binding]; other site 395960006294 Mg2+ binding site [ion binding]; other site 395960006295 G-X-G motif; other site 395960006296 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 395960006297 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 395960006298 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 395960006299 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 395960006300 NodB motif; other site 395960006301 active site 395960006302 catalytic site [active] 395960006303 metal binding site [ion binding]; metal-binding site 395960006304 Predicted integral membrane protein [Function unknown]; Region: COG5436 395960006305 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 395960006306 Transglycosylase; Region: Transgly; pfam00912 395960006307 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 395960006308 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 395960006309 hypothetical protein; Provisional; Region: PRK05170 395960006310 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395960006311 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395960006312 MarR family; Region: MarR_2; pfam12802 395960006313 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 395960006314 Cytochrome P450; Region: p450; cl12078 395960006315 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 395960006316 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 395960006317 catalytic loop [active] 395960006318 iron binding site [ion binding]; other site 395960006319 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960006320 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 395960006321 putative ligand binding site [chemical binding]; other site 395960006322 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 395960006323 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 395960006324 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 395960006325 N-terminal plug; other site 395960006326 ligand-binding site [chemical binding]; other site 395960006327 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 395960006328 Beta-lactamase; Region: Beta-lactamase; pfam00144 395960006329 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 395960006330 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 395960006331 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395960006332 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 395960006333 putative substrate translocation pore; other site 395960006334 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 395960006335 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 395960006336 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 395960006337 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395960006338 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 395960006339 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395960006340 putative active site [active] 395960006341 heme pocket [chemical binding]; other site 395960006342 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 395960006343 putative active site [active] 395960006344 heme pocket [chemical binding]; other site 395960006345 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960006346 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960006347 dimer interface [polypeptide binding]; other site 395960006348 putative CheW interface [polypeptide binding]; other site 395960006349 Phage-related protein [Function unknown]; Region: COG4695 395960006350 Phage portal protein; Region: Phage_portal; pfam04860 395960006351 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 395960006352 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 395960006353 Phage capsid family; Region: Phage_capsid; pfam05065 395960006354 Domain of unknown function (DUF2019); Region: DUF2019; pfam09450 395960006355 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 395960006356 ADP-ribose binding site [chemical binding]; other site 395960006357 Uncharacterized conserved protein [Function unknown]; Region: COG3465 395960006358 Uncharacterized conserved protein [Function unknown]; Region: COG5323 395960006359 Terminase-like family; Region: Terminase_6; pfam03237 395960006360 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395960006361 active site 395960006362 substrate binding sites [chemical binding]; other site 395960006363 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 395960006364 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 395960006365 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 395960006366 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 395960006367 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 395960006368 Phage major tail protein 2; Region: Phage_tail_2; cl11463 395960006369 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 395960006370 phage conserved hypothetical protein; Region: phage_TIGR02216 395960006371 Phage-related minor tail protein [Function unknown]; Region: COG5281 395960006372 TIGR02217 family protein; Region: chp_TIGR02217 395960006373 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 395960006374 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 395960006375 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 395960006376 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 395960006377 NlpC/P60 family; Region: NLPC_P60; cl17555 395960006378 Uncharacterized conserved protein [Function unknown]; Region: COG3791 395960006379 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395960006380 MarR family; Region: MarR_2; pfam12802 395960006381 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 395960006382 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 395960006383 Putative phage tail protein; Region: Phage-tail_3; pfam13550 395960006384 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 395960006385 Predicted chitinase [General function prediction only]; Region: COG3179 395960006386 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395960006387 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 395960006388 active site 395960006389 phosphorylation site [posttranslational modification] 395960006390 intermolecular recognition site; other site 395960006391 dimerization interface [polypeptide binding]; other site 395960006392 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 395960006393 DNA binding site [nucleotide binding] 395960006394 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960006395 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 395960006396 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 395960006397 ATP binding site [chemical binding]; other site 395960006398 Mg2+ binding site [ion binding]; other site 395960006399 G-X-G motif; other site 395960006400 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 395960006401 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 395960006402 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 395960006403 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 395960006404 binding surface 395960006405 TPR motif; other site 395960006406 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 395960006407 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 395960006408 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 395960006409 formamidase; Provisional; Region: amiF; PRK13287 395960006410 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 395960006411 multimer interface [polypeptide binding]; other site 395960006412 active site 395960006413 catalytic triad [active] 395960006414 dimer interface [polypeptide binding]; other site 395960006415 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395960006416 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 395960006417 putative substrate translocation pore; other site 395960006418 Helix-turn-helix domain; Region: HTH_31; pfam13560 395960006419 salt bridge; other site 395960006420 non-specific DNA binding site [nucleotide binding]; other site 395960006421 sequence-specific DNA binding site [nucleotide binding]; other site 395960006422 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 395960006423 diiron binding motif [ion binding]; other site 395960006424 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 395960006425 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 395960006426 catalytic loop [active] 395960006427 iron binding site [ion binding]; other site 395960006428 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 395960006429 diiron binding motif [ion binding]; other site 395960006430 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395960006431 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395960006432 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 395960006433 protein binding site [polypeptide binding]; other site 395960006434 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 395960006435 protein binding site [polypeptide binding]; other site 395960006436 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395960006437 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 395960006438 active site 395960006439 phosphorylation site [posttranslational modification] 395960006440 intermolecular recognition site; other site 395960006441 dimerization interface [polypeptide binding]; other site 395960006442 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 395960006443 DNA binding site [nucleotide binding] 395960006444 PAS fold; Region: PAS_3; pfam08447 395960006445 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 395960006446 putative active site [active] 395960006447 heme pocket [chemical binding]; other site 395960006448 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960006449 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960006450 dimer interface [polypeptide binding]; other site 395960006451 putative CheW interface [polypeptide binding]; other site 395960006452 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960006453 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 395960006454 dimerization interface [polypeptide binding]; other site 395960006455 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 395960006456 dimer interface [polypeptide binding]; other site 395960006457 phosphorylation site [posttranslational modification] 395960006458 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 395960006459 ATP binding site [chemical binding]; other site 395960006460 Mg2+ binding site [ion binding]; other site 395960006461 G-X-G motif; other site 395960006462 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 395960006463 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395960006464 metal binding triad; other site 395960006465 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395960006466 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395960006467 metal binding triad; other site 395960006468 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395960006469 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395960006470 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960006471 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 395960006472 catalytic triad [active] 395960006473 putative active site [active] 395960006474 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 395960006475 Autotransporter beta-domain; Region: Autotransporter; smart00869 395960006476 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 395960006477 PAS fold; Region: PAS_3; pfam08447 395960006478 putative active site [active] 395960006479 heme pocket [chemical binding]; other site 395960006480 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395960006481 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 395960006482 dimer interface [polypeptide binding]; other site 395960006483 phosphorylation site [posttranslational modification] 395960006484 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 395960006485 ATP binding site [chemical binding]; other site 395960006486 Mg2+ binding site [ion binding]; other site 395960006487 G-X-G motif; other site 395960006488 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 395960006489 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 395960006490 Cation efflux family; Region: Cation_efflux; cl00316 395960006491 Cation efflux family; Region: Cation_efflux; cl00316 395960006492 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 395960006493 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395960006494 NAD(P) binding site [chemical binding]; other site 395960006495 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 395960006496 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 395960006497 FMN binding site [chemical binding]; other site 395960006498 substrate binding site [chemical binding]; other site 395960006499 putative catalytic residue [active] 395960006500 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 395960006501 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 395960006502 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395960006503 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 395960006504 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 395960006505 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 395960006506 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 395960006507 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 395960006508 putative substrate translocation pore; other site 395960006509 formyl-coenzyme A transferase; Provisional; Region: PRK05398 395960006510 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395960006511 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 395960006512 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395960006513 DNA-binding site [nucleotide binding]; DNA binding site 395960006514 FCD domain; Region: FCD; pfam07729 395960006515 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 395960006516 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 395960006517 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 395960006518 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 395960006519 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 395960006520 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 395960006521 FeS/SAM binding site; other site 395960006522 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 395960006523 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 395960006524 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960006525 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960006526 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 395960006527 Fusaric acid resistance protein family; Region: FUSC; pfam04632 395960006528 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 395960006529 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960006530 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960006531 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 395960006532 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 395960006533 substrate binding site [chemical binding]; other site 395960006534 catalytic Zn binding site [ion binding]; other site 395960006535 NAD binding site [chemical binding]; other site 395960006536 structural Zn binding site [ion binding]; other site 395960006537 dimer interface [polypeptide binding]; other site 395960006538 HerA helicase [Replication, recombination, and repair]; Region: COG0433 395960006539 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 395960006540 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 395960006541 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960006542 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960006543 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960006544 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960006545 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960006546 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960006547 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960006548 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395960006549 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 395960006550 nucleophile elbow; other site 395960006551 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 395960006552 dimerization interface [polypeptide binding]; other site 395960006553 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395960006554 cyclase homology domain; Region: CHD; cd07302 395960006555 nucleotidyl binding site; other site 395960006556 metal binding site [ion binding]; metal-binding site 395960006557 dimer interface [polypeptide binding]; other site 395960006558 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960006559 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960006560 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 395960006561 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960006562 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960006563 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 395960006564 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960006565 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395960006566 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 395960006567 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 395960006568 FMN binding site [chemical binding]; other site 395960006569 active site 395960006570 catalytic residues [active] 395960006571 substrate binding site [chemical binding]; other site 395960006572 Predicted transcriptional regulator [Transcription]; Region: COG2944 395960006573 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 395960006574 non-specific DNA binding site [nucleotide binding]; other site 395960006575 salt bridge; other site 395960006576 sequence-specific DNA binding site [nucleotide binding]; other site 395960006577 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 395960006578 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 395960006579 catalytic motif [active] 395960006580 Catalytic residue [active] 395960006581 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 395960006582 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 395960006583 dimer interface [polypeptide binding]; other site 395960006584 phosphorylation site [posttranslational modification] 395960006585 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 395960006586 ATP binding site [chemical binding]; other site 395960006587 Mg2+ binding site [ion binding]; other site 395960006588 G-X-G motif; other site 395960006589 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395960006590 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 395960006591 Domain of unknown function DUF59; Region: DUF59; pfam01883 395960006592 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 395960006593 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 395960006594 Walker A motif; other site 395960006595 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 395960006596 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 395960006597 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 395960006598 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 395960006599 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 395960006600 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 395960006601 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 395960006602 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 395960006603 FeS/SAM binding site; other site 395960006604 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 395960006605 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 395960006606 phosphoglycolate phosphatase; Provisional; Region: PRK13222 395960006607 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 395960006608 motif II; other site 395960006609 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 395960006610 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395960006611 active site 395960006612 dimer interface [polypeptide binding]; other site 395960006613 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 395960006614 glutathione reductase; Validated; Region: PRK06116 395960006615 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395960006616 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395960006617 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395960006618 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 395960006619 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 395960006620 NAD synthetase; Provisional; Region: PRK13981 395960006621 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 395960006622 multimer interface [polypeptide binding]; other site 395960006623 active site 395960006624 catalytic triad [active] 395960006625 protein interface 1 [polypeptide binding]; other site 395960006626 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 395960006627 homodimer interface [polypeptide binding]; other site 395960006628 NAD binding pocket [chemical binding]; other site 395960006629 ATP binding pocket [chemical binding]; other site 395960006630 Mg binding site [ion binding]; other site 395960006631 active-site loop [active] 395960006632 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395960006633 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960006634 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 395960006635 Sulfatase; Region: Sulfatase; cl17466 395960006636 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 395960006637 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 395960006638 oligomeric interface; other site 395960006639 putative active site [active] 395960006640 homodimer interface [polypeptide binding]; other site 395960006641 Cupin domain; Region: Cupin_2; pfam07883 395960006642 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 395960006643 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 395960006644 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 395960006645 active site 395960006646 HIGH motif; other site 395960006647 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 395960006648 KMSKS motif; other site 395960006649 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 395960006650 tRNA binding surface [nucleotide binding]; other site 395960006651 anticodon binding site; other site 395960006652 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 395960006653 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960006654 Coenzyme A binding pocket [chemical binding]; other site 395960006655 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 395960006656 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 395960006657 active site 395960006658 catalytic residues [active] 395960006659 metal binding site [ion binding]; metal-binding site 395960006660 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 395960006661 hypothetical protein; Provisional; Region: PRK12474 395960006662 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395960006663 PYR/PP interface [polypeptide binding]; other site 395960006664 dimer interface [polypeptide binding]; other site 395960006665 TPP binding site [chemical binding]; other site 395960006666 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 395960006667 TPP-binding site [chemical binding]; other site 395960006668 dimer interface [polypeptide binding]; other site 395960006669 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395960006670 FAD binding domain; Region: FAD_binding_4; pfam01565 395960006671 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395960006672 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395960006673 Cytochrome c; Region: Cytochrom_C; pfam00034 395960006674 Cytochrome c [Energy production and conversion]; Region: COG3258 395960006675 Cytochrome c; Region: Cytochrom_C; pfam00034 395960006676 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 395960006677 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395960006678 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 395960006679 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 395960006680 Walker A/P-loop; other site 395960006681 ATP binding site [chemical binding]; other site 395960006682 Q-loop/lid; other site 395960006683 ABC transporter signature motif; other site 395960006684 Walker B; other site 395960006685 D-loop; other site 395960006686 H-loop/switch region; other site 395960006687 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 395960006688 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 395960006689 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 395960006690 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 395960006691 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 395960006692 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 395960006693 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395960006694 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 395960006695 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395960006696 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395960006697 ligand binding site [chemical binding]; other site 395960006698 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 395960006699 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 395960006700 active site residue [active] 395960006701 hypothetical protein; Provisional; Region: PRK08912 395960006702 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 395960006703 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960006704 homodimer interface [polypeptide binding]; other site 395960006705 catalytic residue [active] 395960006706 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 395960006707 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395960006708 Protein of unknown function (DUF1551); Region: DUF1551; pfam07585 395960006709 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 395960006710 B12 binding site [chemical binding]; other site 395960006711 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 395960006712 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 395960006713 FeS/SAM binding site; other site 395960006714 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 395960006715 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 395960006716 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 395960006717 putative acyl-acceptor binding pocket; other site 395960006718 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395960006719 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395960006720 NAD(P) binding site [chemical binding]; other site 395960006721 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 395960006722 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 395960006723 dimer interface [polypeptide binding]; other site 395960006724 active site 395960006725 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 395960006726 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 395960006727 active site 395960006728 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 395960006729 acyl carrier protein; Provisional; Region: PRK06508 395960006730 Putative ParB-like nuclease; Region: ParBc_2; cl17538 395960006731 MgtC family; Region: MgtC; pfam02308 395960006732 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 395960006733 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 395960006734 N-terminal plug; other site 395960006735 ligand-binding site [chemical binding]; other site 395960006736 HerA helicase [Replication, recombination, and repair]; Region: COG0433 395960006737 Domain of unknown function DUF87; Region: DUF87; pfam01935 395960006738 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 395960006739 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 395960006740 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 395960006741 motif II; other site 395960006742 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 395960006743 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 395960006744 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 395960006745 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395960006746 PYR/PP interface [polypeptide binding]; other site 395960006747 dimer interface [polypeptide binding]; other site 395960006748 TPP binding site [chemical binding]; other site 395960006749 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395960006750 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 395960006751 TPP-binding site [chemical binding]; other site 395960006752 dimer interface [polypeptide binding]; other site 395960006753 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 395960006754 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 395960006755 putative valine binding site [chemical binding]; other site 395960006756 dimer interface [polypeptide binding]; other site 395960006757 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 395960006758 Protein required for attachment to host cells; Region: Host_attach; pfam10116 395960006759 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 395960006760 EamA-like transporter family; Region: EamA; pfam00892 395960006761 EamA-like transporter family; Region: EamA; pfam00892 395960006762 ketol-acid reductoisomerase; Provisional; Region: PRK05479 395960006763 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 395960006764 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 395960006765 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395960006766 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395960006767 DNA-binding site [nucleotide binding]; DNA binding site 395960006768 FCD domain; Region: FCD; pfam07729 395960006769 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960006770 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960006771 putative ligand binding site [chemical binding]; other site 395960006772 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395960006773 short chain dehydrogenase; Provisional; Region: PRK06914 395960006774 NADP binding site [chemical binding]; other site 395960006775 active site 395960006776 steroid binding site; other site 395960006777 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 395960006778 dimer interface [polypeptide binding]; other site 395960006779 conserved gate region; other site 395960006780 ABC-ATPase subunit interface; other site 395960006781 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 395960006782 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395960006783 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960006784 Walker A/P-loop; other site 395960006785 ATP binding site [chemical binding]; other site 395960006786 Q-loop/lid; other site 395960006787 ABC transporter signature motif; other site 395960006788 Walker B; other site 395960006789 D-loop; other site 395960006790 H-loop/switch region; other site 395960006791 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960006792 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960006793 Walker A/P-loop; other site 395960006794 ATP binding site [chemical binding]; other site 395960006795 Q-loop/lid; other site 395960006796 ABC transporter signature motif; other site 395960006797 Walker B; other site 395960006798 D-loop; other site 395960006799 H-loop/switch region; other site 395960006800 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960006801 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 395960006802 dimer interface [polypeptide binding]; other site 395960006803 conserved gate region; other site 395960006804 ABC-ATPase subunit interface; other site 395960006805 NMT1-like family; Region: NMT1_2; pfam13379 395960006806 NMT1/THI5 like; Region: NMT1; pfam09084 395960006807 NUDIX domain; Region: NUDIX; pfam00293 395960006808 nudix motif; other site 395960006809 biotin synthase; Region: bioB; TIGR00433 395960006810 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 395960006811 FeS/SAM binding site; other site 395960006812 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 395960006813 2-isopropylmalate synthase; Validated; Region: PRK00915 395960006814 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 395960006815 active site 395960006816 catalytic residues [active] 395960006817 metal binding site [ion binding]; metal-binding site 395960006818 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 395960006819 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 395960006820 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 395960006821 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 395960006822 DctM-like transporters; Region: DctM; pfam06808 395960006823 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 395960006824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960006825 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 395960006826 Walker A motif; other site 395960006827 ATP binding site [chemical binding]; other site 395960006828 Nuclease-related domain; Region: NERD; pfam08378 395960006829 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 395960006830 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395960006831 active site 395960006832 ATP binding site [chemical binding]; other site 395960006833 substrate binding site [chemical binding]; other site 395960006834 activation loop (A-loop); other site 395960006835 AAA domain; Region: AAA_11; pfam13086 395960006836 AAA domain; Region: AAA_30; pfam13604 395960006837 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 395960006838 AAA domain; Region: AAA_12; pfam13087 395960006839 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960006840 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 395960006841 ATP binding site [chemical binding]; other site 395960006842 Mg2+ binding site [ion binding]; other site 395960006843 G-X-G motif; other site 395960006844 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395960006845 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 395960006846 non-specific DNA binding site [nucleotide binding]; other site 395960006847 salt bridge; other site 395960006848 sequence-specific DNA binding site [nucleotide binding]; other site 395960006849 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 395960006850 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 395960006851 MgtC family; Region: MgtC; pfam02308 395960006852 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 395960006853 putative active site [active] 395960006854 putative metal binding site [ion binding]; other site 395960006855 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 395960006856 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395960006857 MarR family; Region: MarR_2; pfam12802 395960006858 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 395960006859 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 395960006860 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395960006861 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395960006862 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 395960006863 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 395960006864 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 395960006865 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 395960006866 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395960006867 MarR family; Region: MarR_2; pfam12802 395960006868 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 395960006869 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 395960006870 E3 interaction surface; other site 395960006871 lipoyl attachment site [posttranslational modification]; other site 395960006872 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960006873 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 395960006874 OpgC protein; Region: OpgC_C; pfam10129 395960006875 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395960006876 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 395960006877 putative active site [active] 395960006878 putative metal binding site [ion binding]; other site 395960006879 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 395960006880 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 395960006881 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 395960006882 active site 395960006883 DNA binding site [nucleotide binding] 395960006884 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 395960006885 DNA binding site [nucleotide binding] 395960006886 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 395960006887 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 395960006888 DNA binding site [nucleotide binding] 395960006889 active site 395960006890 Int/Topo IB signature motif; other site 395960006891 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395960006892 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 395960006893 DNA binding residues [nucleotide binding] 395960006894 Autoinducer synthetase; Region: Autoind_synth; cl17404 395960006895 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 395960006896 active site 395960006897 DNA binding site [nucleotide binding] 395960006898 Int/Topo IB signature motif; other site 395960006899 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 395960006900 ornithine decarboxylase; Provisional; Region: PRK13578 395960006901 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 395960006902 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960006903 catalytic residue [active] 395960006904 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 395960006905 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395960006906 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960006907 Coenzyme A binding pocket [chemical binding]; other site 395960006908 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 395960006909 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 395960006910 E3 interaction surface; other site 395960006911 lipoyl attachment site [posttranslational modification]; other site 395960006912 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960006913 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 395960006914 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 395960006915 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 395960006916 dinuclear metal binding motif [ion binding]; other site 395960006917 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 395960006918 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 395960006919 4Fe-4S binding domain; Region: Fer4_5; pfam12801 395960006920 4Fe-4S binding domain; Region: Fer4_5; pfam12801 395960006921 nitrous-oxide reductase; Validated; Region: PRK02888 395960006922 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 395960006923 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 395960006924 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 395960006925 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 395960006926 Walker A/P-loop; other site 395960006927 ATP binding site [chemical binding]; other site 395960006928 Q-loop/lid; other site 395960006929 ABC transporter signature motif; other site 395960006930 Walker B; other site 395960006931 D-loop; other site 395960006932 H-loop/switch region; other site 395960006933 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 395960006934 NosL; Region: NosL; pfam05573 395960006935 ApbE family; Region: ApbE; pfam02424 395960006936 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 395960006937 Predicted integral membrane protein [Function unknown]; Region: COG5615 395960006938 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 395960006939 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 395960006940 Domain of unknown function (DUF378); Region: DUF378; cl00943 395960006941 short chain dehydrogenase; Provisional; Region: PRK06701 395960006942 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 395960006943 NAD binding site [chemical binding]; other site 395960006944 metal binding site [ion binding]; metal-binding site 395960006945 active site 395960006946 response regulator; Provisional; Region: PRK13435 395960006947 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 395960006948 active site 395960006949 phosphorylation site [posttranslational modification] 395960006950 intermolecular recognition site; other site 395960006951 dimerization interface [polypeptide binding]; other site 395960006952 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395960006953 GAF domain; Region: GAF; pfam01590 395960006954 PAS domain S-box; Region: sensory_box; TIGR00229 395960006955 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 395960006956 putative active site [active] 395960006957 heme pocket [chemical binding]; other site 395960006958 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 395960006959 putative active site [active] 395960006960 PAS fold; Region: PAS_3; pfam08447 395960006961 heme pocket [chemical binding]; other site 395960006962 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395960006963 HWE histidine kinase; Region: HWE_HK; smart00911 395960006964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395960006965 HWE histidine kinase; Region: HWE_HK; smart00911 395960006966 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960006967 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 395960006968 flexible hinge region; other site 395960006969 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 395960006970 putative switch regulator; other site 395960006971 non-specific DNA interactions [nucleotide binding]; other site 395960006972 DNA binding site [nucleotide binding] 395960006973 sequence specific DNA binding site [nucleotide binding]; other site 395960006974 putative cAMP binding site [chemical binding]; other site 395960006975 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 395960006976 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395960006977 NAD binding site [chemical binding]; other site 395960006978 catalytic Zn binding site [ion binding]; other site 395960006979 structural Zn binding site [ion binding]; other site 395960006980 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 395960006981 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 395960006982 intersubunit interface [polypeptide binding]; other site 395960006983 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 395960006984 active site 395960006985 SAM binding site [chemical binding]; other site 395960006986 homodimer interface [polypeptide binding]; other site 395960006987 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 395960006988 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 395960006989 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 395960006990 active site 395960006991 SAM binding site [chemical binding]; other site 395960006992 homodimer interface [polypeptide binding]; other site 395960006993 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 395960006994 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 395960006995 active site 395960006996 putative homodimer interface [polypeptide binding]; other site 395960006997 SAM binding site [chemical binding]; other site 395960006998 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 395960006999 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 395960007000 S-adenosylmethionine binding site [chemical binding]; other site 395960007001 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 395960007002 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 395960007003 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 395960007004 active site 395960007005 SAM binding site [chemical binding]; other site 395960007006 homodimer interface [polypeptide binding]; other site 395960007007 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 395960007008 active site 395960007009 SAM binding site [chemical binding]; other site 395960007010 homodimer interface [polypeptide binding]; other site 395960007011 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 395960007012 Precorrin-8X methylmutase; Region: CbiC; pfam02570 395960007013 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 395960007014 CitB domain protein; Region: CitB; TIGR02484 395960007015 precorrin 3B synthase CobZ; Region: CobZ_N-term; TIGR02485 395960007016 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 395960007017 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 395960007018 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 395960007019 putative dimer interface [polypeptide binding]; other site 395960007020 active site pocket [active] 395960007021 putative cataytic base [active] 395960007022 cobalamin synthase; Reviewed; Region: cobS; PRK00235 395960007023 cobyric acid synthase; Provisional; Region: PRK00784 395960007024 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 395960007025 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 395960007026 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 395960007027 catalytic triad [active] 395960007028 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 395960007029 homodimer interface [polypeptide binding]; other site 395960007030 active site 395960007031 SAM binding site [chemical binding]; other site 395960007032 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 395960007033 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 395960007034 catalytic triad [active] 395960007035 Transmembrane secretion effector; Region: MFS_3; pfam05977 395960007036 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 395960007037 putative substrate translocation pore; other site 395960007038 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 395960007039 Isochorismatase family; Region: Isochorismatase; pfam00857 395960007040 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 395960007041 catalytic triad [active] 395960007042 dimer interface [polypeptide binding]; other site 395960007043 conserved cis-peptide bond; other site 395960007044 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 395960007045 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 395960007046 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 395960007047 active site 395960007048 Predicted membrane protein [Function unknown]; Region: COG2259 395960007049 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 395960007050 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 395960007051 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 395960007052 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395960007053 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395960007054 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395960007055 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 395960007056 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395960007057 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 395960007058 Catalytic domain of Protein Kinases; Region: PKc; cd00180 395960007059 active site 395960007060 ATP binding site [chemical binding]; other site 395960007061 substrate binding site [chemical binding]; other site 395960007062 activation loop (A-loop); other site 395960007063 AAA ATPase domain; Region: AAA_16; pfam13191 395960007064 Predicted ATPase [General function prediction only]; Region: COG3899 395960007065 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395960007066 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 395960007067 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 395960007068 dimer interface [polypeptide binding]; other site 395960007069 phosphorylation site [posttranslational modification] 395960007070 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 395960007071 ATP binding site [chemical binding]; other site 395960007072 Mg2+ binding site [ion binding]; other site 395960007073 G-X-G motif; other site 395960007074 Response regulator receiver domain; Region: Response_reg; pfam00072 395960007075 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 395960007076 active site 395960007077 phosphorylation site [posttranslational modification] 395960007078 intermolecular recognition site; other site 395960007079 dimerization interface [polypeptide binding]; other site 395960007080 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395960007081 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 395960007082 active site 395960007083 phosphorylation site [posttranslational modification] 395960007084 intermolecular recognition site; other site 395960007085 dimerization interface [polypeptide binding]; other site 395960007086 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 395960007087 DNA binding residues [nucleotide binding] 395960007088 dimerization interface [polypeptide binding]; other site 395960007089 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395960007090 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960007091 PAS domain S-box; Region: sensory_box; TIGR00229 395960007092 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 395960007093 putative active site [active] 395960007094 heme pocket [chemical binding]; other site 395960007095 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 395960007096 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 395960007097 Walker A motif; other site 395960007098 ATP binding site [chemical binding]; other site 395960007099 Walker B motif; other site 395960007100 arginine finger; other site 395960007101 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395960007102 NMT1-like family; Region: NMT1_2; pfam13379 395960007103 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960007104 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 395960007105 dimer interface [polypeptide binding]; other site 395960007106 conserved gate region; other site 395960007107 putative PBP binding loops; other site 395960007108 ABC-ATPase subunit interface; other site 395960007109 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960007110 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960007111 Walker A/P-loop; other site 395960007112 ATP binding site [chemical binding]; other site 395960007113 Q-loop/lid; other site 395960007114 ABC transporter signature motif; other site 395960007115 Walker B; other site 395960007116 D-loop; other site 395960007117 H-loop/switch region; other site 395960007118 cyanate hydratase; Validated; Region: PRK02866 395960007119 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 395960007120 oligomer interface [polypeptide binding]; other site 395960007121 active site 395960007122 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 395960007123 flavodoxin FldA; Validated; Region: PRK09267 395960007124 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 395960007125 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395960007126 Walker A/P-loop; other site 395960007127 ATP binding site [chemical binding]; other site 395960007128 Q-loop/lid; other site 395960007129 ABC transporter signature motif; other site 395960007130 Walker B; other site 395960007131 D-loop; other site 395960007132 H-loop/switch region; other site 395960007133 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 395960007134 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 395960007135 dimer interface [polypeptide binding]; other site 395960007136 putative PBP binding regions; other site 395960007137 ABC-ATPase subunit interface; other site 395960007138 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 395960007139 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 395960007140 putative hemin binding site; other site 395960007141 Hemin uptake protein hemP; Region: hemP; pfam10636 395960007142 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 395960007143 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 395960007144 FeS/SAM binding site; other site 395960007145 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 395960007146 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395960007147 NAD(P) binding site [chemical binding]; other site 395960007148 putative active site [active] 395960007149 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 395960007150 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 395960007151 N-terminal plug; other site 395960007152 ligand-binding site [chemical binding]; other site 395960007153 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 395960007154 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 395960007155 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395960007156 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 395960007157 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 395960007158 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 395960007159 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 395960007160 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395960007161 Predicted periplasmic protein [Function unknown]; Region: COG3904 395960007162 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960007163 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 395960007164 dimer interface [polypeptide binding]; other site 395960007165 phosphorylation site [posttranslational modification] 395960007166 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 395960007167 ATP binding site [chemical binding]; other site 395960007168 G-X-G motif; other site 395960007169 Response regulator receiver domain; Region: Response_reg; pfam00072 395960007170 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 395960007171 active site 395960007172 phosphorylation site [posttranslational modification] 395960007173 intermolecular recognition site; other site 395960007174 dimerization interface [polypeptide binding]; other site 395960007175 Cytochrome c; Region: Cytochrom_C; cl11414 395960007176 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960007177 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960007178 active site 395960007179 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960007180 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960007181 active site 395960007182 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395960007183 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 395960007184 putative C-terminal domain interface [polypeptide binding]; other site 395960007185 putative GSH binding site (G-site) [chemical binding]; other site 395960007186 putative dimer interface [polypeptide binding]; other site 395960007187 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395960007188 N-terminal domain interface [polypeptide binding]; other site 395960007189 dimer interface [polypeptide binding]; other site 395960007190 substrate binding pocket (H-site) [chemical binding]; other site 395960007191 Helix-turn-helix domain; Region: HTH_18; pfam12833 395960007192 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 395960007193 acyl-CoA synthetase; Validated; Region: PRK08316 395960007194 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960007195 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395960007196 acyl-activating enzyme (AAE) consensus motif; other site 395960007197 putative AMP binding site [chemical binding]; other site 395960007198 putative active site [active] 395960007199 putative CoA binding site [chemical binding]; other site 395960007200 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 395960007201 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 395960007202 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 395960007203 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395960007204 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 395960007205 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 395960007206 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 395960007207 carboxyltransferase (CT) interaction site; other site 395960007208 biotinylation site [posttranslational modification]; other site 395960007209 enoyl-CoA hydratase; Provisional; Region: PRK05995 395960007210 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 395960007211 substrate binding site [chemical binding]; other site 395960007212 oxyanion hole (OAH) forming residues; other site 395960007213 trimer interface [polypeptide binding]; other site 395960007214 acyl-CoA synthetase; Validated; Region: PRK06188 395960007215 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395960007216 acyl-activating enzyme (AAE) consensus motif; other site 395960007217 putative AMP binding site [chemical binding]; other site 395960007218 putative active site [active] 395960007219 putative CoA binding site [chemical binding]; other site 395960007220 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 395960007221 Beta-lactamase; Region: Beta-lactamase; pfam00144 395960007222 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 395960007223 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 395960007224 dimer interface [polypeptide binding]; other site 395960007225 active site 395960007226 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 395960007227 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395960007228 active site 395960007229 catalytic tetrad [active] 395960007230 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395960007231 EamA-like transporter family; Region: EamA; pfam00892 395960007232 PAS fold; Region: PAS_7; pfam12860 395960007233 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960007234 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960007235 metal binding site [ion binding]; metal-binding site 395960007236 active site 395960007237 I-site; other site 395960007238 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 395960007239 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 395960007240 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395960007241 NAD binding site [chemical binding]; other site 395960007242 catalytic residues [active] 395960007243 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 395960007244 dihydroxy-acid dehydratase; Validated; Region: PRK06131 395960007245 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 395960007246 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395960007247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960007248 NAD(P) binding site [chemical binding]; other site 395960007249 active site 395960007250 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 395960007251 dimerization interface [polypeptide binding]; other site 395960007252 putative DNA binding site [nucleotide binding]; other site 395960007253 putative Zn2+ binding site [ion binding]; other site 395960007254 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 395960007255 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 395960007256 Autotransporter beta-domain; Region: Autotransporter; pfam03797 395960007257 hypothetical protein; Provisional; Region: PRK10396 395960007258 yecA family protein; Region: ygfB_yecA; TIGR02292 395960007259 SEC-C motif; Region: SEC-C; pfam02810 395960007260 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 395960007261 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 395960007262 ring oligomerisation interface [polypeptide binding]; other site 395960007263 ATP/Mg binding site [chemical binding]; other site 395960007264 stacking interactions; other site 395960007265 hinge regions; other site 395960007266 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 395960007267 oligomerisation interface [polypeptide binding]; other site 395960007268 mobile loop; other site 395960007269 roof hairpin; other site 395960007270 Usg-like family; Region: Usg; pfam06233 395960007271 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 395960007272 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 395960007273 Nucleoside recognition; Region: Gate; pfam07670 395960007274 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 395960007275 Ribulose bisphosphate carboxylase like proteins (RLPs) similar to R.rubrum RLP; Region: RLP_RrRLP; cd08210 395960007276 dimer interface [polypeptide binding]; other site 395960007277 active site 395960007278 catalytic residue [active] 395960007279 metal binding site [ion binding]; metal-binding site 395960007280 Cupin domain; Region: Cupin_2; pfam07883 395960007281 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 395960007282 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395960007283 classical (c) SDRs; Region: SDR_c; cd05233 395960007284 NAD(P) binding site [chemical binding]; other site 395960007285 active site 395960007286 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 395960007287 Coenzyme A binding pocket [chemical binding]; other site 395960007288 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 395960007289 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 395960007290 active site 395960007291 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395960007292 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395960007293 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 395960007294 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 395960007295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 395960007296 Uncharacterized conserved protein [Function unknown]; Region: COG2308 395960007297 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 395960007298 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 395960007299 putative MPT binding site; other site 395960007300 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395960007301 active site 395960007302 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 395960007303 substrate binding site [chemical binding]; other site 395960007304 methionine synthase; Provisional; Region: PRK01207 395960007305 THF binding site; other site 395960007306 zinc-binding site [ion binding]; other site 395960007307 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 395960007308 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 395960007309 C-terminal domain interface [polypeptide binding]; other site 395960007310 GSH binding site (G-site) [chemical binding]; other site 395960007311 dimer interface [polypeptide binding]; other site 395960007312 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 395960007313 N-terminal domain interface [polypeptide binding]; other site 395960007314 putative dimer interface [polypeptide binding]; other site 395960007315 active site 395960007316 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 395960007317 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 395960007318 putative catalytic residue [active] 395960007319 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395960007320 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 395960007321 NAD(P) binding site [chemical binding]; other site 395960007322 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 395960007323 putative active site [active] 395960007324 putative catalytic site [active] 395960007325 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395960007326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960007327 NAD(P) binding site [chemical binding]; other site 395960007328 active site 395960007329 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395960007330 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 395960007331 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960007332 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960007333 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 395960007334 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395960007335 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395960007336 hypothetical protein; Validated; Region: PRK00124 395960007337 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 395960007338 active site 2 [active] 395960007339 active site 1 [active] 395960007340 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 395960007341 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960007342 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 395960007343 putative ligand binding site [chemical binding]; other site 395960007344 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395960007345 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395960007346 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395960007347 exopolyphosphatase; Region: exo_poly_only; TIGR03706 395960007348 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 395960007349 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 395960007350 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 395960007351 S-adenosylmethionine binding site [chemical binding]; other site 395960007352 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 395960007353 putative transporter; Provisional; Region: PRK10504 395960007354 putative substrate translocation pore; other site 395960007355 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 395960007356 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 395960007357 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 395960007358 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 395960007359 active site 395960007360 Prostaglandin dehydrogenases; Region: PGDH; cd05288 395960007361 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 395960007362 NAD(P) binding site [chemical binding]; other site 395960007363 substrate binding site [chemical binding]; other site 395960007364 dimer interface [polypeptide binding]; other site 395960007365 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 395960007366 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 395960007367 GMP synthase; Reviewed; Region: guaA; PRK00074 395960007368 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 395960007369 AMP/PPi binding site [chemical binding]; other site 395960007370 candidate oxyanion hole; other site 395960007371 catalytic triad [active] 395960007372 potential glutamine specificity residues [chemical binding]; other site 395960007373 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 395960007374 ATP Binding subdomain [chemical binding]; other site 395960007375 Ligand Binding sites [chemical binding]; other site 395960007376 Dimerization subdomain; other site 395960007377 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 395960007378 non-specific DNA binding site [nucleotide binding]; other site 395960007379 salt bridge; other site 395960007380 sequence-specific DNA binding site [nucleotide binding]; other site 395960007381 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 395960007382 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 395960007383 oligomeric interface; other site 395960007384 putative active site [active] 395960007385 homodimer interface [polypeptide binding]; other site 395960007386 HTH domain; Region: HTH_11; pfam08279 395960007387 Predicted transcriptional regulator [Transcription]; Region: COG2378 395960007388 WYL domain; Region: WYL; pfam13280 395960007389 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395960007390 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 395960007391 putative C-terminal domain interface [polypeptide binding]; other site 395960007392 putative GSH binding site (G-site) [chemical binding]; other site 395960007393 putative dimer interface [polypeptide binding]; other site 395960007394 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 395960007395 dimer interface [polypeptide binding]; other site 395960007396 N-terminal domain interface [polypeptide binding]; other site 395960007397 putative substrate binding pocket (H-site) [chemical binding]; other site 395960007398 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 395960007399 SnoaL-like domain; Region: SnoaL_2; pfam12680 395960007400 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 395960007401 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 395960007402 pyruvate kinase; Validated; Region: PRK08187 395960007403 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 395960007404 active site 395960007405 domain interfaces; other site 395960007406 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 395960007407 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 395960007408 ArsC family; Region: ArsC; pfam03960 395960007409 putative catalytic residues [active] 395960007410 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960007411 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960007412 Walker A/P-loop; other site 395960007413 ATP binding site [chemical binding]; other site 395960007414 Q-loop/lid; other site 395960007415 ABC transporter signature motif; other site 395960007416 Walker B; other site 395960007417 D-loop; other site 395960007418 H-loop/switch region; other site 395960007419 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960007420 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960007421 Walker A/P-loop; other site 395960007422 ATP binding site [chemical binding]; other site 395960007423 Q-loop/lid; other site 395960007424 ABC transporter signature motif; other site 395960007425 Walker B; other site 395960007426 D-loop; other site 395960007427 H-loop/switch region; other site 395960007428 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960007429 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960007430 TM-ABC transporter signature motif; other site 395960007431 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960007432 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960007433 TM-ABC transporter signature motif; other site 395960007434 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 395960007435 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 395960007436 CobD/Cbib protein; Region: CobD_Cbib; cl00561 395960007437 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 395960007438 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 395960007439 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 395960007440 sequence-specific DNA binding site [nucleotide binding]; other site 395960007441 salt bridge; other site 395960007442 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 395960007443 multidrug efflux system protein; Provisional; Region: PRK11431 395960007444 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 395960007445 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 395960007446 G1 box; other site 395960007447 putative GEF interaction site [polypeptide binding]; other site 395960007448 GTP/Mg2+ binding site [chemical binding]; other site 395960007449 Switch I region; other site 395960007450 G2 box; other site 395960007451 G3 box; other site 395960007452 Switch II region; other site 395960007453 G4 box; other site 395960007454 G5 box; other site 395960007455 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 395960007456 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395960007457 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 395960007458 TPR motif; other site 395960007459 binding surface 395960007460 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395960007461 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 395960007462 binding surface 395960007463 TPR motif; other site 395960007464 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395960007465 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395960007466 Tetratricopeptide repeat; Region: TPR_10; pfam13374 395960007467 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395960007468 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 395960007469 binding surface 395960007470 TPR motif; other site 395960007471 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395960007472 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395960007473 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 395960007474 binding surface 395960007475 TPR repeat; Region: TPR_11; pfam13414 395960007476 TPR motif; other site 395960007477 TPR repeat; Region: TPR_11; pfam13414 395960007478 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 395960007479 binding surface 395960007480 TPR motif; other site 395960007481 TPR repeat; Region: TPR_11; pfam13414 395960007482 TPR repeat; Region: TPR_11; pfam13414 395960007483 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 395960007484 binding surface 395960007485 TPR motif; other site 395960007486 TPR repeat; Region: TPR_11; pfam13414 395960007487 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 395960007488 hydrophobic ligand binding site; other site 395960007489 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 395960007490 TPR motif; other site 395960007491 binding surface 395960007492 Tetratricopeptide repeat; Region: TPR_9; pfam13371 395960007493 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 395960007494 FecR protein; Region: FecR; pfam04773 395960007495 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 395960007496 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395960007497 cyclase homology domain; Region: CHD; cd07302 395960007498 nucleotidyl binding site; other site 395960007499 metal binding site [ion binding]; metal-binding site 395960007500 dimer interface [polypeptide binding]; other site 395960007501 CHASE3 domain; Region: CHASE3; pfam05227 395960007502 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 395960007503 dimer interface [polypeptide binding]; other site 395960007504 phosphorylation site [posttranslational modification] 395960007505 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 395960007506 ATP binding site [chemical binding]; other site 395960007507 Mg2+ binding site [ion binding]; other site 395960007508 G-X-G motif; other site 395960007509 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960007510 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960007511 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 395960007512 flagellin; Provisional; Region: PRK14708 395960007513 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395960007514 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 395960007515 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 395960007516 Flagellar protein FlbT; Region: FlbT; cl11455 395960007517 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395960007518 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 395960007519 DNA binding residues [nucleotide binding] 395960007520 dimerization interface [polypeptide binding]; other site 395960007521 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395960007522 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 395960007523 DNA binding residues [nucleotide binding] 395960007524 dimerization interface [polypeptide binding]; other site 395960007525 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395960007526 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395960007527 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960007528 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 395960007529 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 395960007530 active site 395960007531 acyl-activating enzyme (AAE) consensus motif; other site 395960007532 putative CoA binding site [chemical binding]; other site 395960007533 AMP binding site [chemical binding]; other site 395960007534 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 395960007535 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 395960007536 NAD binding site [chemical binding]; other site 395960007537 homodimer interface [polypeptide binding]; other site 395960007538 homotetramer interface [polypeptide binding]; other site 395960007539 active site 395960007540 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 395960007541 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 395960007542 dimer interface [polypeptide binding]; other site 395960007543 active site 395960007544 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960007545 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960007546 active site 395960007547 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 395960007548 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 395960007549 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 395960007550 N-terminal plug; other site 395960007551 ligand-binding site [chemical binding]; other site 395960007552 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 395960007553 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 395960007554 putative ligand binding residues [chemical binding]; other site 395960007555 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 395960007556 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 395960007557 dimer interface [polypeptide binding]; other site 395960007558 putative PBP binding regions; other site 395960007559 ABC-ATPase subunit interface; other site 395960007560 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 395960007561 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960007562 Walker A/P-loop; other site 395960007563 ATP binding site [chemical binding]; other site 395960007564 ABC transporter signature motif; other site 395960007565 Walker B; other site 395960007566 D-loop; other site 395960007567 H-loop/switch region; other site 395960007568 Cytochrome C' Region: Cytochrom_C_2; pfam01322 395960007569 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 395960007570 enoyl-CoA hydratase; Validated; Region: PRK08139 395960007571 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 395960007572 substrate binding site [chemical binding]; other site 395960007573 oxyanion hole (OAH) forming residues; other site 395960007574 trimer interface [polypeptide binding]; other site 395960007575 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 395960007576 Coenzyme A transferase; Region: CoA_trans; cl17247 395960007577 Coenzyme A transferase; Region: CoA_trans; smart00882 395960007578 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 395960007579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 395960007580 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 395960007581 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395960007582 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960007583 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 395960007584 dimerization interface [polypeptide binding]; other site 395960007585 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 395960007586 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 395960007587 inhibitor-cofactor binding pocket; inhibition site 395960007588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960007589 catalytic residue [active] 395960007590 succinic semialdehyde dehydrogenase; Region: PLN02278 395960007591 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395960007592 tetramerization interface [polypeptide binding]; other site 395960007593 NAD(P) binding site [chemical binding]; other site 395960007594 catalytic residues [active] 395960007595 acetylornithine deacetylase; Provisional; Region: PRK06837 395960007596 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 395960007597 metal binding site [ion binding]; metal-binding site 395960007598 dimer interface [polypeptide binding]; other site 395960007599 hypothetical protein; Provisional; Region: PRK12474 395960007600 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395960007601 PYR/PP interface [polypeptide binding]; other site 395960007602 dimer interface [polypeptide binding]; other site 395960007603 TPP binding site [chemical binding]; other site 395960007604 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 395960007605 TPP-binding site [chemical binding]; other site 395960007606 dimer interface [polypeptide binding]; other site 395960007607 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395960007608 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 395960007609 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395960007610 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 395960007611 dimer interface [polypeptide binding]; other site 395960007612 conserved gate region; other site 395960007613 putative PBP binding loops; other site 395960007614 ABC-ATPase subunit interface; other site 395960007615 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395960007616 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 395960007617 dimer interface [polypeptide binding]; other site 395960007618 conserved gate region; other site 395960007619 putative PBP binding loops; other site 395960007620 ABC-ATPase subunit interface; other site 395960007621 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395960007622 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960007623 Walker A/P-loop; other site 395960007624 ATP binding site [chemical binding]; other site 395960007625 Q-loop/lid; other site 395960007626 ABC transporter signature motif; other site 395960007627 Walker B; other site 395960007628 D-loop; other site 395960007629 H-loop/switch region; other site 395960007630 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960007631 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960007632 Walker A/P-loop; other site 395960007633 ATP binding site [chemical binding]; other site 395960007634 Q-loop/lid; other site 395960007635 ABC transporter signature motif; other site 395960007636 Walker B; other site 395960007637 D-loop; other site 395960007638 H-loop/switch region; other site 395960007639 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960007640 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 395960007641 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 395960007642 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 395960007643 Staphylococcal nuclease homologues; Region: SNc; smart00318 395960007644 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 395960007645 Catalytic site; other site 395960007646 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395960007647 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395960007648 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 395960007649 motif II; other site 395960007650 Heavy-metal-associated domain; Region: HMA; pfam00403 395960007651 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395960007652 metal binding site 2 [ion binding]; metal-binding site 395960007653 putative DNA binding helix; other site 395960007654 metal binding site 1 [ion binding]; metal-binding site 395960007655 dimer interface [polypeptide binding]; other site 395960007656 structural Zn2+ binding site [ion binding]; other site 395960007657 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 395960007658 Dehydratase family; Region: ILVD_EDD; pfam00920 395960007659 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 395960007660 metabolite-proton symporter; Region: 2A0106; TIGR00883 395960007661 putative substrate translocation pore; other site 395960007662 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395960007663 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395960007664 DNA-binding site [nucleotide binding]; DNA binding site 395960007665 FCD domain; Region: FCD; pfam07729 395960007666 Cupin domain; Region: Cupin_2; cl17218 395960007667 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 395960007668 Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfN_like; cd01971 395960007669 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 395960007670 Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfE_like; cd01972 395960007671 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 395960007672 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 395960007673 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 395960007674 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960007675 catalytic residue [active] 395960007676 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 395960007677 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960007678 catalytic residue [active] 395960007679 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395960007680 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 395960007681 putative DNA binding site [nucleotide binding]; other site 395960007682 putative Zn2+ binding site [ion binding]; other site 395960007683 AsnC family; Region: AsnC_trans_reg; pfam01037 395960007684 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 395960007685 Cupin domain; Region: Cupin_2; pfam07883 395960007686 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 395960007687 nitrogenase iron protein; Region: nifH; TIGR01287 395960007688 Nucleotide-binding sites [chemical binding]; other site 395960007689 Walker A motif; other site 395960007690 Switch I region of nucleotide binding site; other site 395960007691 Fe4S4 binding sites [ion binding]; other site 395960007692 Switch II region of nucleotide binding site; other site 395960007693 Radical SAM superfamily; Region: Radical_SAM; pfam04055 395960007694 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 395960007695 FeS/SAM binding site; other site 395960007696 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 395960007697 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 395960007698 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 395960007699 dimer interface [polypeptide binding]; other site 395960007700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960007701 catalytic residue [active] 395960007702 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 395960007703 FOG: CBS domain [General function prediction only]; Region: COG0517 395960007704 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 395960007705 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 395960007706 homodimer interface [polypeptide binding]; other site 395960007707 substrate-cofactor binding pocket; other site 395960007708 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960007709 catalytic residue [active] 395960007710 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 395960007711 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 395960007712 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 395960007713 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 395960007714 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 395960007715 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395960007716 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 395960007717 Walker A/P-loop; other site 395960007718 ATP binding site [chemical binding]; other site 395960007719 Q-loop/lid; other site 395960007720 ABC transporter signature motif; other site 395960007721 Walker B; other site 395960007722 D-loop; other site 395960007723 H-loop/switch region; other site 395960007724 NIL domain; Region: NIL; pfam09383 395960007725 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 395960007726 dimer interface [polypeptide binding]; other site 395960007727 conserved gate region; other site 395960007728 ABC-ATPase subunit interface; other site 395960007729 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 395960007730 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 395960007731 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960007732 catalytic residue [active] 395960007733 Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfE_like; cd01972 395960007734 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 395960007735 Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfN_like; cd01971 395960007736 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 395960007737 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 395960007738 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 395960007739 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960007740 catalytic residue [active] 395960007741 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 395960007742 dimerization interface [polypeptide binding]; other site 395960007743 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 395960007744 dimer interface [polypeptide binding]; other site 395960007745 phosphorylation site [posttranslational modification] 395960007746 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 395960007747 ATP binding site [chemical binding]; other site 395960007748 Mg2+ binding site [ion binding]; other site 395960007749 G-X-G motif; other site 395960007750 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395960007751 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 395960007752 active site 395960007753 phosphorylation site [posttranslational modification] 395960007754 intermolecular recognition site; other site 395960007755 dimerization interface [polypeptide binding]; other site 395960007756 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 395960007757 DNA binding site [nucleotide binding] 395960007758 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 395960007759 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960007760 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960007761 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395960007762 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 395960007763 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 395960007764 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 395960007765 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 395960007766 N-terminal plug; other site 395960007767 ligand-binding site [chemical binding]; other site 395960007768 putative acetyltransferase YhhY; Provisional; Region: PRK10140 395960007769 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960007770 Coenzyme A binding pocket [chemical binding]; other site 395960007771 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 395960007772 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 395960007773 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 395960007774 FecR protein; Region: FecR; pfam04773 395960007775 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 395960007776 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395960007777 Walker A/P-loop; other site 395960007778 ATP binding site [chemical binding]; other site 395960007779 Q-loop/lid; other site 395960007780 ABC transporter signature motif; other site 395960007781 Walker B; other site 395960007782 D-loop; other site 395960007783 H-loop/switch region; other site 395960007784 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 395960007785 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 395960007786 ABC-ATPase subunit interface; other site 395960007787 dimer interface [polypeptide binding]; other site 395960007788 putative PBP binding regions; other site 395960007789 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 395960007790 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 395960007791 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 395960007792 putative ligand binding residues [chemical binding]; other site 395960007793 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 395960007794 acyl-CoA synthetase; Validated; Region: PRK08308 395960007795 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960007796 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960007797 active site 395960007798 CoA binding site [chemical binding]; other site 395960007799 AMP binding site [chemical binding]; other site 395960007800 IucA / IucC family; Region: IucA_IucC; pfam04183 395960007801 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 395960007802 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 395960007803 IucA / IucC family; Region: IucA_IucC; pfam04183 395960007804 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 395960007805 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 395960007806 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960007807 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 395960007808 DNA binding residues [nucleotide binding] 395960007809 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 395960007810 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 395960007811 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 395960007812 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 395960007813 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 395960007814 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 395960007815 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 395960007816 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 395960007817 N-terminal plug; other site 395960007818 ligand-binding site [chemical binding]; other site 395960007819 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 395960007820 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 395960007821 dimer interface [polypeptide binding]; other site 395960007822 putative radical transfer pathway; other site 395960007823 diiron center [ion binding]; other site 395960007824 tyrosyl radical; other site 395960007825 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 395960007826 ATP cone domain; Region: ATP-cone; pfam03477 395960007827 Class I ribonucleotide reductase; Region: RNR_I; cd01679 395960007828 active site 395960007829 dimer interface [polypeptide binding]; other site 395960007830 catalytic residues [active] 395960007831 effector binding site; other site 395960007832 R2 peptide binding site; other site 395960007833 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 395960007834 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 395960007835 FeS/SAM binding site; other site 395960007836 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 395960007837 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 395960007838 Class III ribonucleotide reductase; Region: RNR_III; cd01675 395960007839 effector binding site; other site 395960007840 active site 395960007841 Zn binding site [ion binding]; other site 395960007842 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395960007843 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 395960007844 non-specific DNA binding site [nucleotide binding]; other site 395960007845 salt bridge; other site 395960007846 sequence-specific DNA binding site [nucleotide binding]; other site 395960007847 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 395960007848 Domain of unknown function (DUF955); Region: DUF955; pfam06114 395960007849 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 395960007850 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 395960007851 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 395960007852 methylcitrate synthase; Provisional; Region: PRK12351 395960007853 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 395960007854 oxalacetate binding site [chemical binding]; other site 395960007855 citrylCoA binding site [chemical binding]; other site 395960007856 coenzyme A binding site [chemical binding]; other site 395960007857 catalytic triad [active] 395960007858 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 395960007859 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 395960007860 tetramer interface [polypeptide binding]; other site 395960007861 active site 395960007862 Mg2+/Mn2+ binding site [ion binding]; other site 395960007863 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 395960007864 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 395960007865 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 395960007866 THF binding site; other site 395960007867 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 395960007868 substrate binding site [chemical binding]; other site 395960007869 THF binding site; other site 395960007870 zinc-binding site [ion binding]; other site 395960007871 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 395960007872 N-terminal plug; other site 395960007873 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 395960007874 ligand-binding site [chemical binding]; other site 395960007875 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 395960007876 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 395960007877 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 395960007878 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395960007879 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 395960007880 Helix-turn-helix domain; Region: HTH_18; pfam12833 395960007881 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 395960007882 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 395960007883 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960007884 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 395960007885 ligand binding site [chemical binding]; other site 395960007886 regulator interaction site; other site 395960007887 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 395960007888 ANTAR domain; Region: ANTAR; cl04297 395960007889 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960007890 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_Amide_Urea_BP_like; cd06356 395960007891 putative ligand binding site [chemical binding]; other site 395960007892 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960007893 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960007894 TM-ABC transporter signature motif; other site 395960007895 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960007896 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960007897 TM-ABC transporter signature motif; other site 395960007898 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 395960007899 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960007900 Walker A/P-loop; other site 395960007901 ATP binding site [chemical binding]; other site 395960007902 Q-loop/lid; other site 395960007903 ABC transporter signature motif; other site 395960007904 Walker B; other site 395960007905 D-loop; other site 395960007906 H-loop/switch region; other site 395960007907 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960007908 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960007909 Walker A/P-loop; other site 395960007910 ATP binding site [chemical binding]; other site 395960007911 Q-loop/lid; other site 395960007912 ABC transporter signature motif; other site 395960007913 Walker B; other site 395960007914 D-loop; other site 395960007915 H-loop/switch region; other site 395960007916 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 395960007917 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395960007918 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 395960007919 active site 395960007920 catalytic triad [active] 395960007921 dimer interface [polypeptide binding]; other site 395960007922 Second nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_1_R2; cd07579 395960007923 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395960007924 putative active site [active] 395960007925 catalytic triad [active] 395960007926 putative dimer interface [polypeptide binding]; other site 395960007927 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395960007928 classical (c) SDRs; Region: SDR_c; cd05233 395960007929 NAD(P) binding site [chemical binding]; other site 395960007930 active site 395960007931 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960007932 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 395960007933 Walker A/P-loop; other site 395960007934 ATP binding site [chemical binding]; other site 395960007935 Q-loop/lid; other site 395960007936 ABC transporter signature motif; other site 395960007937 Walker B; other site 395960007938 D-loop; other site 395960007939 H-loop/switch region; other site 395960007940 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 395960007941 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395960007942 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395960007943 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 395960007944 dimer interface [polypeptide binding]; other site 395960007945 conserved gate region; other site 395960007946 putative PBP binding loops; other site 395960007947 ABC-ATPase subunit interface; other site 395960007948 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395960007949 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 395960007950 conserved cys residue [active] 395960007951 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960007952 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 395960007953 Isochorismatase family; Region: Isochorismatase; pfam00857 395960007954 catalytic triad [active] 395960007955 conserved cis-peptide bond; other site 395960007956 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 395960007957 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 395960007958 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 395960007959 ABC-ATPase subunit interface; other site 395960007960 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 395960007961 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 395960007962 Walker A/P-loop; other site 395960007963 ATP binding site [chemical binding]; other site 395960007964 Q-loop/lid; other site 395960007965 ABC transporter signature motif; other site 395960007966 Walker B; other site 395960007967 D-loop; other site 395960007968 H-loop/switch region; other site 395960007969 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 395960007970 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 395960007971 choline dehydrogenase; Validated; Region: PRK02106 395960007972 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395960007973 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960007974 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 395960007975 acyl-activating enzyme (AAE) consensus motif; other site 395960007976 AMP binding site [chemical binding]; other site 395960007977 active site 395960007978 CoA binding site [chemical binding]; other site 395960007979 enoyl-CoA hydratase; Provisional; Region: PRK08252 395960007980 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 395960007981 substrate binding site [chemical binding]; other site 395960007982 oxyanion hole (OAH) forming residues; other site 395960007983 trimer interface [polypeptide binding]; other site 395960007984 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 395960007985 NMT1/THI5 like; Region: NMT1; pfam09084 395960007986 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 395960007987 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960007988 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 395960007989 dimer interface [polypeptide binding]; other site 395960007990 ABC-ATPase subunit interface; other site 395960007991 putative PBP binding loops; other site 395960007992 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960007993 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960007994 Walker A/P-loop; other site 395960007995 ATP binding site [chemical binding]; other site 395960007996 Q-loop/lid; other site 395960007997 ABC transporter signature motif; other site 395960007998 Walker B; other site 395960007999 D-loop; other site 395960008000 H-loop/switch region; other site 395960008001 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 395960008002 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 395960008003 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395960008004 MarR family; Region: MarR_2; cl17246 395960008005 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 395960008006 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 395960008007 Predicted periplasmic protein [Function unknown]; Region: COG3904 395960008008 Porin subfamily; Region: Porin_2; pfam02530 395960008009 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395960008010 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 395960008011 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395960008012 catalytic residue [active] 395960008013 BA14K-like protein; Region: BA14K; pfam07886 395960008014 NADH dehydrogenase; Validated; Region: PRK08183 395960008015 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 395960008016 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 395960008017 conserved cys residue [active] 395960008018 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395960008019 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395960008020 conserved cys residue [active] 395960008021 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960008022 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 395960008023 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395960008024 substrate binding pocket [chemical binding]; other site 395960008025 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395960008026 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 395960008027 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 395960008028 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395960008029 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 395960008030 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 395960008031 Response regulator receiver domain; Region: Response_reg; pfam00072 395960008032 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 395960008033 active site 395960008034 phosphorylation site [posttranslational modification] 395960008035 intermolecular recognition site; other site 395960008036 dimerization interface [polypeptide binding]; other site 395960008037 Histidine kinase; Region: HisKA_2; pfam07568 395960008038 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 395960008039 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 395960008040 ATP binding site [chemical binding]; other site 395960008041 Mg2+ binding site [ion binding]; other site 395960008042 G-X-G motif; other site 395960008043 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960008044 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 395960008045 active site 395960008046 phosphorylation site [posttranslational modification] 395960008047 intermolecular recognition site; other site 395960008048 dimerization interface [polypeptide binding]; other site 395960008049 CHASE3 domain; Region: CHASE3; pfam05227 395960008050 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960008051 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 395960008052 dimer interface [polypeptide binding]; other site 395960008053 phosphorylation site [posttranslational modification] 395960008054 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 395960008055 ATP binding site [chemical binding]; other site 395960008056 Mg2+ binding site [ion binding]; other site 395960008057 G-X-G motif; other site 395960008058 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 395960008059 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395960008060 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395960008061 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 395960008062 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 395960008063 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 395960008064 carboxyltransferase (CT) interaction site; other site 395960008065 biotinylation site [posttranslational modification]; other site 395960008066 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 395960008067 Dehydroquinase class II; Region: DHquinase_II; pfam01220 395960008068 trimer interface [polypeptide binding]; other site 395960008069 active site 395960008070 dimer interface [polypeptide binding]; other site 395960008071 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 395960008072 Cation efflux family; Region: Cation_efflux; cl00316 395960008073 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960008074 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 395960008075 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 395960008076 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 395960008077 catalytic residues [active] 395960008078 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 395960008079 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 395960008080 dimer interface [polypeptide binding]; other site 395960008081 decamer (pentamer of dimers) interface [polypeptide binding]; other site 395960008082 catalytic triad [active] 395960008083 BA14K-like protein; Region: BA14K; pfam07886 395960008084 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 395960008085 Peptidase family M48; Region: Peptidase_M48; cl12018 395960008086 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 395960008087 binding surface 395960008088 TPR motif; other site 395960008089 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 395960008090 binding surface 395960008091 TPR motif; other site 395960008092 aspartate aminotransferase; Provisional; Region: PRK05764 395960008093 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 395960008094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960008095 homodimer interface [polypeptide binding]; other site 395960008096 catalytic residue [active] 395960008097 BioY family; Region: BioY; pfam02632 395960008098 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 395960008099 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 395960008100 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 395960008101 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 395960008102 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 395960008103 AMIN domain; Region: AMIN; pfam11741 395960008104 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 395960008105 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 395960008106 active site 395960008107 metal binding site [ion binding]; metal-binding site 395960008108 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 395960008109 Transglycosylase; Region: Transgly; pfam00912 395960008110 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 395960008111 peptide chain release factor 2; Validated; Region: prfB; PRK00578 395960008112 This domain is found in peptide chain release factors; Region: PCRF; smart00937 395960008113 RF-1 domain; Region: RF-1; pfam00472 395960008114 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395960008115 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 395960008116 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 395960008117 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 395960008118 Peptidase family M23; Region: Peptidase_M23; pfam01551 395960008119 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 395960008120 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 395960008121 catalytic triad [active] 395960008122 Protein of unknown function; Region: DUF3971; pfam13116 395960008123 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 395960008124 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 395960008125 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 395960008126 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395960008127 putative substrate translocation pore; other site 395960008128 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 395960008129 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 395960008130 active site 395960008131 HIGH motif; other site 395960008132 dimer interface [polypeptide binding]; other site 395960008133 KMSKS motif; other site 395960008134 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 395960008135 RNA binding surface [nucleotide binding]; other site 395960008136 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 395960008137 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 395960008138 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 395960008139 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 395960008140 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960008141 catalytic residue [active] 395960008142 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 395960008143 putative ABC transporter; Region: ycf24; CHL00085 395960008144 FeS assembly ATPase SufC; Region: sufC; TIGR01978 395960008145 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 395960008146 Walker A/P-loop; other site 395960008147 ATP binding site [chemical binding]; other site 395960008148 Q-loop/lid; other site 395960008149 ABC transporter signature motif; other site 395960008150 Walker B; other site 395960008151 D-loop; other site 395960008152 H-loop/switch region; other site 395960008153 FeS assembly protein SufD; Region: sufD; TIGR01981 395960008154 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 395960008155 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 395960008156 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 395960008157 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960008158 catalytic residue [active] 395960008159 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 395960008160 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_13; cd08354 395960008161 putative metal binding site [ion binding]; other site 395960008162 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395960008163 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 395960008164 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 395960008165 homotrimer interaction site [polypeptide binding]; other site 395960008166 putative active site [active] 395960008167 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 395960008168 TPR repeat; Region: TPR_11; pfam13414 395960008169 binding surface 395960008170 TPR motif; other site 395960008171 TPR repeat; Region: TPR_11; pfam13414 395960008172 TPR repeat; Region: TPR_11; pfam13414 395960008173 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 395960008174 binding surface 395960008175 TPR motif; other site 395960008176 TPR repeat; Region: TPR_11; pfam13414 395960008177 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 395960008178 TPR repeat; Region: TPR_11; pfam13414 395960008179 binding surface 395960008180 TPR motif; other site 395960008181 TPR repeat; Region: TPR_11; pfam13414 395960008182 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 395960008183 binding surface 395960008184 TPR motif; other site 395960008185 TPR repeat; Region: TPR_11; pfam13414 395960008186 TfoX N-terminal domain; Region: TfoX_N; pfam04993 395960008187 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960008188 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960008189 metal binding site [ion binding]; metal-binding site 395960008190 active site 395960008191 I-site; other site 395960008192 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 395960008193 DEAD-like helicases superfamily; Region: DEXDc; smart00487 395960008194 ATP binding site [chemical binding]; other site 395960008195 Mg++ binding site [ion binding]; other site 395960008196 motif III; other site 395960008197 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 395960008198 nucleotide binding region [chemical binding]; other site 395960008199 ATP-binding site [chemical binding]; other site 395960008200 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960008201 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395960008202 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960008203 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395960008204 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960008205 dimer interface [polypeptide binding]; other site 395960008206 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395960008207 putative CheW interface [polypeptide binding]; other site 395960008208 Caspase domain; Region: Peptidase_C14; pfam00656 395960008209 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 395960008210 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395960008211 salt bridge; other site 395960008212 non-specific DNA binding site [nucleotide binding]; other site 395960008213 sequence-specific DNA binding site [nucleotide binding]; other site 395960008214 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 395960008215 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395960008216 putative NAD(P) binding site [chemical binding]; other site 395960008217 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 395960008218 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 395960008219 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 395960008220 sequence-specific DNA binding site [nucleotide binding]; other site 395960008221 salt bridge; other site 395960008222 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 395960008223 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 395960008224 Mg2+ binding site [ion binding]; other site 395960008225 G-X-G motif; other site 395960008226 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 395960008227 anchoring element; other site 395960008228 dimer interface [polypeptide binding]; other site 395960008229 ATP binding site [chemical binding]; other site 395960008230 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 395960008231 active site 395960008232 metal binding site [ion binding]; metal-binding site 395960008233 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 395960008234 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 395960008235 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 395960008236 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395960008237 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 395960008238 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 395960008239 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 395960008240 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 395960008241 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395960008242 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 395960008243 S-adenosylmethionine binding site [chemical binding]; other site 395960008244 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 395960008245 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 395960008246 Radical SAM superfamily; Region: Radical_SAM; pfam04055 395960008247 FeS/SAM binding site; other site 395960008248 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 395960008249 homotrimer interaction site [polypeptide binding]; other site 395960008250 putative active site [active] 395960008251 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395960008252 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395960008253 DNA-binding site [nucleotide binding]; DNA binding site 395960008254 FCD domain; Region: FCD; pfam07729 395960008255 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960008256 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960008257 Walker A/P-loop; other site 395960008258 ATP binding site [chemical binding]; other site 395960008259 Q-loop/lid; other site 395960008260 ABC transporter signature motif; other site 395960008261 Walker B; other site 395960008262 D-loop; other site 395960008263 H-loop/switch region; other site 395960008264 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960008265 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 395960008266 dimer interface [polypeptide binding]; other site 395960008267 conserved gate region; other site 395960008268 putative PBP binding loops; other site 395960008269 ABC-ATPase subunit interface; other site 395960008270 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395960008271 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 395960008272 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395960008273 Amidase; Region: Amidase; cl11426 395960008274 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 395960008275 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 395960008276 aminotransferase; Validated; Region: PRK09148 395960008277 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 395960008278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960008279 homodimer interface [polypeptide binding]; other site 395960008280 catalytic residue [active] 395960008281 homoserine dehydrogenase; Provisional; Region: PRK06349 395960008282 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 395960008283 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 395960008284 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 395960008285 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 395960008286 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 395960008287 putative active site [active] 395960008288 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395960008289 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960008290 Coenzyme A binding pocket [chemical binding]; other site 395960008291 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 395960008292 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 395960008293 motif II; other site 395960008294 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 395960008295 DHH family; Region: DHH; pfam01368 395960008296 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 395960008297 lytic murein transglycosylase; Region: MltB_2; TIGR02283 395960008298 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 395960008299 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395960008300 catalytic residue [active] 395960008301 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 395960008302 putative lipid kinase; Reviewed; Region: PRK13057 395960008303 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 395960008304 elongation factor P; Validated; Region: PRK00529 395960008305 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 395960008306 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 395960008307 RNA binding site [nucleotide binding]; other site 395960008308 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 395960008309 RNA binding site [nucleotide binding]; other site 395960008310 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 395960008311 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 395960008312 motif 1; other site 395960008313 dimer interface [polypeptide binding]; other site 395960008314 active site 395960008315 motif 2; other site 395960008316 motif 3; other site 395960008317 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 395960008318 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 395960008319 FeS/SAM binding site; other site 395960008320 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 395960008321 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 395960008322 PilZ domain; Region: PilZ; pfam07238 395960008323 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395960008324 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 395960008325 dimer interface [polypeptide binding]; other site 395960008326 active site 395960008327 metal binding site [ion binding]; metal-binding site 395960008328 glutathione binding site [chemical binding]; other site 395960008329 NAD-dependent deacetylase; Provisional; Region: PRK00481 395960008330 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 395960008331 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 395960008332 DNA-binding site [nucleotide binding]; DNA binding site 395960008333 RNA-binding motif; other site 395960008334 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 395960008335 DNA-binding site [nucleotide binding]; DNA binding site 395960008336 RNA-binding motif; other site 395960008337 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 395960008338 Predicted transcriptional regulators [Transcription]; Region: COG1695 395960008339 Transcriptional regulator PadR-like family; Region: PadR; cl17335 395960008340 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960008341 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 395960008342 OpgC protein; Region: OpgC_C; pfam10129 395960008343 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395960008344 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 395960008345 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 395960008346 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 395960008347 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 395960008348 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 395960008349 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395960008350 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395960008351 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 395960008352 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 395960008353 carboxyltransferase (CT) interaction site; other site 395960008354 biotinylation site [posttranslational modification]; other site 395960008355 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 395960008356 active site 395960008357 catalytic residues [active] 395960008358 metal binding site [ion binding]; metal-binding site 395960008359 DctM-like transporters; Region: DctM; pfam06808 395960008360 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 395960008361 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 395960008362 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 395960008363 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960008364 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960008365 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960008366 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 395960008367 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 395960008368 Uncharacterized conserved protein [Function unknown]; Region: COG2966 395960008369 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 395960008370 PEGA domain; Region: PEGA; pfam08308 395960008371 This domain contains a conserved N-terminal (F/Y)RG motif. It is functionally uncharacterised; Region: FRG; smart00901 395960008372 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 395960008373 MG2 domain; Region: A2M_N; pfam01835 395960008374 Alpha-2-macroglobulin family; Region: A2M; pfam00207 395960008375 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 395960008376 surface patch; other site 395960008377 thioester region; other site 395960008378 specificity defining residues; other site 395960008379 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 395960008380 Transglycosylase; Region: Transgly; pfam00912 395960008381 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 395960008382 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 395960008383 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395960008384 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 395960008385 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 395960008386 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 395960008387 active site 395960008388 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 395960008389 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 395960008390 Ligand binding site; other site 395960008391 Putative Catalytic site; other site 395960008392 DXD motif; other site 395960008393 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 395960008394 cystathionine beta-lyase; Provisional; Region: PRK05967 395960008395 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 395960008396 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960008397 catalytic residue [active] 395960008398 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 395960008399 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 395960008400 substrate binding pocket [chemical binding]; other site 395960008401 membrane-bound complex binding site; other site 395960008402 hinge residues; other site 395960008403 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 395960008404 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 395960008405 conserved gate region; other site 395960008406 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 395960008407 dimer interface [polypeptide binding]; other site 395960008408 ABC-ATPase subunit interface; other site 395960008409 putative PBP binding loops; other site 395960008410 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 395960008411 dimer interface [polypeptide binding]; other site 395960008412 conserved gate region; other site 395960008413 putative PBP binding loops; other site 395960008414 ABC-ATPase subunit interface; other site 395960008415 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395960008416 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 395960008417 Walker A/P-loop; other site 395960008418 ATP binding site [chemical binding]; other site 395960008419 Q-loop/lid; other site 395960008420 ABC transporter signature motif; other site 395960008421 Walker B; other site 395960008422 D-loop; other site 395960008423 H-loop/switch region; other site 395960008424 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 395960008425 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 395960008426 dimer interface [polypeptide binding]; other site 395960008427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960008428 catalytic residue [active] 395960008429 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 395960008430 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 395960008431 S-adenosylmethionine binding site [chemical binding]; other site 395960008432 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 395960008433 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 395960008434 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395960008435 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395960008436 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960008437 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960008438 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960008439 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 395960008440 Protein export membrane protein; Region: SecD_SecF; cl14618 395960008441 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 395960008442 DTW domain; Region: DTW; cl01221 395960008443 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 395960008444 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 395960008445 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 395960008446 S-adenosylmethionine binding site [chemical binding]; other site 395960008447 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 395960008448 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 395960008449 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 395960008450 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 395960008451 HIGH motif; other site 395960008452 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 395960008453 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 395960008454 active site 395960008455 KMSKS motif; other site 395960008456 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 395960008457 tRNA binding surface [nucleotide binding]; other site 395960008458 anticodon binding site; other site 395960008459 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 395960008460 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 395960008461 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395960008462 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 395960008463 active site 395960008464 DNA binding site [nucleotide binding] 395960008465 lipoyl synthase; Provisional; Region: PRK05481 395960008466 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 395960008467 FeS/SAM binding site; other site 395960008468 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 395960008469 putative coenzyme Q binding site [chemical binding]; other site 395960008470 Competence-damaged protein; Region: CinA; pfam02464 395960008471 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 395960008472 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 395960008473 substrate binding site; other site 395960008474 dimer interface; other site 395960008475 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 395960008476 homotrimer interaction site [polypeptide binding]; other site 395960008477 zinc binding site [ion binding]; other site 395960008478 CDP-binding sites; other site 395960008479 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 395960008480 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 395960008481 FMN binding site [chemical binding]; other site 395960008482 active site 395960008483 catalytic residues [active] 395960008484 substrate binding site [chemical binding]; other site 395960008485 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395960008486 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 395960008487 putative active site [active] 395960008488 heme pocket [chemical binding]; other site 395960008489 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 395960008490 dimer interface [polypeptide binding]; other site 395960008491 phosphorylation site [posttranslational modification] 395960008492 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 395960008493 ATP binding site [chemical binding]; other site 395960008494 Mg2+ binding site [ion binding]; other site 395960008495 G-X-G motif; other site 395960008496 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 395960008497 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 395960008498 active site 395960008499 phosphorylation site [posttranslational modification] 395960008500 intermolecular recognition site; other site 395960008501 dimerization interface [polypeptide binding]; other site 395960008502 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 395960008503 Walker A motif; other site 395960008504 ATP binding site [chemical binding]; other site 395960008505 Walker B motif; other site 395960008506 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 395960008507 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 395960008508 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 395960008509 dimerization interface [polypeptide binding]; other site 395960008510 PAS domain; Region: PAS; smart00091 395960008511 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 395960008512 dimer interface [polypeptide binding]; other site 395960008513 phosphorylation site [posttranslational modification] 395960008514 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 395960008515 ATP binding site [chemical binding]; other site 395960008516 Mg2+ binding site [ion binding]; other site 395960008517 G-X-G motif; other site 395960008518 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395960008519 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 395960008520 active site 395960008521 phosphorylation site [posttranslational modification] 395960008522 intermolecular recognition site; other site 395960008523 dimerization interface [polypeptide binding]; other site 395960008524 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 395960008525 Walker A motif; other site 395960008526 ATP binding site [chemical binding]; other site 395960008527 Walker B motif; other site 395960008528 arginine finger; other site 395960008529 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395960008530 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 395960008531 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 395960008532 homodimer interface [polypeptide binding]; other site 395960008533 substrate-cofactor binding pocket; other site 395960008534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960008535 catalytic residue [active] 395960008536 bacterial Hfq-like; Region: Hfq; cd01716 395960008537 hexamer interface [polypeptide binding]; other site 395960008538 Sm1 motif; other site 395960008539 RNA binding site [nucleotide binding]; other site 395960008540 Sm2 motif; other site 395960008541 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 395960008542 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 395960008543 HflX GTPase family; Region: HflX; cd01878 395960008544 G1 box; other site 395960008545 GTP/Mg2+ binding site [chemical binding]; other site 395960008546 Switch I region; other site 395960008547 G2 box; other site 395960008548 G3 box; other site 395960008549 Switch II region; other site 395960008550 G4 box; other site 395960008551 G5 box; other site 395960008552 DNA gyrase subunit A; Validated; Region: PRK05560 395960008553 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 395960008554 CAP-like domain; other site 395960008555 active site 395960008556 primary dimer interface [polypeptide binding]; other site 395960008557 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395960008558 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395960008559 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395960008560 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395960008561 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395960008562 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 395960008563 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 395960008564 active site 395960008565 (T/H)XGH motif; other site 395960008566 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 395960008567 active site 395960008568 Gram-negative bacterial tonB protein; Region: TonB; cl10048 395960008569 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 395960008570 active site 395960008571 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 395960008572 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 395960008573 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 395960008574 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 395960008575 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395960008576 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 395960008577 non-specific DNA binding site [nucleotide binding]; other site 395960008578 salt bridge; other site 395960008579 sequence-specific DNA binding site [nucleotide binding]; other site 395960008580 Cupin domain; Region: Cupin_2; pfam07883 395960008581 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395960008582 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 395960008583 substrate binding pocket [chemical binding]; other site 395960008584 membrane-bound complex binding site; other site 395960008585 hinge residues; other site 395960008586 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 395960008587 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960008588 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960008589 Walker A/P-loop; other site 395960008590 ATP binding site [chemical binding]; other site 395960008591 Q-loop/lid; other site 395960008592 ABC transporter signature motif; other site 395960008593 Walker B; other site 395960008594 D-loop; other site 395960008595 H-loop/switch region; other site 395960008596 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960008597 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 395960008598 dimer interface [polypeptide binding]; other site 395960008599 conserved gate region; other site 395960008600 putative PBP binding loops; other site 395960008601 ABC-ATPase subunit interface; other site 395960008602 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 395960008603 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 395960008604 active site 395960008605 dimer interface [polypeptide binding]; other site 395960008606 non-prolyl cis peptide bond; other site 395960008607 insertion regions; other site 395960008608 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395960008609 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 395960008610 membrane-bound complex binding site; other site 395960008611 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 395960008612 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 395960008613 nitrogenase iron protein; Region: nifH; TIGR01287 395960008614 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 395960008615 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 395960008616 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 395960008617 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 395960008618 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395960008619 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 395960008620 substrate binding pocket [chemical binding]; other site 395960008621 membrane-bound complex binding site; other site 395960008622 choline dehydrogenase; Validated; Region: PRK02106 395960008623 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395960008624 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 395960008625 OsmC-like protein; Region: OsmC; pfam02566 395960008626 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960008627 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960008628 Walker A/P-loop; other site 395960008629 ATP binding site [chemical binding]; other site 395960008630 Q-loop/lid; other site 395960008631 ABC transporter signature motif; other site 395960008632 Walker B; other site 395960008633 D-loop; other site 395960008634 H-loop/switch region; other site 395960008635 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960008636 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 395960008637 dimer interface [polypeptide binding]; other site 395960008638 conserved gate region; other site 395960008639 putative PBP binding loops; other site 395960008640 ABC-ATPase subunit interface; other site 395960008641 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395960008642 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 395960008643 substrate binding pocket [chemical binding]; other site 395960008644 membrane-bound complex binding site; other site 395960008645 hinge residues; other site 395960008646 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 395960008647 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 395960008648 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960008649 catalytic residue [active] 395960008650 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395960008651 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 395960008652 catalytic site [active] 395960008653 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 395960008654 Carboxylesterase family; Region: COesterase; pfam00135 395960008655 substrate binding pocket [chemical binding]; other site 395960008656 catalytic triad [active] 395960008657 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 395960008658 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 395960008659 substrate binding pocket [chemical binding]; other site 395960008660 membrane-bound complex binding site; other site 395960008661 hinge residues; other site 395960008662 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 395960008663 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 395960008664 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 395960008665 putative PBP binding loops; other site 395960008666 dimer interface [polypeptide binding]; other site 395960008667 ABC-ATPase subunit interface; other site 395960008668 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395960008669 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 395960008670 dimer interface [polypeptide binding]; other site 395960008671 conserved gate region; other site 395960008672 putative PBP binding loops; other site 395960008673 ABC-ATPase subunit interface; other site 395960008674 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 395960008675 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395960008676 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960008677 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 395960008678 dimer interface [polypeptide binding]; other site 395960008679 conserved gate region; other site 395960008680 putative PBP binding loops; other site 395960008681 ABC-ATPase subunit interface; other site 395960008682 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960008683 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960008684 Walker A/P-loop; other site 395960008685 ATP binding site [chemical binding]; other site 395960008686 Q-loop/lid; other site 395960008687 ABC transporter signature motif; other site 395960008688 Walker B; other site 395960008689 D-loop; other site 395960008690 H-loop/switch region; other site 395960008691 CHAT domain; Region: CHAT; cl17868 395960008692 Radical SAM superfamily; Region: Radical_SAM; pfam04055 395960008693 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 395960008694 FeS/SAM binding site; other site 395960008695 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 395960008696 nitrogenase iron protein; Region: nifH; TIGR01287 395960008697 Nucleotide-binding sites [chemical binding]; other site 395960008698 Walker A motif; other site 395960008699 Switch I region of nucleotide binding site; other site 395960008700 Fe4S4 binding sites [ion binding]; other site 395960008701 Switch II region of nucleotide binding site; other site 395960008702 Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfE_like; cd01972 395960008703 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 395960008704 Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfN_like; cd01971 395960008705 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 395960008706 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 395960008707 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395960008708 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 395960008709 Isochorismatase family; Region: Isochorismatase; pfam00857 395960008710 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 395960008711 catalytic triad [active] 395960008712 conserved cis-peptide bond; other site 395960008713 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395960008714 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 395960008715 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395960008716 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960008717 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 395960008718 dimerization interface [polypeptide binding]; other site 395960008719 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395960008720 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960008721 Walker A/P-loop; other site 395960008722 ATP binding site [chemical binding]; other site 395960008723 Q-loop/lid; other site 395960008724 ABC transporter signature motif; other site 395960008725 Walker B; other site 395960008726 D-loop; other site 395960008727 H-loop/switch region; other site 395960008728 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960008729 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960008730 Walker A/P-loop; other site 395960008731 ATP binding site [chemical binding]; other site 395960008732 Q-loop/lid; other site 395960008733 ABC transporter signature motif; other site 395960008734 Walker B; other site 395960008735 D-loop; other site 395960008736 H-loop/switch region; other site 395960008737 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 395960008738 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 395960008739 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 395960008740 dimer interface [polypeptide binding]; other site 395960008741 conserved gate region; other site 395960008742 putative PBP binding loops; other site 395960008743 ABC-ATPase subunit interface; other site 395960008744 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395960008745 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 395960008746 dimer interface [polypeptide binding]; other site 395960008747 conserved gate region; other site 395960008748 putative PBP binding loops; other site 395960008749 ABC-ATPase subunit interface; other site 395960008750 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395960008751 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 395960008752 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395960008753 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395960008754 metal binding site [ion binding]; metal-binding site 395960008755 putative dimer interface [polypeptide binding]; other site 395960008756 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 395960008757 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 395960008758 active site 395960008759 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 395960008760 EamA-like transporter family; Region: EamA; pfam00892 395960008761 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395960008762 EamA-like transporter family; Region: EamA; pfam00892 395960008763 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 395960008764 homotrimer interaction site [polypeptide binding]; other site 395960008765 putative active site [active] 395960008766 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 395960008767 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 395960008768 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 395960008769 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395960008770 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 395960008771 Ligand binding site; other site 395960008772 DXD motif; other site 395960008773 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 395960008774 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 395960008775 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 395960008776 Substrate binding site; other site 395960008777 Mg++ binding site; other site 395960008778 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 395960008779 active site 395960008780 substrate binding site [chemical binding]; other site 395960008781 CoA binding site [chemical binding]; other site 395960008782 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 395960008783 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 395960008784 glutaminase active site [active] 395960008785 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 395960008786 dimer interface [polypeptide binding]; other site 395960008787 active site 395960008788 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 395960008789 dimer interface [polypeptide binding]; other site 395960008790 active site 395960008791 Uncharacterized conserved protein [Function unknown]; Region: COG2928 395960008792 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 395960008793 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 395960008794 generic binding surface II; other site 395960008795 ssDNA binding site; other site 395960008796 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 395960008797 ATP binding site [chemical binding]; other site 395960008798 putative Mg++ binding site [ion binding]; other site 395960008799 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 395960008800 nucleotide binding region [chemical binding]; other site 395960008801 ATP-binding site [chemical binding]; other site 395960008802 Uncharacterized conserved protein [Function unknown]; Region: COG2938 395960008803 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 395960008804 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 395960008805 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 395960008806 ATP binding site [chemical binding]; other site 395960008807 putative Mg++ binding site [ion binding]; other site 395960008808 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 395960008809 nucleotide binding region [chemical binding]; other site 395960008810 ATP-binding site [chemical binding]; other site 395960008811 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 395960008812 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 395960008813 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960008814 acyl-activating enzyme (AAE) consensus motif; other site 395960008815 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 395960008816 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 395960008817 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 395960008818 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 395960008819 Predicted permeases [General function prediction only]; Region: COG0679 395960008820 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 395960008821 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395960008822 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 395960008823 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 395960008824 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 395960008825 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 395960008826 NADP binding site [chemical binding]; other site 395960008827 dimer interface [polypeptide binding]; other site 395960008828 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 395960008829 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 395960008830 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 395960008831 FeS/SAM binding site; other site 395960008832 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960008833 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960008834 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 395960008835 dimerization interface [polypeptide binding]; other site 395960008836 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395960008837 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 395960008838 membrane-bound complex binding site; other site 395960008839 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960008840 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 395960008841 dimer interface [polypeptide binding]; other site 395960008842 conserved gate region; other site 395960008843 putative PBP binding loops; other site 395960008844 ABC-ATPase subunit interface; other site 395960008845 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960008846 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960008847 Walker A/P-loop; other site 395960008848 ATP binding site [chemical binding]; other site 395960008849 Q-loop/lid; other site 395960008850 ABC transporter signature motif; other site 395960008851 Walker B; other site 395960008852 D-loop; other site 395960008853 H-loop/switch region; other site 395960008854 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395960008855 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 395960008856 putative active site [active] 395960008857 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 395960008858 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 395960008859 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 395960008860 hypothetical protein; Validated; Region: PRK08245 395960008861 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 395960008862 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395960008863 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 395960008864 dimer interface [polypeptide binding]; other site 395960008865 active site 395960008866 catalytic residue [active] 395960008867 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 395960008868 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 395960008869 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 395960008870 SmpB-tmRNA interface; other site 395960008871 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 395960008872 catalytic triad [active] 395960008873 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 395960008874 Fe-S cluster binding site [ion binding]; other site 395960008875 DNA binding site [nucleotide binding] 395960008876 active site 395960008877 LabA_like proteins; Region: LabA; cd10911 395960008878 Uncharacterized conserved protein [Function unknown]; Region: COG1432 395960008879 putative metal binding site [ion binding]; other site 395960008880 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 395960008881 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 395960008882 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395960008883 Zn2+ binding site [ion binding]; other site 395960008884 Mg2+ binding site [ion binding]; other site 395960008885 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 395960008886 synthetase active site [active] 395960008887 NTP binding site [chemical binding]; other site 395960008888 metal binding site [ion binding]; metal-binding site 395960008889 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 395960008890 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 395960008891 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 395960008892 active site 395960008893 hydrophilic channel; other site 395960008894 dimerization interface [polypeptide binding]; other site 395960008895 catalytic residues [active] 395960008896 active site lid [active] 395960008897 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 395960008898 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 395960008899 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 395960008900 Catalytic site [active] 395960008901 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 395960008902 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 395960008903 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 395960008904 dimerization interface [polypeptide binding]; other site 395960008905 active site 395960008906 metal binding site [ion binding]; metal-binding site 395960008907 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 395960008908 dsRNA binding site [nucleotide binding]; other site 395960008909 GTPase Era; Reviewed; Region: era; PRK00089 395960008910 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 395960008911 G1 box; other site 395960008912 GTP/Mg2+ binding site [chemical binding]; other site 395960008913 Switch I region; other site 395960008914 G2 box; other site 395960008915 Switch II region; other site 395960008916 G3 box; other site 395960008917 G4 box; other site 395960008918 G5 box; other site 395960008919 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 395960008920 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 395960008921 Recombination protein O N terminal; Region: RecO_N; pfam11967 395960008922 Recombination protein O C terminal; Region: RecO_C; pfam02565 395960008923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960008924 NmrA-like family; Region: NmrA; pfam05368 395960008925 NAD(P) binding site [chemical binding]; other site 395960008926 active site 395960008927 Predicted transcriptional regulators [Transcription]; Region: COG1733 395960008928 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 395960008929 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 395960008930 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 395960008931 CAP-like domain; other site 395960008932 active site 395960008933 primary dimer interface [polypeptide binding]; other site 395960008934 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395960008935 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 395960008936 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 395960008937 transmembrane helices; other site 395960008938 manganese transport protein MntH; Reviewed; Region: PRK00701 395960008939 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 395960008940 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 395960008941 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395960008942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960008943 Fusaric acid resistance protein family; Region: FUSC; pfam04632 395960008944 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 395960008945 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 395960008946 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 395960008947 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960008948 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960008949 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 395960008950 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 395960008951 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 395960008952 Predicted membrane protein/domain [Function unknown]; Region: COG1714 395960008953 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 395960008954 dimer interface [polypeptide binding]; other site 395960008955 allosteric magnesium binding site [ion binding]; other site 395960008956 active site 395960008957 aspartate-rich active site metal binding site; other site 395960008958 Schiff base residues; other site 395960008959 acyl-CoA synthetase; Validated; Region: PRK06188 395960008960 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395960008961 acyl-activating enzyme (AAE) consensus motif; other site 395960008962 putative AMP binding site [chemical binding]; other site 395960008963 putative active site [active] 395960008964 putative CoA binding site [chemical binding]; other site 395960008965 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395960008966 MarR family; Region: MarR_2; cl17246 395960008967 Domain of unknown function (DUF4142); Region: DUF4142; cl17876 395960008968 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 395960008969 apolar tunnel; other site 395960008970 heme binding site [chemical binding]; other site 395960008971 dimerization interface [polypeptide binding]; other site 395960008972 putative S-transferase; Provisional; Region: PRK11752 395960008973 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 395960008974 C-terminal domain interface [polypeptide binding]; other site 395960008975 GSH binding site (G-site) [chemical binding]; other site 395960008976 dimer interface [polypeptide binding]; other site 395960008977 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 395960008978 dimer interface [polypeptide binding]; other site 395960008979 N-terminal domain interface [polypeptide binding]; other site 395960008980 active site 395960008981 GAF domain; Region: GAF; cl17456 395960008982 Methyltransferase domain; Region: Methyltransf_11; pfam08241 395960008983 S-adenosylmethionine binding site [chemical binding]; other site 395960008984 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 395960008985 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 395960008986 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 395960008987 dimer interface [polypeptide binding]; other site 395960008988 active site 395960008989 glycine-pyridoxal phosphate binding site [chemical binding]; other site 395960008990 folate binding site [chemical binding]; other site 395960008991 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 395960008992 ATP cone domain; Region: ATP-cone; pfam03477 395960008993 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 395960008994 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 395960008995 catalytic motif [active] 395960008996 Zn binding site [ion binding]; other site 395960008997 RibD C-terminal domain; Region: RibD_C; cl17279 395960008998 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 395960008999 Lumazine binding domain; Region: Lum_binding; pfam00677 395960009000 Lumazine binding domain; Region: Lum_binding; pfam00677 395960009001 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 395960009002 homopentamer interface [polypeptide binding]; other site 395960009003 active site 395960009004 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 395960009005 putative RNA binding site [nucleotide binding]; other site 395960009006 thiamine monophosphate kinase; Provisional; Region: PRK05731 395960009007 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 395960009008 ATP binding site [chemical binding]; other site 395960009009 dimerization interface [polypeptide binding]; other site 395960009010 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 395960009011 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 395960009012 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; pfam09939 395960009013 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395960009014 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395960009015 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 395960009016 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 395960009017 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; pfam03981 395960009018 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 395960009019 putative phosphate acyltransferase; Provisional; Region: PRK05331 395960009020 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 395960009021 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 395960009022 dimer interface [polypeptide binding]; other site 395960009023 active site 395960009024 CoA binding pocket [chemical binding]; other site 395960009025 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 395960009026 IHF dimer interface [polypeptide binding]; other site 395960009027 IHF - DNA interface [nucleotide binding]; other site 395960009028 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 395960009029 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395960009030 DNA binding residues [nucleotide binding] 395960009031 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 395960009032 active site 395960009033 Int/Topo IB signature motif; other site 395960009034 DNA binding site [nucleotide binding] 395960009035 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 395960009036 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 395960009037 NinB protein; Region: NinB; pfam05772 395960009038 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 395960009039 HSP70 interaction site [polypeptide binding]; other site 395960009040 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 395960009041 ERF superfamily; Region: ERF; pfam04404 395960009042 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 395960009043 non-specific DNA binding site [nucleotide binding]; other site 395960009044 Predicted transcriptional regulator [Transcription]; Region: COG2932 395960009045 salt bridge; other site 395960009046 sequence-specific DNA binding site [nucleotide binding]; other site 395960009047 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 395960009048 Catalytic site [active] 395960009049 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 395960009050 DnaA box-binding interface [nucleotide binding]; other site 395960009051 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 395960009052 DnaA box-binding interface [nucleotide binding]; other site 395960009053 Phage terminase large subunit; Region: Terminase_3; cl12054 395960009054 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 395960009055 hypothetical protein; Provisional; Region: PRK14851 395960009056 BRO family, N-terminal domain; Region: Bro-N; smart01040 395960009057 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 395960009058 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 395960009059 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395960009060 catalytic residue [active] 395960009061 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 395960009062 Phage Tail Collar Domain; Region: Collar; pfam07484 395960009063 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 395960009064 catalytic residue [active] 395960009065 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 395960009066 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 395960009067 N-terminal plug; other site 395960009068 ligand-binding site [chemical binding]; other site 395960009069 short chain dehydrogenase; Provisional; Region: PRK05693 395960009070 classical (c) SDRs; Region: SDR_c; cd05233 395960009071 NAD(P) binding site [chemical binding]; other site 395960009072 active site 395960009073 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 395960009074 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 395960009075 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 395960009076 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960009077 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 395960009078 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 395960009079 Chain length determinant protein; Region: Wzz; pfam02706 395960009080 AAA domain; Region: AAA_31; pfam13614 395960009081 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 395960009082 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 395960009083 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 395960009084 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 395960009085 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 395960009086 putative active site [active] 395960009087 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 395960009088 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 395960009089 dimerization interface [polypeptide binding]; other site 395960009090 DPS ferroxidase diiron center [ion binding]; other site 395960009091 ion pore; other site 395960009092 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 395960009093 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 395960009094 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 395960009095 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960009096 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960009097 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 395960009098 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395960009099 PYR/PP interface [polypeptide binding]; other site 395960009100 dimer interface [polypeptide binding]; other site 395960009101 TPP binding site [chemical binding]; other site 395960009102 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395960009103 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 395960009104 TPP-binding site; other site 395960009105 dimer interface [polypeptide binding]; other site 395960009106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960009107 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395960009108 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 395960009109 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 395960009110 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 395960009111 homodimer interface [polypeptide binding]; other site 395960009112 substrate-cofactor binding pocket; other site 395960009113 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960009114 catalytic residue [active] 395960009115 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 395960009116 enoyl-CoA hydratase; Validated; Region: PRK08139 395960009117 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 395960009118 substrate binding site [chemical binding]; other site 395960009119 oxyanion hole (OAH) forming residues; other site 395960009120 trimer interface [polypeptide binding]; other site 395960009121 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 395960009122 CoenzymeA binding site [chemical binding]; other site 395960009123 subunit interaction site [polypeptide binding]; other site 395960009124 PHB binding site; other site 395960009125 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 395960009126 23S rRNA interface [nucleotide binding]; other site 395960009127 L3 interface [polypeptide binding]; other site 395960009128 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 395960009129 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960009130 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960009131 metal binding site [ion binding]; metal-binding site 395960009132 active site 395960009133 I-site; other site 395960009134 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 395960009135 Domain of unknown function DUF20; Region: UPF0118; pfam01594 395960009136 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395960009137 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 395960009138 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 395960009139 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395960009140 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395960009141 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 395960009142 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 395960009143 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 395960009144 thymidylate kinase; Validated; Region: tmk; PRK00698 395960009145 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 395960009146 TMP-binding site; other site 395960009147 ATP-binding site [chemical binding]; other site 395960009148 DNA polymerase III subunit delta'; Validated; Region: PRK07471 395960009149 AAA ATPase domain; Region: AAA_16; pfam13191 395960009150 DNA polymerase III subunit delta'; Validated; Region: PRK08485 395960009151 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 395960009152 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 395960009153 active site 395960009154 HIGH motif; other site 395960009155 KMSKS motif; other site 395960009156 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 395960009157 tRNA binding surface [nucleotide binding]; other site 395960009158 anticodon binding site; other site 395960009159 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 395960009160 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 395960009161 active site 395960009162 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 395960009163 putative hydrolase; Provisional; Region: PRK02113 395960009164 acyl-CoA synthetase; Validated; Region: PRK08162 395960009165 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 395960009166 acyl-activating enzyme (AAE) consensus motif; other site 395960009167 putative active site [active] 395960009168 AMP binding site [chemical binding]; other site 395960009169 putative CoA binding site [chemical binding]; other site 395960009170 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 395960009171 DctM-like transporters; Region: DctM; pfam06808 395960009172 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 395960009173 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 395960009174 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 395960009175 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 395960009176 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 395960009177 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 395960009178 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 395960009179 FAD binding pocket [chemical binding]; other site 395960009180 FAD binding motif [chemical binding]; other site 395960009181 phosphate binding motif [ion binding]; other site 395960009182 beta-alpha-beta structure motif; other site 395960009183 NAD binding pocket [chemical binding]; other site 395960009184 PAS domain; Region: PAS_9; pfam13426 395960009185 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 395960009186 putative active site [active] 395960009187 heme pocket [chemical binding]; other site 395960009188 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395960009189 HWE histidine kinase; Region: HWE_HK; smart00911 395960009190 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395960009191 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 395960009192 S-adenosylmethionine binding site [chemical binding]; other site 395960009193 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 395960009194 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 395960009195 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395960009196 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 395960009197 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 395960009198 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 395960009199 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 395960009200 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 395960009201 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395960009202 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 395960009203 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 395960009204 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 395960009205 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 395960009206 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395960009207 catalytic residue [active] 395960009208 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 395960009209 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 395960009210 dimer interface [polypeptide binding]; other site 395960009211 active site 395960009212 glycine-pyridoxal phosphate binding site [chemical binding]; other site 395960009213 folate binding site [chemical binding]; other site 395960009214 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 395960009215 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395960009216 DNA-binding site [nucleotide binding]; DNA binding site 395960009217 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 395960009218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960009219 homodimer interface [polypeptide binding]; other site 395960009220 catalytic residue [active] 395960009221 benzoate transporter; Region: benE; TIGR00843 395960009222 Benzoate membrane transport protein; Region: BenE; pfam03594 395960009223 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 395960009224 dimer interface [polypeptide binding]; other site 395960009225 pyridoxamine kinase; Validated; Region: PRK05756 395960009226 pyridoxal binding site [chemical binding]; other site 395960009227 ATP binding site [chemical binding]; other site 395960009228 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 395960009229 Part of AAA domain; Region: AAA_19; pfam13245 395960009230 Family description; Region: UvrD_C_2; pfam13538 395960009231 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 395960009232 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 395960009233 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 395960009234 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 395960009235 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 395960009236 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 395960009237 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 395960009238 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 395960009239 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 395960009240 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 395960009241 Beta-lactamase; Region: Beta-lactamase; pfam00144 395960009242 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 395960009243 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 395960009244 Ligand Binding Site [chemical binding]; other site 395960009245 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 395960009246 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 395960009247 homodimer interface [polypeptide binding]; other site 395960009248 metal binding site [ion binding]; metal-binding site 395960009249 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 395960009250 homodimer interface [polypeptide binding]; other site 395960009251 active site 395960009252 putative chemical substrate binding site [chemical binding]; other site 395960009253 metal binding site [ion binding]; metal-binding site 395960009254 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 395960009255 Domain of unknown function DUF21; Region: DUF21; pfam01595 395960009256 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 395960009257 Transporter associated domain; Region: CorC_HlyC; smart01091 395960009258 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 395960009259 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 395960009260 dimer interface [polypeptide binding]; other site 395960009261 ssDNA binding site [nucleotide binding]; other site 395960009262 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395960009263 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960009264 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 395960009265 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 395960009266 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 395960009267 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 395960009268 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 395960009269 GIY-YIG motif/motif A; other site 395960009270 active site 395960009271 catalytic site [active] 395960009272 metal binding site [ion binding]; metal-binding site 395960009273 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 395960009274 Protein of unknown function (DUF433); Region: DUF433; pfam04255 395960009275 Ion transport protein; Region: Ion_trans; pfam00520 395960009276 Ion channel; Region: Ion_trans_2; pfam07885 395960009277 Predicted acetyltransferase [General function prediction only]; Region: COG2388 395960009278 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 395960009279 CoenzymeA binding site [chemical binding]; other site 395960009280 subunit interaction site [polypeptide binding]; other site 395960009281 PHB binding site; other site 395960009282 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 395960009283 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 395960009284 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 395960009285 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 395960009286 Glucose inhibited division protein A; Region: GIDA; pfam01134 395960009287 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 395960009288 substrate binding pocket [chemical binding]; other site 395960009289 substrate-Mg2+ binding site; other site 395960009290 aspartate-rich region 1; other site 395960009291 aspartate-rich region 2; other site 395960009292 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 395960009293 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 395960009294 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395960009295 Protein export membrane protein; Region: SecD_SecF; pfam02355 395960009296 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 395960009297 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395960009298 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 395960009299 Preprotein translocase subunit; Region: YajC; pfam02699 395960009300 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 395960009301 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 395960009302 Walker A motif; other site 395960009303 ATP binding site [chemical binding]; other site 395960009304 Walker B motif; other site 395960009305 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960009306 Phospholipid methyltransferase; Region: PEMT; cl17370 395960009307 Bacterial transcriptional activator domain; Region: BTAD; smart01043 395960009308 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395960009309 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395960009310 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395960009311 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 395960009312 Peptidase family M23; Region: Peptidase_M23; pfam01551 395960009313 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 395960009314 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 395960009315 S-adenosylmethionine binding site [chemical binding]; other site 395960009316 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960009317 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 395960009318 active site 395960009319 phosphorylation site [posttranslational modification] 395960009320 intermolecular recognition site; other site 395960009321 dimerization interface [polypeptide binding]; other site 395960009322 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 395960009323 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 395960009324 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 395960009325 seryl-tRNA synthetase; Provisional; Region: PRK05431 395960009326 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 395960009327 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 395960009328 dimer interface [polypeptide binding]; other site 395960009329 active site 395960009330 motif 1; other site 395960009331 motif 2; other site 395960009332 motif 3; other site 395960009333 Autotransporter beta-domain; Region: Autotransporter; smart00869 395960009334 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 395960009335 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 395960009336 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 395960009337 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 395960009338 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 395960009339 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 395960009340 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 395960009341 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 395960009342 Sporulation related domain; Region: SPOR; pfam05036 395960009343 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 395960009344 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 395960009345 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 395960009346 active site 395960009347 HIGH motif; other site 395960009348 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395960009349 KMSK motif region; other site 395960009350 tRNA binding surface [nucleotide binding]; other site 395960009351 DALR anticodon binding domain; Region: DALR_1; smart00836 395960009352 anticodon binding site; other site 395960009353 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 395960009354 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395960009355 Zn2+ binding site [ion binding]; other site 395960009356 Mg2+ binding site [ion binding]; other site 395960009357 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 395960009358 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 395960009359 Neurotransmitter-gated ion-channel ligand binding domain; Region: Neur_chan_LBD; pfam02931 395960009360 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 395960009361 salt bridge; other site 395960009362 non-specific DNA binding site [nucleotide binding]; other site 395960009363 sequence-specific DNA binding site [nucleotide binding]; other site 395960009364 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 395960009365 putative catalytic site [active] 395960009366 putative phosphate binding site [ion binding]; other site 395960009367 active site 395960009368 metal binding site A [ion binding]; metal-binding site 395960009369 DNA binding site [nucleotide binding] 395960009370 putative AP binding site [nucleotide binding]; other site 395960009371 putative metal binding site B [ion binding]; other site 395960009372 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395960009373 Sel1-like repeats; Region: SEL1; smart00671 395960009374 Sel1-like repeats; Region: SEL1; smart00671 395960009375 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 395960009376 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 395960009377 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395960009378 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395960009379 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 395960009380 E3 interaction surface; other site 395960009381 lipoyl attachment site [posttranslational modification]; other site 395960009382 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 395960009383 e3 binding domain; Region: E3_binding; pfam02817 395960009384 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 395960009385 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 395960009386 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 395960009387 E3 interaction surface; other site 395960009388 lipoyl attachment site [posttranslational modification]; other site 395960009389 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 395960009390 alpha subunit interface [polypeptide binding]; other site 395960009391 TPP binding site [chemical binding]; other site 395960009392 heterodimer interface [polypeptide binding]; other site 395960009393 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395960009394 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 395960009395 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 395960009396 tetramer interface [polypeptide binding]; other site 395960009397 TPP-binding site [chemical binding]; other site 395960009398 heterodimer interface [polypeptide binding]; other site 395960009399 phosphorylation loop region [posttranslational modification] 395960009400 Septum formation initiator; Region: DivIC; pfam04977 395960009401 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 395960009402 Predicted flavoprotein [General function prediction only]; Region: COG0431 395960009403 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395960009404 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395960009405 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395960009406 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395960009407 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 395960009408 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 395960009409 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395960009410 NADP binding site [chemical binding]; other site 395960009411 dimer interface [polypeptide binding]; other site 395960009412 enolase; Provisional; Region: eno; PRK00077 395960009413 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 395960009414 dimer interface [polypeptide binding]; other site 395960009415 metal binding site [ion binding]; metal-binding site 395960009416 substrate binding pocket [chemical binding]; other site 395960009417 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 395960009418 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 395960009419 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 395960009420 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395960009421 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 395960009422 Ligand binding site; other site 395960009423 DXD motif; other site 395960009424 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 395960009425 putative substrate translocation pore; other site 395960009426 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395960009427 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 395960009428 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 395960009429 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 395960009430 NIPSNAP; Region: NIPSNAP; pfam07978 395960009431 Protein of unknown function (DUF497); Region: DUF497; cl01108 395960009432 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 395960009433 PAAR motif; Region: PAAR_motif; pfam05488 395960009434 CTP synthetase; Validated; Region: pyrG; PRK05380 395960009435 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 395960009436 Catalytic site [active] 395960009437 active site 395960009438 UTP binding site [chemical binding]; other site 395960009439 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 395960009440 active site 395960009441 putative oxyanion hole; other site 395960009442 catalytic triad [active] 395960009443 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 395960009444 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 395960009445 triosephosphate isomerase; Provisional; Region: PRK14565 395960009446 substrate binding site [chemical binding]; other site 395960009447 dimer interface [polypeptide binding]; other site 395960009448 catalytic triad [active] 395960009449 SurA N-terminal domain; Region: SurA_N_3; cl07813 395960009450 periplasmic folding chaperone; Provisional; Region: PRK10788 395960009451 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 395960009452 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 395960009453 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 395960009454 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 395960009455 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 395960009456 active site 395960009457 ribulose/triose binding site [chemical binding]; other site 395960009458 phosphate binding site [ion binding]; other site 395960009459 substrate (anthranilate) binding pocket [chemical binding]; other site 395960009460 product (indole) binding pocket [chemical binding]; other site 395960009461 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 395960009462 trimer interface [polypeptide binding]; other site 395960009463 dimer interface [polypeptide binding]; other site 395960009464 putative active site [active] 395960009465 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 395960009466 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 395960009467 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395960009468 Soluble P-type ATPase [General function prediction only]; Region: COG4087 395960009469 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 395960009470 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395960009471 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 395960009472 putative dimer interface [polypeptide binding]; other site 395960009473 PilZ domain; Region: PilZ; pfam07238 395960009474 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 395960009475 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395960009476 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395960009477 ligand binding site [chemical binding]; other site 395960009478 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 395960009479 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 395960009480 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 395960009481 active site 395960009482 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 395960009483 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 395960009484 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 395960009485 dimer interface [polypeptide binding]; other site 395960009486 putative functional site; other site 395960009487 putative MPT binding site; other site 395960009488 LexA repressor; Validated; Region: PRK00215 395960009489 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 395960009490 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 395960009491 Catalytic site [active] 395960009492 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 395960009493 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 395960009494 Competence protein; Region: Competence; pfam03772 395960009495 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 395960009496 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395960009497 active site 395960009498 HIGH motif; other site 395960009499 nucleotide binding site [chemical binding]; other site 395960009500 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 395960009501 KMSKS motif; other site 395960009502 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 395960009503 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 395960009504 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 395960009505 HIGH motif; other site 395960009506 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 395960009507 active site 395960009508 KMSKS motif; other site 395960009509 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 395960009510 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 395960009511 dimer interface [polypeptide binding]; other site 395960009512 active site 395960009513 citrylCoA binding site [chemical binding]; other site 395960009514 NADH binding [chemical binding]; other site 395960009515 cationic pore residues; other site 395960009516 oxalacetate/citrate binding site [chemical binding]; other site 395960009517 coenzyme A binding site [chemical binding]; other site 395960009518 catalytic triad [active] 395960009519 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 395960009520 nucleoside/Zn binding site; other site 395960009521 dimer interface [polypeptide binding]; other site 395960009522 catalytic motif [active] 395960009523 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 395960009524 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 395960009525 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 395960009526 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 395960009527 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 395960009528 active site 395960009529 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 395960009530 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 395960009531 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 395960009532 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 395960009533 trimer interface [polypeptide binding]; other site 395960009534 active site 395960009535 UDP-GlcNAc binding site [chemical binding]; other site 395960009536 lipid binding site [chemical binding]; lipid-binding site 395960009537 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 395960009538 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395960009539 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395960009540 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395960009541 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395960009542 Surface antigen; Region: Bac_surface_Ag; pfam01103 395960009543 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 395960009544 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 395960009545 active site 395960009546 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 395960009547 protein binding site [polypeptide binding]; other site 395960009548 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 395960009549 putative substrate binding region [chemical binding]; other site 395960009550 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 395960009551 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 395960009552 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 395960009553 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 395960009554 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 395960009555 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 395960009556 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 395960009557 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 395960009558 catalytic residue [active] 395960009559 putative FPP diphosphate binding site; other site 395960009560 putative FPP binding hydrophobic cleft; other site 395960009561 dimer interface [polypeptide binding]; other site 395960009562 putative IPP diphosphate binding site; other site 395960009563 ribosome recycling factor; Reviewed; Region: frr; PRK00083 395960009564 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 395960009565 hinge region; other site 395960009566 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 395960009567 putative nucleotide binding site [chemical binding]; other site 395960009568 uridine monophosphate binding site [chemical binding]; other site 395960009569 homohexameric interface [polypeptide binding]; other site 395960009570 elongation factor Ts; Provisional; Region: tsf; PRK09377 395960009571 UBA/TS-N domain; Region: UBA; pfam00627 395960009572 Elongation factor TS; Region: EF_TS; pfam00889 395960009573 Elongation factor TS; Region: EF_TS; pfam00889 395960009574 30S ribosomal protein S2/unknown domain fusion protein; Provisional; Region: rpsB; PRK12311 395960009575 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 395960009576 rRNA interaction site [nucleotide binding]; other site 395960009577 S8 interaction site; other site 395960009578 putative laminin-1 binding site; other site 395960009579 Uncharacterized conserved protein [Function unknown]; Region: COG3743 395960009580 Caspase domain; Region: Peptidase_C14; pfam00656 395960009581 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 395960009582 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 395960009583 putative active site [active] 395960009584 putative PHP Thumb interface [polypeptide binding]; other site 395960009585 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 395960009586 generic binding surface I; other site 395960009587 generic binding surface II; other site 395960009588 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 395960009589 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 395960009590 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395960009591 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395960009592 Walker A/P-loop; other site 395960009593 ATP binding site [chemical binding]; other site 395960009594 Q-loop/lid; other site 395960009595 ABC transporter signature motif; other site 395960009596 Walker B; other site 395960009597 D-loop; other site 395960009598 H-loop/switch region; other site 395960009599 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 395960009600 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395960009601 FtsX-like permease family; Region: FtsX; pfam02687 395960009602 prolyl-tRNA synthetase; Provisional; Region: PRK12325 395960009603 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 395960009604 dimer interface [polypeptide binding]; other site 395960009605 motif 1; other site 395960009606 active site 395960009607 motif 2; other site 395960009608 motif 3; other site 395960009609 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 395960009610 anticodon binding site; other site 395960009611 CopC domain; Region: CopC; pfam04234 395960009612 Copper resistance protein D; Region: CopD; cl00563 395960009613 YtkA-like; Region: YtkA; pfam13115 395960009614 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 395960009615 Protein of unknown function (DUF461); Region: DUF461; pfam04314 395960009616 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 395960009617 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395960009618 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 395960009619 dimer interface [polypeptide binding]; other site 395960009620 substrate binding site [chemical binding]; other site 395960009621 metal binding site [ion binding]; metal-binding site 395960009622 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 395960009623 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395960009624 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 395960009625 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 395960009626 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 395960009627 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 395960009628 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 395960009629 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395960009630 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 395960009631 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395960009632 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 395960009633 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 395960009634 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395960009635 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 395960009636 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 395960009637 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 395960009638 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 395960009639 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 395960009640 4Fe-4S binding domain; Region: Fer4; pfam00037 395960009641 4Fe-4S binding domain; Region: Fer4; pfam00037 395960009642 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 395960009643 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 395960009644 NADH dehydrogenase subunit G; Validated; Region: PRK09130 395960009645 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 395960009646 catalytic loop [active] 395960009647 iron binding site [ion binding]; other site 395960009648 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 395960009649 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 395960009650 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 395960009651 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 395960009652 SLBB domain; Region: SLBB; pfam10531 395960009653 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 395960009654 NADH dehydrogenase subunit E; Validated; Region: PRK07539 395960009655 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 395960009656 putative dimer interface [polypeptide binding]; other site 395960009657 [2Fe-2S] cluster binding site [ion binding]; other site 395960009658 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 395960009659 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 395960009660 NADH dehydrogenase subunit D; Validated; Region: PRK06075 395960009661 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 395960009662 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 395960009663 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 395960009664 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 395960009665 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 395960009666 IHF - DNA interface [nucleotide binding]; other site 395960009667 IHF dimer interface [polypeptide binding]; other site 395960009668 peptidase T; Region: peptidase-T; TIGR01882 395960009669 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 395960009670 metal binding site [ion binding]; metal-binding site 395960009671 dimer interface [polypeptide binding]; other site 395960009672 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960009673 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960009674 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395960009675 PAS fold; Region: PAS_7; pfam12860 395960009676 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960009677 metal binding site [ion binding]; metal-binding site 395960009678 active site 395960009679 I-site; other site 395960009680 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 395960009681 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 395960009682 Found in ATP-dependent protease La (LON); Region: LON; smart00464 395960009683 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 395960009684 Walker A motif; other site 395960009685 ATP binding site [chemical binding]; other site 395960009686 Walker B motif; other site 395960009687 arginine finger; other site 395960009688 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 395960009689 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 395960009690 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 395960009691 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 395960009692 Walker A motif; other site 395960009693 ATP binding site [chemical binding]; other site 395960009694 Walker B motif; other site 395960009695 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 395960009696 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 395960009697 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 395960009698 oligomer interface [polypeptide binding]; other site 395960009699 active site residues [active] 395960009700 trigger factor; Provisional; Region: tig; PRK01490 395960009701 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 395960009702 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 395960009703 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395960009704 MarR family; Region: MarR_2; pfam12802 395960009705 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 395960009706 Multicopper oxidase; Region: Cu-oxidase; pfam00394 395960009707 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 395960009708 Uncharacterized conserved protein [Function unknown]; Region: COG0062 395960009709 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 395960009710 putative substrate binding site [chemical binding]; other site 395960009711 putative ATP binding site [chemical binding]; other site 395960009712 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 395960009713 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395960009714 glutamine synthetase; Provisional; Region: glnA; PRK09469 395960009715 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 395960009716 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395960009717 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960009718 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960009719 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 395960009720 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 395960009721 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 395960009722 inhibitor-cofactor binding pocket; inhibition site 395960009723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960009724 catalytic residue [active] 395960009725 AAA domain; Region: AAA_26; pfam13500 395960009726 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 395960009727 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 395960009728 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 395960009729 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960009730 catalytic residue [active] 395960009731 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395960009732 Amidase; Region: Amidase; cl11426 395960009733 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 395960009734 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 395960009735 ligand binding site [chemical binding]; other site 395960009736 NAD binding site [chemical binding]; other site 395960009737 dimerization interface [polypeptide binding]; other site 395960009738 catalytic site [active] 395960009739 EamA-like transporter family; Region: EamA; pfam00892 395960009740 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395960009741 EamA-like transporter family; Region: EamA; pfam00892 395960009742 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 395960009743 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 395960009744 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 395960009745 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 395960009746 active site 395960009747 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 395960009748 TSCPD domain; Region: TSCPD; pfam12637 395960009749 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 395960009750 active site 395960009751 Zn binding site [ion binding]; other site 395960009752 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 395960009753 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 395960009754 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 395960009755 Putative phage tail protein; Region: Phage-tail_3; pfam13550 395960009756 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 395960009757 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 395960009758 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 395960009759 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 395960009760 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 395960009761 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 395960009762 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 395960009763 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 395960009764 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 395960009765 non-specific DNA binding site [nucleotide binding]; other site 395960009766 salt bridge; other site 395960009767 sequence-specific DNA binding site [nucleotide binding]; other site 395960009768 Predicted transcriptional regulator [Transcription]; Region: COG2932 395960009769 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 395960009770 Catalytic site [active] 395960009771 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 395960009772 non-specific DNA binding site [nucleotide binding]; other site 395960009773 salt bridge; other site 395960009774 sequence-specific DNA binding site [nucleotide binding]; other site 395960009775 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 395960009776 Integrase core domain; Region: rve; pfam00665 395960009777 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 395960009778 AAA domain; Region: AAA_22; pfam13401 395960009779 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 395960009780 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 395960009781 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 395960009782 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 395960009783 DnaA box-binding interface [nucleotide binding]; other site 395960009784 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 395960009785 GcrA cell cycle regulator; Region: GcrA; cl11564 395960009786 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 395960009787 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 395960009788 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 395960009789 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 395960009790 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 395960009791 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 395960009792 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 395960009793 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 395960009794 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 395960009795 Terminase-like family; Region: Terminase_6; pfam03237 395960009796 Protein of unknown function (DUF935); Region: DUF935; pfam06074 395960009797 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 395960009798 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 395960009799 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 395960009800 putative substrate binding pocket [chemical binding]; other site 395960009801 trimer interface [polypeptide binding]; other site 395960009802 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 395960009803 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395960009804 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 395960009805 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395960009806 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 395960009807 NAD(P) binding site [chemical binding]; other site 395960009808 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 395960009809 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 395960009810 UPF0126 domain; Region: UPF0126; pfam03458 395960009811 Predicted membrane protein [Function unknown]; Region: COG2860 395960009812 UPF0126 domain; Region: UPF0126; pfam03458 395960009813 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960009814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960009815 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 395960009816 dimerization interface [polypeptide binding]; other site 395960009817 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 395960009818 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395960009819 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 395960009820 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 395960009821 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 395960009822 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395960009823 dimer interface [polypeptide binding]; other site 395960009824 active site 395960009825 catalytic residue [active] 395960009826 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 395960009827 active site 395960009828 phosphorylation site [posttranslational modification] 395960009829 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395960009830 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 395960009831 active site 395960009832 phosphorylation site [posttranslational modification] 395960009833 intermolecular recognition site; other site 395960009834 dimerization interface [polypeptide binding]; other site 395960009835 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 395960009836 DNA binding site [nucleotide binding] 395960009837 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 395960009838 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 395960009839 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 395960009840 Ligand Binding Site [chemical binding]; other site 395960009841 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 395960009842 GAF domain; Region: GAF_3; pfam13492 395960009843 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 395960009844 dimer interface [polypeptide binding]; other site 395960009845 phosphorylation site [posttranslational modification] 395960009846 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 395960009847 ATP binding site [chemical binding]; other site 395960009848 Mg2+ binding site [ion binding]; other site 395960009849 G-X-G motif; other site 395960009850 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 395960009851 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 395960009852 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395960009853 Soluble P-type ATPase [General function prediction only]; Region: COG4087 395960009854 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 395960009855 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 395960009856 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 395960009857 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 395960009858 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 395960009859 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395960009860 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 395960009861 active site 395960009862 phosphorylation site [posttranslational modification] 395960009863 intermolecular recognition site; other site 395960009864 dimerization interface [polypeptide binding]; other site 395960009865 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 395960009866 DNA binding residues [nucleotide binding] 395960009867 dimerization interface [polypeptide binding]; other site 395960009868 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 395960009869 GAF domain; Region: GAF; pfam01590 395960009870 Phytochrome region; Region: PHY; pfam00360 395960009871 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 395960009872 dimer interface [polypeptide binding]; other site 395960009873 phosphorylation site [posttranslational modification] 395960009874 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 395960009875 ATP binding site [chemical binding]; other site 395960009876 Mg2+ binding site [ion binding]; other site 395960009877 G-X-G motif; other site 395960009878 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 395960009879 GAF domain; Region: GAF; pfam01590 395960009880 Phytochrome region; Region: PHY; pfam00360 395960009881 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 395960009882 dimer interface [polypeptide binding]; other site 395960009883 phosphorylation site [posttranslational modification] 395960009884 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 395960009885 ATP binding site [chemical binding]; other site 395960009886 Mg2+ binding site [ion binding]; other site 395960009887 G-X-G motif; other site 395960009888 Response regulator receiver domain; Region: Response_reg; pfam00072 395960009889 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 395960009890 active site 395960009891 phosphorylation site [posttranslational modification] 395960009892 intermolecular recognition site; other site 395960009893 dimerization interface [polypeptide binding]; other site 395960009894 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960009895 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 395960009896 active site 395960009897 phosphorylation site [posttranslational modification] 395960009898 intermolecular recognition site; other site 395960009899 dimerization interface [polypeptide binding]; other site 395960009900 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 395960009901 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395960009902 Histidine kinase; Region: HisKA_3; pfam07730 395960009903 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 395960009904 ATP binding site [chemical binding]; other site 395960009905 Mg2+ binding site [ion binding]; other site 395960009906 G-X-G motif; other site 395960009907 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 395960009908 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960009909 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960009910 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960009911 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960009912 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960009913 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 395960009914 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395960009915 active site 395960009916 catalytic tetrad [active] 395960009917 CAAX protease self-immunity; Region: Abi; pfam02517 395960009918 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 395960009919 potassium uptake protein; Region: kup; TIGR00794 395960009920 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395960009921 Sel1-like repeats; Region: SEL1; smart00671 395960009922 Sel1-like repeats; Region: SEL1; smart00671 395960009923 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960009924 Coenzyme A binding pocket [chemical binding]; other site 395960009925 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 395960009926 CoenzymeA binding site [chemical binding]; other site 395960009927 subunit interaction site [polypeptide binding]; other site 395960009928 PHB binding site; other site 395960009929 acetylornithine deacetylase; Provisional; Region: PRK06837 395960009930 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 395960009931 metal binding site [ion binding]; metal-binding site 395960009932 dimer interface [polypeptide binding]; other site 395960009933 CreA protein; Region: CreA; pfam05981 395960009934 hypothetical protein; Provisional; Region: PRK06132 395960009935 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395960009936 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 395960009937 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 395960009938 NodB motif; other site 395960009939 active site 395960009940 catalytic site [active] 395960009941 metal binding site [ion binding]; metal-binding site 395960009942 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; cl17426 395960009943 NADP+ binding site [chemical binding]; other site 395960009944 folate binding site [chemical binding]; other site 395960009945 Predicted membrane protein [Function unknown]; Region: COG2259 395960009946 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 395960009947 Malic enzyme, N-terminal domain; Region: malic; pfam00390 395960009948 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 395960009949 putative NAD(P) binding site [chemical binding]; other site 395960009950 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 395960009951 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 395960009952 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 395960009953 dimer interface [polypeptide binding]; other site 395960009954 anticodon binding site; other site 395960009955 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 395960009956 homodimer interface [polypeptide binding]; other site 395960009957 motif 1; other site 395960009958 active site 395960009959 motif 2; other site 395960009960 GAD domain; Region: GAD; pfam02938 395960009961 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 395960009962 active site 395960009963 motif 3; other site 395960009964 hypothetical protein; Validated; Region: PRK00029 395960009965 Uncharacterized conserved protein [Function unknown]; Region: COG0397 395960009966 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 395960009967 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 395960009968 catalytic site [active] 395960009969 putative active site [active] 395960009970 putative substrate binding site [chemical binding]; other site 395960009971 HRDC domain; Region: HRDC; pfam00570 395960009972 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 395960009973 exopolyphosphatase; Region: exo_poly_only; TIGR03706 395960009974 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 395960009975 polyphosphate kinase; Provisional; Region: PRK05443 395960009976 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 395960009977 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 395960009978 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 395960009979 putative domain interface [polypeptide binding]; other site 395960009980 putative active site [active] 395960009981 catalytic site [active] 395960009982 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 395960009983 putative domain interface [polypeptide binding]; other site 395960009984 putative active site [active] 395960009985 catalytic site [active] 395960009986 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 395960009987 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 395960009988 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 395960009989 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 395960009990 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 395960009991 dimerization interface [polypeptide binding]; other site 395960009992 putative ATP binding site [chemical binding]; other site 395960009993 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 395960009994 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 395960009995 active site 395960009996 substrate binding site [chemical binding]; other site 395960009997 cosubstrate binding site; other site 395960009998 catalytic site [active] 395960009999 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 395960010000 DNA-binding site [nucleotide binding]; DNA binding site 395960010001 RNA-binding motif; other site 395960010002 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960010003 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 395960010004 ligand binding site [chemical binding]; other site 395960010005 flexible hinge region; other site 395960010006 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 395960010007 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 395960010008 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 395960010009 active site 395960010010 multimer interface [polypeptide binding]; other site 395960010011 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 395960010012 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395960010013 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395960010014 ABC transporter; Region: ABC_tran_2; pfam12848 395960010015 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395960010016 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 395960010017 DNA polymerase III subunit chi; Validated; Region: PRK05728 395960010018 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 395960010019 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 395960010020 interface (dimer of trimers) [polypeptide binding]; other site 395960010021 Substrate-binding/catalytic site; other site 395960010022 Zn-binding sites [ion binding]; other site 395960010023 Predicted permeases [General function prediction only]; Region: COG0795 395960010024 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 395960010025 Predicted permeases [General function prediction only]; Region: COG0795 395960010026 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 395960010027 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 395960010028 Organic solvent tolerance protein; Region: OstA_C; pfam04453 395960010029 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 395960010030 SurA N-terminal domain; Region: SurA_N; pfam09312 395960010031 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 395960010032 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 395960010033 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 395960010034 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 395960010035 S-adenosylmethionine binding site [chemical binding]; other site 395960010036 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 395960010037 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 395960010038 putative NAD(P) binding site [chemical binding]; other site 395960010039 catalytic Zn binding site [ion binding]; other site 395960010040 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 395960010041 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 395960010042 catalytic site [active] 395960010043 G-X2-G-X-G-K; other site 395960010044 hypothetical protein; Provisional; Region: PRK11820 395960010045 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 395960010046 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 395960010047 YceG-like family; Region: YceG; pfam02618 395960010048 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 395960010049 dimerization interface [polypeptide binding]; other site 395960010050 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 395960010051 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 395960010052 dimer interface [polypeptide binding]; other site 395960010053 active site 395960010054 acyl carrier protein; Provisional; Region: acpP; PRK00982 395960010055 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 395960010056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960010057 NAD(P) binding site [chemical binding]; other site 395960010058 active site 395960010059 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 395960010060 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 395960010061 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960010062 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960010063 metal binding site [ion binding]; metal-binding site 395960010064 active site 395960010065 I-site; other site 395960010066 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 395960010067 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 395960010068 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 395960010069 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 395960010070 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 395960010071 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 395960010072 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 395960010073 S-adenosylmethionine binding site [chemical binding]; other site 395960010074 replicative DNA helicase; Provisional; Region: PRK09165 395960010075 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 395960010076 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 395960010077 Walker A motif; other site 395960010078 ATP binding site [chemical binding]; other site 395960010079 Walker B motif; other site 395960010080 DNA binding loops [nucleotide binding] 395960010081 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 395960010082 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 395960010083 active site 395960010084 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395960010085 dimer interface [polypeptide binding]; other site 395960010086 substrate binding site [chemical binding]; other site 395960010087 catalytic residues [active] 395960010088 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 395960010089 DNA repair protein RadA; Provisional; Region: PRK11823 395960010090 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 395960010091 Walker A motif; other site 395960010092 ATP binding site [chemical binding]; other site 395960010093 Walker B motif; other site 395960010094 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 395960010095 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 395960010096 Colicin V production protein; Region: Colicin_V; pfam02674 395960010097 amidophosphoribosyltransferase; Provisional; Region: PRK09123 395960010098 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 395960010099 active site 395960010100 tetramer interface [polypeptide binding]; other site 395960010101 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395960010102 active site 395960010103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960010104 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 395960010105 NAD(P) binding site [chemical binding]; other site 395960010106 active site 395960010107 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960010108 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 395960010109 putative ligand binding site [chemical binding]; other site 395960010110 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 395960010111 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395960010112 putative substrate translocation pore; other site 395960010113 GTP-binding protein Der; Reviewed; Region: PRK00093 395960010114 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 395960010115 G1 box; other site 395960010116 GTP/Mg2+ binding site [chemical binding]; other site 395960010117 Switch I region; other site 395960010118 G2 box; other site 395960010119 Switch II region; other site 395960010120 G3 box; other site 395960010121 G4 box; other site 395960010122 G5 box; other site 395960010123 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 395960010124 G1 box; other site 395960010125 GTP/Mg2+ binding site [chemical binding]; other site 395960010126 Switch I region; other site 395960010127 G2 box; other site 395960010128 G3 box; other site 395960010129 Switch II region; other site 395960010130 G4 box; other site 395960010131 G5 box; other site 395960010132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 395960010133 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 395960010134 oligomerization interface [polypeptide binding]; other site 395960010135 active site 395960010136 metal binding site [ion binding]; metal-binding site 395960010137 NnrU protein; Region: NnrU; pfam07298 395960010138 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 395960010139 Cache domain; Region: Cache_2; cl07034 395960010140 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395960010141 Sel1-like repeats; Region: SEL1; smart00671 395960010142 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 395960010143 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 395960010144 GatB domain; Region: GatB_Yqey; smart00845 395960010145 PAS domain; Region: PAS_8; pfam13188 395960010146 PAS domain; Region: PAS_9; pfam13426 395960010147 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395960010148 Histidine kinase; Region: HisKA_2; pfam07568 395960010149 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 395960010150 ATP binding site [chemical binding]; other site 395960010151 Mg2+ binding site [ion binding]; other site 395960010152 G-X-G motif; other site 395960010153 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395960010154 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 395960010155 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 395960010156 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 395960010157 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 395960010158 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 395960010159 FMN binding site [chemical binding]; other site 395960010160 substrate binding site [chemical binding]; other site 395960010161 putative catalytic residue [active] 395960010162 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 395960010163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 395960010164 SEC-C motif; Region: SEC-C; pfam02810 395960010165 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960010166 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960010167 active site 395960010168 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 395960010169 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 395960010170 dimer interface [polypeptide binding]; other site 395960010171 PYR/PP interface [polypeptide binding]; other site 395960010172 TPP binding site [chemical binding]; other site 395960010173 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395960010174 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 395960010175 TPP-binding site [chemical binding]; other site 395960010176 dimer interface [polypeptide binding]; other site 395960010177 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 395960010178 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395960010179 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 395960010180 dihydroorotase; Validated; Region: PRK09059 395960010181 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 395960010182 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 395960010183 active site 395960010184 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 395960010185 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 395960010186 DNA protecting protein DprA; Region: dprA; TIGR00732 395960010187 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 395960010188 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 395960010189 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 395960010190 active site 395960010191 interdomain interaction site; other site 395960010192 putative metal-binding site [ion binding]; other site 395960010193 nucleotide binding site [chemical binding]; other site 395960010194 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 395960010195 domain I; other site 395960010196 DNA binding groove [nucleotide binding] 395960010197 phosphate binding site [ion binding]; other site 395960010198 domain II; other site 395960010199 domain III; other site 395960010200 nucleotide binding site [chemical binding]; other site 395960010201 catalytic site [active] 395960010202 domain IV; other site 395960010203 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 395960010204 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 395960010205 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 395960010206 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 395960010207 ribonuclease R; Region: RNase_R; TIGR02063 395960010208 RNB domain; Region: RNB; pfam00773 395960010209 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 395960010210 RNA binding site [nucleotide binding]; other site 395960010211 hypothetical protein; Provisional; Region: PRK05978 395960010212 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395960010213 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 395960010214 response regulator PleD; Reviewed; Region: pleD; PRK09581 395960010215 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 395960010216 active site 395960010217 phosphorylation site [posttranslational modification] 395960010218 intermolecular recognition site; other site 395960010219 dimerization interface [polypeptide binding]; other site 395960010220 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 395960010221 active site 395960010222 phosphorylation site [posttranslational modification] 395960010223 intermolecular recognition site; other site 395960010224 dimerization interface [polypeptide binding]; other site 395960010225 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960010226 metal binding site [ion binding]; metal-binding site 395960010227 active site 395960010228 I-site; other site 395960010229 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960010230 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 395960010231 active site 395960010232 phosphorylation site [posttranslational modification] 395960010233 intermolecular recognition site; other site 395960010234 dimerization interface [polypeptide binding]; other site 395960010235 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 395960010236 DNA polymerase IV; Provisional; Region: PRK02794 395960010237 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 395960010238 active site 395960010239 DNA binding site [nucleotide binding] 395960010240 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 395960010241 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 395960010242 homotrimer interaction site [polypeptide binding]; other site 395960010243 putative active site [active] 395960010244 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 395960010245 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 395960010246 putative active site [active] 395960010247 catalytic site [active] 395960010248 putative metal binding site [ion binding]; other site 395960010249 Protein of unknown function, DUF482; Region: DUF482; pfam04339 395960010250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 395960010251 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 395960010252 HIT family signature motif; other site 395960010253 catalytic residue [active] 395960010254 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 395960010255 homodimer interaction site [polypeptide binding]; other site 395960010256 cofactor binding site; other site 395960010257 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 395960010258 AzlC protein; Region: AzlC; pfam03591 395960010259 PilZ domain; Region: PilZ; pfam07238 395960010260 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395960010261 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 395960010262 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395960010263 catalytic residue [active] 395960010264 Sporulation related domain; Region: SPOR; pfam05036 395960010265 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 395960010266 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 395960010267 Walker A motif; other site 395960010268 ATP binding site [chemical binding]; other site 395960010269 Walker B motif; other site 395960010270 arginine finger; other site 395960010271 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 395960010272 Walker A motif; other site 395960010273 ATP binding site [chemical binding]; other site 395960010274 Walker B motif; other site 395960010275 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 395960010276 Uncharacterized conserved protein [Function unknown]; Region: COG2127 395960010277 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395960010278 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 395960010279 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395960010280 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 395960010281 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 395960010282 Sporulation related domain; Region: SPOR; pfam05036 395960010283 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 395960010284 HSP70 interaction site [polypeptide binding]; other site 395960010285 von Willebrand factor type A domain; Region: VWA_2; pfam13519 395960010286 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395960010287 ATPase MipZ; Region: MipZ; pfam09140 395960010288 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 395960010289 P-loop; other site 395960010290 Magnesium ion binding site [ion binding]; other site 395960010291 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 395960010292 Magnesium ion binding site [ion binding]; other site 395960010293 pantoate--beta-alanine ligase; Region: panC; TIGR00018 395960010294 Pantoate-beta-alanine ligase; Region: PanC; cd00560 395960010295 active site 395960010296 ATP-binding site [chemical binding]; other site 395960010297 pantoate-binding site; other site 395960010298 HXXH motif; other site 395960010299 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 395960010300 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 395960010301 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395960010302 putative C-terminal domain interface [polypeptide binding]; other site 395960010303 putative GSH binding site (G-site) [chemical binding]; other site 395960010304 putative dimer interface [polypeptide binding]; other site 395960010305 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 395960010306 putative substrate binding pocket (H-site) [chemical binding]; other site 395960010307 putative N-terminal domain interface [polypeptide binding]; other site 395960010308 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 395960010309 Uncharacterized conserved protein [Function unknown]; Region: COG1434 395960010310 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 395960010311 putative active site [active] 395960010312 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 395960010313 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395960010314 active site 395960010315 catalytic tetrad [active] 395960010316 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 395960010317 non-specific DNA binding site [nucleotide binding]; other site 395960010318 salt bridge; other site 395960010319 sequence-specific DNA binding site [nucleotide binding]; other site 395960010320 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 395960010321 MgtE intracellular N domain; Region: MgtE_N; smart00924 395960010322 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 395960010323 Divalent cation transporter; Region: MgtE; cl00786 395960010324 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 395960010325 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 395960010326 NodB motif; other site 395960010327 active site 395960010328 catalytic site [active] 395960010329 metal binding site [ion binding]; metal-binding site 395960010330 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 395960010331 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 395960010332 NodB motif; other site 395960010333 active site 395960010334 catalytic site [active] 395960010335 metal binding site [ion binding]; metal-binding site 395960010336 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 395960010337 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 395960010338 RES domain; Region: RES; pfam08808 395960010339 hypothetical protein; Validated; Region: PRK06033 395960010340 lipoate-protein ligase B; Provisional; Region: PRK14341 395960010341 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 395960010342 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 395960010343 putative active site [active] 395960010344 heme pocket [chemical binding]; other site 395960010345 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 395960010346 putative active site [active] 395960010347 heme pocket [chemical binding]; other site 395960010348 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960010349 metal binding site [ion binding]; metal-binding site 395960010350 active site 395960010351 I-site; other site 395960010352 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 395960010353 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 395960010354 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960010355 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960010356 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 395960010357 dimerization interface [polypeptide binding]; other site 395960010358 acylphosphatase; Provisional; Region: PRK14421 395960010359 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 395960010360 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 395960010361 tetramer interface [polypeptide binding]; other site 395960010362 active site 395960010363 Mg2+/Mn2+ binding site [ion binding]; other site 395960010364 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 395960010365 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395960010366 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 395960010367 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 395960010368 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 395960010369 carboxyltransferase (CT) interaction site; other site 395960010370 biotinylation site [posttranslational modification]; other site 395960010371 Sulfatase; Region: Sulfatase; cl17466 395960010372 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 395960010373 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 395960010374 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 395960010375 DNA photolyase; Region: DNA_photolyase; pfam00875 395960010376 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395960010377 EamA-like transporter family; Region: EamA; pfam00892 395960010378 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 395960010379 Methyltransferase domain; Region: Methyltransf_11; pfam08241 395960010380 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 395960010381 putative carbohydrate binding site [chemical binding]; other site 395960010382 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395960010383 HAMP domain; Region: HAMP; pfam00672 395960010384 dimerization interface [polypeptide binding]; other site 395960010385 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960010386 dimer interface [polypeptide binding]; other site 395960010387 putative CheW interface [polypeptide binding]; other site 395960010388 HAMP domain; Region: HAMP; pfam00672 395960010389 PAS domain S-box; Region: sensory_box; TIGR00229 395960010390 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 395960010391 putative active site [active] 395960010392 heme pocket [chemical binding]; other site 395960010393 PAS fold; Region: PAS_4; pfam08448 395960010394 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395960010395 putative active site [active] 395960010396 heme pocket [chemical binding]; other site 395960010397 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960010398 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 395960010399 ATP binding site [chemical binding]; other site 395960010400 Mg2+ binding site [ion binding]; other site 395960010401 G-X-G motif; other site 395960010402 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 395960010403 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 395960010404 Trp docking motif [polypeptide binding]; other site 395960010405 cytochrome domain interface [polypeptide binding]; other site 395960010406 active site 395960010407 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 395960010408 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 395960010409 nudix motif; other site 395960010410 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395960010411 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395960010412 inhibitor site; inhibition site 395960010413 active site 395960010414 dimer interface [polypeptide binding]; other site 395960010415 catalytic residue [active] 395960010416 short chain dehydrogenase; Provisional; Region: PRK07791 395960010417 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 395960010418 homodimer interface [polypeptide binding]; other site 395960010419 NAD binding site [chemical binding]; other site 395960010420 active site 395960010421 enoyl-CoA hydratase; Region: PLN02864 395960010422 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 395960010423 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 395960010424 dimer interaction site [polypeptide binding]; other site 395960010425 substrate-binding tunnel; other site 395960010426 active site 395960010427 catalytic site [active] 395960010428 substrate binding site [chemical binding]; other site 395960010429 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 395960010430 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 395960010431 DUF35 OB-fold domain; Region: DUF35; pfam01796 395960010432 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 395960010433 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 395960010434 active site 395960010435 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 395960010436 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 395960010437 dimer interface [polypeptide binding]; other site 395960010438 PYR/PP interface [polypeptide binding]; other site 395960010439 TPP binding site [chemical binding]; other site 395960010440 substrate binding site [chemical binding]; other site 395960010441 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 395960010442 TPP-binding site [chemical binding]; other site 395960010443 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 395960010444 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 395960010445 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 395960010446 active site 395960010447 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 395960010448 Catalytic domain of Protein Kinases; Region: PKc; cd00180 395960010449 active site 395960010450 ATP binding site [chemical binding]; other site 395960010451 substrate binding site [chemical binding]; other site 395960010452 activation loop (A-loop); other site 395960010453 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395960010454 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 395960010455 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 395960010456 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 395960010457 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 395960010458 non-specific DNA binding site [nucleotide binding]; other site 395960010459 salt bridge; other site 395960010460 sequence-specific DNA binding site [nucleotide binding]; other site 395960010461 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395960010462 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 395960010463 putative NAD(P) binding site [chemical binding]; other site 395960010464 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 395960010465 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 395960010466 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 395960010467 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 395960010468 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 395960010469 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 395960010470 ATP12 chaperone protein; Region: ATP12; cl02228 395960010471 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 395960010472 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 395960010473 RNA binding surface [nucleotide binding]; other site 395960010474 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 395960010475 active site 395960010476 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 395960010477 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395960010478 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395960010479 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 395960010480 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395960010481 binding surface 395960010482 TPR motif; other site 395960010483 CHAT domain; Region: CHAT; pfam12770 395960010484 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 395960010485 putative FMN binding site [chemical binding]; other site 395960010486 PAS domain S-box; Region: sensory_box; TIGR00229 395960010487 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 395960010488 PAS fold; Region: PAS_3; pfam08447 395960010489 putative active site [active] 395960010490 heme pocket [chemical binding]; other site 395960010491 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 395960010492 dimer interface [polypeptide binding]; other site 395960010493 phosphorylation site [posttranslational modification] 395960010494 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 395960010495 ATP binding site [chemical binding]; other site 395960010496 Mg2+ binding site [ion binding]; other site 395960010497 G-X-G motif; other site 395960010498 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960010499 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 395960010500 active site 395960010501 phosphorylation site [posttranslational modification] 395960010502 intermolecular recognition site; other site 395960010503 dimerization interface [polypeptide binding]; other site 395960010504 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960010505 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960010506 putative ligand binding site [chemical binding]; other site 395960010507 Uncharacterized conserved protein [Function unknown]; Region: COG0432 395960010508 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960010509 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960010510 metal binding site [ion binding]; metal-binding site 395960010511 active site 395960010512 I-site; other site 395960010513 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 395960010514 recombination factor protein RarA; Reviewed; Region: PRK13342 395960010515 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 395960010516 Walker A motif; other site 395960010517 ATP binding site [chemical binding]; other site 395960010518 Walker B motif; other site 395960010519 arginine finger; other site 395960010520 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 395960010521 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395960010522 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395960010523 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 395960010524 protein binding site [polypeptide binding]; other site 395960010525 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 395960010526 protein binding site [polypeptide binding]; other site 395960010527 Predicted transcriptional regulators [Transcription]; Region: COG1733 395960010528 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 395960010529 dimerization interface [polypeptide binding]; other site 395960010530 putative DNA binding site [nucleotide binding]; other site 395960010531 putative Zn2+ binding site [ion binding]; other site 395960010532 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 395960010533 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 395960010534 putative NAD(P) binding site [chemical binding]; other site 395960010535 dimer interface [polypeptide binding]; other site 395960010536 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 395960010537 classical (c) SDRs; Region: SDR_c; cd05233 395960010538 NAD(P) binding site [chemical binding]; other site 395960010539 active site 395960010540 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 395960010541 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 395960010542 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 395960010543 alphaNTD - beta interaction site [polypeptide binding]; other site 395960010544 alphaNTD homodimer interface [polypeptide binding]; other site 395960010545 alphaNTD - beta' interaction site [polypeptide binding]; other site 395960010546 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 395960010547 30S ribosomal protein S11; Validated; Region: PRK05309 395960010548 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 395960010549 30S ribosomal protein S13; Region: bact_S13; TIGR03631 395960010550 adenylate kinase; Reviewed; Region: adk; PRK00279 395960010551 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 395960010552 AMP-binding site [chemical binding]; other site 395960010553 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 395960010554 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 395960010555 SecY translocase; Region: SecY; pfam00344 395960010556 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 395960010557 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 395960010558 23S rRNA binding site [nucleotide binding]; other site 395960010559 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 395960010560 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 395960010561 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 395960010562 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 395960010563 5S rRNA interface [nucleotide binding]; other site 395960010564 23S rRNA interface [nucleotide binding]; other site 395960010565 L5 interface [polypeptide binding]; other site 395960010566 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 395960010567 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 395960010568 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 395960010569 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 395960010570 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 395960010571 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 395960010572 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 395960010573 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 395960010574 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 395960010575 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 395960010576 RNA binding site [nucleotide binding]; other site 395960010577 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 395960010578 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 395960010579 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 395960010580 23S rRNA interface [nucleotide binding]; other site 395960010581 putative translocon interaction site; other site 395960010582 signal recognition particle (SRP54) interaction site; other site 395960010583 L23 interface [polypeptide binding]; other site 395960010584 trigger factor interaction site; other site 395960010585 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 395960010586 23S rRNA interface [nucleotide binding]; other site 395960010587 5S rRNA interface [nucleotide binding]; other site 395960010588 putative antibiotic binding site [chemical binding]; other site 395960010589 L25 interface [polypeptide binding]; other site 395960010590 L27 interface [polypeptide binding]; other site 395960010591 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 395960010592 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 395960010593 G-X-X-G motif; other site 395960010594 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 395960010595 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 395960010596 putative translocon binding site; other site 395960010597 protein-rRNA interface [nucleotide binding]; other site 395960010598 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 395960010599 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 395960010600 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 395960010601 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 395960010602 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 395960010603 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 395960010604 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 395960010605 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 395960010606 elongation factor Tu; Reviewed; Region: PRK00049 395960010607 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 395960010608 G1 box; other site 395960010609 GEF interaction site [polypeptide binding]; other site 395960010610 GTP/Mg2+ binding site [chemical binding]; other site 395960010611 Switch I region; other site 395960010612 G2 box; other site 395960010613 G3 box; other site 395960010614 Switch II region; other site 395960010615 G4 box; other site 395960010616 G5 box; other site 395960010617 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 395960010618 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 395960010619 Antibiotic Binding Site [chemical binding]; other site 395960010620 elongation factor G; Reviewed; Region: PRK00007 395960010621 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 395960010622 G1 box; other site 395960010623 putative GEF interaction site [polypeptide binding]; other site 395960010624 GTP/Mg2+ binding site [chemical binding]; other site 395960010625 Switch I region; other site 395960010626 G2 box; other site 395960010627 G3 box; other site 395960010628 Switch II region; other site 395960010629 G4 box; other site 395960010630 G5 box; other site 395960010631 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 395960010632 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 395960010633 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 395960010634 30S ribosomal protein S7; Validated; Region: PRK05302 395960010635 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 395960010636 S17 interaction site [polypeptide binding]; other site 395960010637 S8 interaction site; other site 395960010638 16S rRNA interaction site [nucleotide binding]; other site 395960010639 streptomycin interaction site [chemical binding]; other site 395960010640 23S rRNA interaction site [nucleotide binding]; other site 395960010641 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 395960010642 Helix-turn-helix domain; Region: HTH_18; pfam12833 395960010643 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960010644 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 395960010645 S-adenosylmethionine binding site [chemical binding]; other site 395960010646 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 395960010647 active site 395960010648 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960010649 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960010650 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 395960010651 putative dimerization interface [polypeptide binding]; other site 395960010652 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 395960010653 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 395960010654 metal-binding site [ion binding] 395960010655 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395960010656 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 395960010657 motif II; other site 395960010658 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 395960010659 DNA binding residues [nucleotide binding] 395960010660 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 395960010661 dimer interface [polypeptide binding]; other site 395960010662 putative metal binding site [ion binding]; other site 395960010663 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395960010664 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 395960010665 putative substrate translocation pore; other site 395960010666 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 395960010667 dimer interface [polypeptide binding]; other site 395960010668 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395960010669 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395960010670 MarR family; Region: MarR_2; cl17246 395960010671 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395960010672 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395960010673 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960010674 Walker A/P-loop; other site 395960010675 ATP binding site [chemical binding]; other site 395960010676 Q-loop/lid; other site 395960010677 ABC transporter signature motif; other site 395960010678 Walker B; other site 395960010679 D-loop; other site 395960010680 H-loop/switch region; other site 395960010681 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395960010682 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 395960010683 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 395960010684 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 395960010685 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 395960010686 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 395960010687 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 395960010688 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 395960010689 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 395960010690 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 395960010691 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 395960010692 DNA binding site [nucleotide binding] 395960010693 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 395960010694 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 395960010695 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 395960010696 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 395960010697 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 395960010698 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 395960010699 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 395960010700 RPB11 interaction site [polypeptide binding]; other site 395960010701 RPB12 interaction site [polypeptide binding]; other site 395960010702 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 395960010703 RPB3 interaction site [polypeptide binding]; other site 395960010704 RPB1 interaction site [polypeptide binding]; other site 395960010705 RPB11 interaction site [polypeptide binding]; other site 395960010706 RPB10 interaction site [polypeptide binding]; other site 395960010707 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 395960010708 L11 interface [polypeptide binding]; other site 395960010709 putative EF-Tu interaction site [polypeptide binding]; other site 395960010710 putative EF-G interaction site [polypeptide binding]; other site 395960010711 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 395960010712 23S rRNA interface [nucleotide binding]; other site 395960010713 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 395960010714 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395960010715 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 395960010716 NAD binding site [chemical binding]; other site 395960010717 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 395960010718 mRNA/rRNA interface [nucleotide binding]; other site 395960010719 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 395960010720 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 395960010721 23S rRNA interface [nucleotide binding]; other site 395960010722 L7/L12 interface [polypeptide binding]; other site 395960010723 putative thiostrepton binding site; other site 395960010724 L25 interface [polypeptide binding]; other site 395960010725 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 395960010726 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 395960010727 putative homodimer interface [polypeptide binding]; other site 395960010728 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 395960010729 heterodimer interface [polypeptide binding]; other site 395960010730 homodimer interface [polypeptide binding]; other site 395960010731 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 395960010732 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 395960010733 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 395960010734 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 395960010735 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 395960010736 tonB-system energizer ExbB; Region: exbB; TIGR02797 395960010737 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 395960010738 heme binding pocket [chemical binding]; other site 395960010739 heme ligand [chemical binding]; other site 395960010740 Secretin and TonB N terminus short domain; Region: STN; smart00965 395960010741 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 395960010742 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 395960010743 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 395960010744 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 395960010745 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 395960010746 FecR protein; Region: FecR; pfam04773 395960010747 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 395960010748 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960010749 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 395960010750 DNA binding residues [nucleotide binding] 395960010751 elongation factor Tu; Reviewed; Region: PRK00049 395960010752 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 395960010753 G1 box; other site 395960010754 GEF interaction site [polypeptide binding]; other site 395960010755 GTP/Mg2+ binding site [chemical binding]; other site 395960010756 Switch I region; other site 395960010757 G2 box; other site 395960010758 G3 box; other site 395960010759 Switch II region; other site 395960010760 G4 box; other site 395960010761 G5 box; other site 395960010762 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 395960010763 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 395960010764 Antibiotic Binding Site [chemical binding]; other site 395960010765 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 395960010766 Beta-lactamase; Region: Beta-lactamase; pfam00144 395960010767 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 395960010768 classical (c) SDRs; Region: SDR_c; cd05233 395960010769 NAD(P) binding site [chemical binding]; other site 395960010770 active site 395960010771 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 395960010772 catalytic core [active] 395960010773 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395960010774 classical (c) SDRs; Region: SDR_c; cd05233 395960010775 NAD(P) binding site [chemical binding]; other site 395960010776 active site 395960010777 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395960010778 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395960010779 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395960010780 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 395960010781 Phosphotransferase enzyme family; Region: APH; pfam01636 395960010782 putative active site [active] 395960010783 putative substrate binding site [chemical binding]; other site 395960010784 ATP binding site [chemical binding]; other site 395960010785 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960010786 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960010787 active site 395960010788 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960010789 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960010790 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 395960010791 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 395960010792 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960010793 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960010794 Walker A/P-loop; other site 395960010795 ATP binding site [chemical binding]; other site 395960010796 Q-loop/lid; other site 395960010797 ABC transporter signature motif; other site 395960010798 Walker B; other site 395960010799 D-loop; other site 395960010800 H-loop/switch region; other site 395960010801 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960010802 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960010803 Walker A/P-loop; other site 395960010804 ATP binding site [chemical binding]; other site 395960010805 Q-loop/lid; other site 395960010806 ABC transporter signature motif; other site 395960010807 Walker B; other site 395960010808 D-loop; other site 395960010809 H-loop/switch region; other site 395960010810 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960010811 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960010812 TM-ABC transporter signature motif; other site 395960010813 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960010814 TM-ABC transporter signature motif; other site 395960010815 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960010816 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 395960010817 putative ligand binding site [chemical binding]; other site 395960010818 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 395960010819 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 395960010820 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960010821 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395960010822 acyl-activating enzyme (AAE) consensus motif; other site 395960010823 acyl-activating enzyme (AAE) consensus motif; other site 395960010824 putative AMP binding site [chemical binding]; other site 395960010825 putative active site [active] 395960010826 putative CoA binding site [chemical binding]; other site 395960010827 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960010828 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960010829 lipid-transfer protein; Provisional; Region: PRK08256 395960010830 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 395960010831 active site 395960010832 (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 395960010833 active site 395960010834 catalytic site [active] 395960010835 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 395960010836 active site 395960010837 catalytic site [active] 395960010838 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395960010839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960010840 NAD(P) binding site [chemical binding]; other site 395960010841 active site 395960010842 enoyl-CoA hydratase; Provisional; Region: PRK08140 395960010843 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 395960010844 substrate binding site [chemical binding]; other site 395960010845 oxyanion hole (OAH) forming residues; other site 395960010846 trimer interface [polypeptide binding]; other site 395960010847 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 395960010848 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 395960010849 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 395960010850 Multicopper oxidase; Region: Cu-oxidase; pfam00394 395960010851 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 395960010852 putative catalytic site [active] 395960010853 putative phosphate binding site [ion binding]; other site 395960010854 active site 395960010855 metal binding site A [ion binding]; metal-binding site 395960010856 DNA binding site [nucleotide binding] 395960010857 putative AP binding site [nucleotide binding]; other site 395960010858 putative metal binding site B [ion binding]; other site 395960010859 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 395960010860 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 395960010861 dimerization interface [polypeptide binding]; other site 395960010862 metal binding site [ion binding]; metal-binding site 395960010863 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 395960010864 hydroperoxidase II; Provisional; Region: katE; PRK11249 395960010865 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 395960010866 heme binding pocket [chemical binding]; other site 395960010867 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 395960010868 domain interactions; other site 395960010869 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 395960010870 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 395960010871 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 395960010872 active site 395960010873 catalytic site [active] 395960010874 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395960010875 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 395960010876 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 395960010877 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395960010878 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 395960010879 protein binding site [polypeptide binding]; other site 395960010880 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 395960010881 Peptidase family M50; Region: Peptidase_M50; pfam02163 395960010882 active site 395960010883 putative substrate binding region [chemical binding]; other site 395960010884 CheB methylesterase; Region: CheB_methylest; pfam01339 395960010885 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 395960010886 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395960010887 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 395960010888 S-adenosylmethionine binding site [chemical binding]; other site 395960010889 PAS domain; Region: PAS_10; pfam13596 395960010890 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395960010891 HWE histidine kinase; Region: HWE_HK; smart00911 395960010892 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 395960010893 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960010894 ligand binding site [chemical binding]; other site 395960010895 flexible hinge region; other site 395960010896 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 395960010897 putative switch regulator; other site 395960010898 non-specific DNA interactions [nucleotide binding]; other site 395960010899 DNA binding site [nucleotide binding] 395960010900 sequence specific DNA binding site [nucleotide binding]; other site 395960010901 putative cAMP binding site [chemical binding]; other site 395960010902 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 395960010903 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 395960010904 active site 395960010905 substrate binding site [chemical binding]; other site 395960010906 metal binding site [ion binding]; metal-binding site 395960010907 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 395960010908 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 395960010909 Substrate binding site; other site 395960010910 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 395960010911 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 395960010912 putative methyltransferase, LIC12133 family; Region: MTase_LIC12133; TIGR04325 395960010913 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 395960010914 non-specific DNA binding site [nucleotide binding]; other site 395960010915 sequence-specific DNA binding site [nucleotide binding]; other site 395960010916 salt bridge; other site 395960010917 major curlin subunit; Provisional; Region: csgA; PRK10051 395960010918 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 395960010919 Curlin associated repeat; Region: Curlin_rpt; pfam07012 395960010920 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 395960010921 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 395960010922 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 395960010923 Condensation domain; Region: Condensation; pfam00668 395960010924 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 395960010925 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 395960010926 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 395960010927 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 395960010928 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 395960010929 active site 395960010930 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 395960010931 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 395960010932 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 395960010933 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 395960010934 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 395960010935 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960010936 catalytic residue [active] 395960010937 Condensation domain; Region: Condensation; pfam00668 395960010938 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 395960010939 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 395960010940 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 395960010941 acyl-activating enzyme (AAE) consensus motif; other site 395960010942 AMP binding site [chemical binding]; other site 395960010943 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 395960010944 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 395960010945 acyl-activating enzyme (AAE) consensus motif; other site 395960010946 AMP binding site [chemical binding]; other site 395960010947 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 395960010948 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 395960010949 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 395960010950 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 395960010951 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 395960010952 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960010953 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 395960010954 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395960010955 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 395960010956 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395960010957 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 395960010958 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960010959 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 395960010960 active site 395960010961 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 395960010962 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 395960010963 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395960010964 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 395960010965 inhibitor-cofactor binding pocket; inhibition site 395960010966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960010967 catalytic residue [active] 395960010968 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 395960010969 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960010970 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 395960010971 putative ADP-binding pocket [chemical binding]; other site 395960010972 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395960010973 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 395960010974 active site 395960010975 metal binding site [ion binding]; metal-binding site 395960010976 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 395960010977 Chain length determinant protein; Region: Wzz; cl15801 395960010978 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 395960010979 Bacterial sugar transferase; Region: Bac_transf; pfam02397 395960010980 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 395960010981 O-Antigen ligase; Region: Wzy_C; pfam04932 395960010982 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 395960010983 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395960010984 SLBB domain; Region: SLBB; pfam10531 395960010985 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 395960010986 active site 395960010987 DNA binding site [nucleotide binding] 395960010988 Int/Topo IB signature motif; other site 395960010989 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 395960010990 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 395960010991 active site 395960010992 metal binding site [ion binding]; metal-binding site 395960010993 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 395960010994 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 395960010995 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 395960010996 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 395960010997 DNA methylase; Region: N6_N4_Mtase; pfam01555 395960010998 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 395960010999 ATP binding site [chemical binding]; other site 395960011000 putative Mg++ binding site [ion binding]; other site 395960011001 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 395960011002 nucleotide binding region [chemical binding]; other site 395960011003 ATP-binding site [chemical binding]; other site 395960011004 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960011005 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960011006 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 395960011007 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 395960011008 active site 395960011009 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960011010 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395960011011 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 395960011012 Walker A motif; other site 395960011013 Walker A/P-loop; other site 395960011014 ATP binding site [chemical binding]; other site 395960011015 Walker B motif; other site 395960011016 arginine finger; other site 395960011017 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395960011018 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 395960011019 nucleophilic elbow; other site 395960011020 catalytic triad; other site 395960011021 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 395960011022 active site 395960011023 catalytic residues [active] 395960011024 DNA binding site [nucleotide binding] 395960011025 Int/Topo IB signature motif; other site 395960011026 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960011027 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 395960011028 ligand binding site [chemical binding]; other site 395960011029 flexible hinge region; other site 395960011030 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 395960011031 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395960011032 HWE histidine kinase; Region: HWE_HK; cl06527 395960011033 Predicted membrane protein [Function unknown]; Region: COG2323 395960011034 Predicted membrane protein [Function unknown]; Region: COG4325 395960011035 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 395960011036 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 395960011037 Cation efflux family; Region: Cation_efflux; pfam01545 395960011038 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 395960011039 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 395960011040 Trp docking motif [polypeptide binding]; other site 395960011041 putative active site [active] 395960011042 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960011043 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960011044 Walker A/P-loop; other site 395960011045 ATP binding site [chemical binding]; other site 395960011046 Q-loop/lid; other site 395960011047 ABC transporter signature motif; other site 395960011048 Walker B; other site 395960011049 D-loop; other site 395960011050 H-loop/switch region; other site 395960011051 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960011052 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960011053 Walker A/P-loop; other site 395960011054 ATP binding site [chemical binding]; other site 395960011055 Q-loop/lid; other site 395960011056 ABC transporter signature motif; other site 395960011057 Walker B; other site 395960011058 D-loop; other site 395960011059 H-loop/switch region; other site 395960011060 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960011061 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960011062 TM-ABC transporter signature motif; other site 395960011063 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960011064 TM-ABC transporter signature motif; other site 395960011065 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960011066 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 395960011067 putative ligand binding site [chemical binding]; other site 395960011068 PRC-barrel domain; Region: PRC; pfam05239 395960011069 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395960011070 Domain of unknown function DUF20; Region: UPF0118; pfam01594 395960011071 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 395960011072 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395960011073 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 395960011074 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 395960011075 active site 395960011076 homotetramer interface [polypeptide binding]; other site 395960011077 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 395960011078 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960011079 Walker A/P-loop; other site 395960011080 ATP binding site [chemical binding]; other site 395960011081 Q-loop/lid; other site 395960011082 ABC transporter signature motif; other site 395960011083 Walker B; other site 395960011084 D-loop; other site 395960011085 H-loop/switch region; other site 395960011086 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395960011087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960011088 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395960011089 NAD(P) binding site [chemical binding]; other site 395960011090 active site 395960011091 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395960011092 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 395960011093 active site 395960011094 phosphorylation site [posttranslational modification] 395960011095 intermolecular recognition site; other site 395960011096 dimerization interface [polypeptide binding]; other site 395960011097 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 395960011098 DNA binding residues [nucleotide binding] 395960011099 dimerization interface [polypeptide binding]; other site 395960011100 PAS domain; Region: PAS_9; pfam13426 395960011101 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 395960011102 putative active site [active] 395960011103 heme pocket [chemical binding]; other site 395960011104 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 395960011105 PAS fold; Region: PAS_3; pfam08447 395960011106 putative active site [active] 395960011107 heme pocket [chemical binding]; other site 395960011108 PAS fold; Region: PAS_3; pfam08447 395960011109 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 395960011110 heme pocket [chemical binding]; other site 395960011111 putative active site [active] 395960011112 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 395960011113 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960011114 dimer interface [polypeptide binding]; other site 395960011115 phosphorylation site [posttranslational modification] 395960011116 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 395960011117 ATP binding site [chemical binding]; other site 395960011118 Mg2+ binding site [ion binding]; other site 395960011119 G-X-G motif; other site 395960011120 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395960011121 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 395960011122 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 395960011123 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 395960011124 Sensors of blue-light using FAD; Region: BLUF; smart01034 395960011125 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960011126 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 395960011127 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 395960011128 Methyltransferase domain; Region: Methyltransf_26; pfam13659 395960011129 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395960011130 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 395960011131 putative NAD(P) binding site [chemical binding]; other site 395960011132 putative active site [active] 395960011133 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960011134 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 395960011135 active site 395960011136 phosphorylation site [posttranslational modification] 395960011137 intermolecular recognition site; other site 395960011138 dimerization interface [polypeptide binding]; other site 395960011139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 395960011140 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 395960011141 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960011142 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 395960011143 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395960011144 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 395960011145 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960011146 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 395960011147 Walker A/P-loop; other site 395960011148 ATP binding site [chemical binding]; other site 395960011149 Q-loop/lid; other site 395960011150 ABC transporter signature motif; other site 395960011151 Walker B; other site 395960011152 D-loop; other site 395960011153 H-loop/switch region; other site 395960011154 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395960011155 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 395960011156 active site 395960011157 catalytic triad [active] 395960011158 dimer interface [polypeptide binding]; other site 395960011159 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395960011160 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 395960011161 active site 395960011162 catalytic triad [active] 395960011163 dimer interface [polypeptide binding]; other site 395960011164 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960011165 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960011166 LysR substrate binding domain; Region: LysR_substrate; pfam03466 395960011167 dimerization interface [polypeptide binding]; other site 395960011168 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 395960011169 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395960011170 catalytic residue [active] 395960011171 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 395960011172 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 395960011173 GTP cyclohydrolase I; Provisional; Region: PLN03044 395960011174 active site 395960011175 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 395960011176 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 395960011177 trimerization site [polypeptide binding]; other site 395960011178 active site 395960011179 Predicted periplasmic protein [Function unknown]; Region: COG3904 395960011180 hypothetical protein; Validated; Region: PRK00041 395960011181 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 395960011182 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 395960011183 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 395960011184 transmembrane helices; other site 395960011185 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 395960011186 DNA-binding site [nucleotide binding]; DNA binding site 395960011187 RNA-binding motif; other site 395960011188 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 395960011189 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960011190 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960011191 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 395960011192 Methyltransferase domain; Region: Methyltransf_24; pfam13578 395960011193 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395960011194 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 395960011195 putative substrate translocation pore; other site 395960011196 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 395960011197 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 395960011198 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 395960011199 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 395960011200 active site 395960011201 dimer interface [polypeptide binding]; other site 395960011202 motif 1; other site 395960011203 motif 2; other site 395960011204 motif 3; other site 395960011205 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 395960011206 anticodon binding site; other site 395960011207 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 395960011208 putative FMN binding site [chemical binding]; other site 395960011209 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 395960011210 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 395960011211 active site 395960011212 PAS domain S-box; Region: sensory_box; TIGR00229 395960011213 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 395960011214 putative active site [active] 395960011215 heme pocket [chemical binding]; other site 395960011216 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960011217 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960011218 metal binding site [ion binding]; metal-binding site 395960011219 active site 395960011220 I-site; other site 395960011221 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 395960011222 hypothetical protein; Provisional; Region: PRK10279 395960011223 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 395960011224 nucleophile elbow; other site 395960011225 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 395960011226 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 395960011227 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 395960011228 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 395960011229 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 395960011230 N-terminal plug; other site 395960011231 ligand-binding site [chemical binding]; other site 395960011232 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960011233 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960011234 FOG: CBS domain [General function prediction only]; Region: COG0517 395960011235 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 395960011236 Rhomboid family; Region: Rhomboid; cl11446 395960011237 PAS domain; Region: PAS_5; pfam07310 395960011238 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 395960011239 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960011240 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 395960011241 PilZ domain; Region: PilZ; pfam07238 395960011242 PilZ domain; Region: PilZ; pfam07238 395960011243 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 395960011244 Methyltransferase domain; Region: Methyltransf_24; pfam13578 395960011245 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395960011246 MarR family; Region: MarR_2; pfam12802 395960011247 Porin subfamily; Region: Porin_2; pfam02530 395960011248 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 395960011249 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 395960011250 trimer interface [polypeptide binding]; other site 395960011251 putative metal binding site [ion binding]; other site 395960011252 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 395960011253 serine acetyltransferase; Provisional; Region: cysE; PRK11132 395960011254 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 395960011255 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 395960011256 trimer interface [polypeptide binding]; other site 395960011257 active site 395960011258 substrate binding site [chemical binding]; other site 395960011259 CoA binding site [chemical binding]; other site 395960011260 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395960011261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 395960011262 salicylate hydroxylase; Provisional; Region: PRK08163 395960011263 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395960011264 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 395960011265 Ligand Binding Site [chemical binding]; other site 395960011266 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 395960011267 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 395960011268 additional DNA contacts [nucleotide binding]; other site 395960011269 mismatch recognition site; other site 395960011270 active site 395960011271 zinc binding site [ion binding]; other site 395960011272 DNA intercalation site [nucleotide binding]; other site 395960011273 HerA helicase [Replication, recombination, and repair]; Region: COG0433 395960011274 Domain of unknown function DUF87; Region: DUF87; pfam01935 395960011275 NurA nuclease; Region: NurA; smart00933 395960011276 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 395960011277 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 395960011278 cofactor binding site; other site 395960011279 DNA binding site [nucleotide binding] 395960011280 substrate interaction site [chemical binding]; other site 395960011281 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 395960011282 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 395960011283 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395960011284 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395960011285 metal binding site [ion binding]; metal-binding site 395960011286 putative dimer interface [polypeptide binding]; other site 395960011287 amidase; Provisional; Region: PRK07042 395960011288 Amidase; Region: Amidase; cl11426 395960011289 enoyl-CoA hydratase; Provisional; Region: PRK08260 395960011290 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 395960011291 substrate binding site [chemical binding]; other site 395960011292 oxyanion hole (OAH) forming residues; other site 395960011293 trimer interface [polypeptide binding]; other site 395960011294 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 395960011295 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395960011296 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395960011297 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395960011298 DNA-binding site [nucleotide binding]; DNA binding site 395960011299 FCD domain; Region: FCD; pfam07729 395960011300 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 395960011301 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 395960011302 active site 395960011303 acyl-activating enzyme (AAE) consensus motif; other site 395960011304 putative CoA binding site [chemical binding]; other site 395960011305 AMP binding site [chemical binding]; other site 395960011306 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 395960011307 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 395960011308 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 395960011309 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 395960011310 substrate binding site [chemical binding]; other site 395960011311 oxyanion hole (OAH) forming residues; other site 395960011312 trimer interface [polypeptide binding]; other site 395960011313 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 395960011314 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960011315 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 395960011316 substrate binding pocket [chemical binding]; other site 395960011317 FAD binding site [chemical binding]; other site 395960011318 catalytic base [active] 395960011319 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 395960011320 putative active site [active] 395960011321 homotetrameric interface [polypeptide binding]; other site 395960011322 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 395960011323 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 395960011324 tetrameric interface [polypeptide binding]; other site 395960011325 NAD binding site [chemical binding]; other site 395960011326 catalytic residues [active] 395960011327 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960011328 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960011329 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 395960011330 CoenzymeA binding site [chemical binding]; other site 395960011331 subunit interaction site [polypeptide binding]; other site 395960011332 PHB binding site; other site 395960011333 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 395960011334 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 395960011335 substrate binding site [chemical binding]; other site 395960011336 oxyanion hole (OAH) forming residues; other site 395960011337 trimer interface [polypeptide binding]; other site 395960011338 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 395960011339 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395960011340 putative substrate translocation pore; other site 395960011341 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 395960011342 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 395960011343 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 395960011344 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395960011345 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395960011346 Bacterial transcriptional regulator; Region: IclR; pfam01614 395960011347 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 395960011348 carboxyltransferase (CT) interaction site; other site 395960011349 biotinylation site [posttranslational modification]; other site 395960011350 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 395960011351 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 395960011352 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 395960011353 DctM-like transporters; Region: DctM; pfam06808 395960011354 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 395960011355 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 395960011356 DUF35 OB-fold domain; Region: DUF35; pfam01796 395960011357 thiolase; Provisional; Region: PRK06158 395960011358 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 395960011359 active site 395960011360 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395960011361 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395960011362 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 395960011363 acyl-CoA synthetase; Validated; Region: PRK07470 395960011364 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960011365 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395960011366 acyl-activating enzyme (AAE) consensus motif; other site 395960011367 acyl-activating enzyme (AAE) consensus motif; other site 395960011368 putative AMP binding site [chemical binding]; other site 395960011369 putative active site [active] 395960011370 putative CoA binding site [chemical binding]; other site 395960011371 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 395960011372 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 395960011373 active site 395960011374 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395960011375 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 395960011376 putative NAD(P) binding site [chemical binding]; other site 395960011377 active site 395960011378 putative substrate binding site [chemical binding]; other site 395960011379 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395960011380 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 395960011381 dimer interface [polypeptide binding]; other site 395960011382 conserved gate region; other site 395960011383 putative PBP binding loops; other site 395960011384 ABC-ATPase subunit interface; other site 395960011385 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 395960011386 dimer interface [polypeptide binding]; other site 395960011387 conserved gate region; other site 395960011388 putative PBP binding loops; other site 395960011389 ABC-ATPase subunit interface; other site 395960011390 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395960011391 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395960011392 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 395960011393 Walker A/P-loop; other site 395960011394 ATP binding site [chemical binding]; other site 395960011395 Q-loop/lid; other site 395960011396 ABC transporter signature motif; other site 395960011397 Walker B; other site 395960011398 D-loop; other site 395960011399 H-loop/switch region; other site 395960011400 TOBE domain; Region: TOBE_2; pfam08402 395960011401 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 395960011402 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 395960011403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960011404 NAD(P) binding site [chemical binding]; other site 395960011405 active site 395960011406 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395960011407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960011408 NAD(P) binding site [chemical binding]; other site 395960011409 active site 395960011410 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 395960011411 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 395960011412 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 395960011413 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 395960011414 tonB-system energizer ExbB; Region: exbB; TIGR02797 395960011415 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 395960011416 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 395960011417 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 395960011418 N-terminal plug; other site 395960011419 ligand-binding site [chemical binding]; other site 395960011420 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960011421 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960011422 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960011423 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 395960011424 Protein export membrane protein; Region: SecD_SecF; cl14618 395960011425 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 395960011426 putative active site [active] 395960011427 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 395960011428 Phage-related protein [Function unknown]; Region: COG4695; cl01923 395960011429 Phage portal protein; Region: Phage_portal; pfam04860 395960011430 Phage-related protein, tail component [Function unknown]; Region: COG4723 395960011431 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 395960011432 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 395960011433 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 395960011434 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 395960011435 Phage capsid family; Region: Phage_capsid; pfam05065 395960011436 tuzin; Provisional; Region: PTZ00202 395960011437 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 395960011438 oligomerization interface [polypeptide binding]; other site 395960011439 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 395960011440 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 395960011441 Phage terminase, small subunit; Region: Terminase_4; pfam05119 395960011442 Phage Terminase; Region: Terminase_1; pfam03354 395960011443 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 395960011444 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 395960011445 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 395960011446 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395960011447 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 395960011448 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 395960011449 Int/Topo IB signature motif; other site 395960011450 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395960011451 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395960011452 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960011453 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960011454 putative ligand binding site [chemical binding]; other site 395960011455 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 395960011456 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395960011457 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395960011458 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 395960011459 protein binding site [polypeptide binding]; other site 395960011460 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 395960011461 protein binding site [polypeptide binding]; other site 395960011462 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 395960011463 FtsH protease regulator HflC; Provisional; Region: PRK11029 395960011464 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 395960011465 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 395960011466 HflK protein; Region: hflK; TIGR01933 395960011467 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 395960011468 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 395960011469 NADP+ binding site [chemical binding]; other site 395960011470 folate binding site [chemical binding]; other site 395960011471 thymidylate synthase; Reviewed; Region: thyA; PRK01827 395960011472 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 395960011473 dimerization interface [polypeptide binding]; other site 395960011474 active site 395960011475 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 395960011476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 395960011477 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 395960011478 Chromate transporter; Region: Chromate_transp; pfam02417 395960011479 Chromate transporter; Region: Chromate_transp; pfam02417 395960011480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 395960011481 fumarate hydratase; Reviewed; Region: fumC; PRK00485 395960011482 Class II fumarases; Region: Fumarase_classII; cd01362 395960011483 active site 395960011484 tetramer interface [polypeptide binding]; other site 395960011485 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 395960011486 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 395960011487 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 395960011488 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395960011489 FAD binding domain; Region: FAD_binding_4; pfam01565 395960011490 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 395960011491 active site 395960011492 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 395960011493 Part of AAA domain; Region: AAA_19; pfam13245 395960011494 Family description; Region: UvrD_C_2; pfam13538 395960011495 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 395960011496 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 395960011497 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 395960011498 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 395960011499 Walker A/P-loop; other site 395960011500 ATP binding site [chemical binding]; other site 395960011501 Q-loop/lid; other site 395960011502 ABC transporter signature motif; other site 395960011503 Walker B; other site 395960011504 D-loop; other site 395960011505 H-loop/switch region; other site 395960011506 ABC-2 type transporter; Region: ABC2_membrane; cl17235 395960011507 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395960011508 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395960011509 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 395960011510 S-adenosylmethionine binding site [chemical binding]; other site 395960011511 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 395960011512 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395960011513 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 395960011514 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 395960011515 S-adenosylmethionine binding site [chemical binding]; other site 395960011516 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395960011517 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395960011518 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 395960011519 active site 395960011520 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 395960011521 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 395960011522 putative substrate translocation pore; other site 395960011523 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 395960011524 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 395960011525 nucleotide binding pocket [chemical binding]; other site 395960011526 K-X-D-G motif; other site 395960011527 catalytic site [active] 395960011528 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 395960011529 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 395960011530 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 395960011531 Dimer interface [polypeptide binding]; other site 395960011532 BRCT sequence motif; other site 395960011533 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 395960011534 putative metal binding site [ion binding]; other site 395960011535 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 395960011536 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 395960011537 Walker A/P-loop; other site 395960011538 ATP binding site [chemical binding]; other site 395960011539 Q-loop/lid; other site 395960011540 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 395960011541 ABC transporter signature motif; other site 395960011542 Walker B; other site 395960011543 D-loop; other site 395960011544 H-loop/switch region; other site 395960011545 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 395960011546 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 395960011547 TPR motif; other site 395960011548 binding surface 395960011549 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 395960011550 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 395960011551 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 395960011552 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 395960011553 nucleotide binding site [chemical binding]; other site 395960011554 SulA interaction site; other site 395960011555 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 395960011556 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 395960011557 Cell division protein FtsA; Region: FtsA; smart00842 395960011558 Cell division protein FtsA; Region: FtsA; pfam14450 395960011559 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 395960011560 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 395960011561 Cell division protein FtsQ; Region: FtsQ; pfam03799 395960011562 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 395960011563 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 395960011564 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395960011565 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 395960011566 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 395960011567 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 395960011568 FAD binding domain; Region: FAD_binding_4; pfam01565 395960011569 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 395960011570 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 395960011571 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395960011572 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395960011573 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395960011574 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 395960011575 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 395960011576 active site 395960011577 homodimer interface [polypeptide binding]; other site 395960011578 cell division protein FtsW; Region: ftsW; TIGR02614 395960011579 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 395960011580 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395960011581 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395960011582 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 395960011583 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 395960011584 Mg++ binding site [ion binding]; other site 395960011585 putative catalytic motif [active] 395960011586 putative substrate binding site [chemical binding]; other site 395960011587 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 395960011588 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395960011589 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395960011590 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395960011591 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 395960011592 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395960011593 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395960011594 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 395960011595 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 395960011596 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 395960011597 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 395960011598 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 395960011599 MraW methylase family; Region: Methyltransf_5; cl17771 395960011600 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 395960011601 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 395960011602 amidase catalytic site [active] 395960011603 Zn binding residues [ion binding]; other site 395960011604 substrate binding site [chemical binding]; other site 395960011605 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 395960011606 Fic/DOC family; Region: Fic; cl00960 395960011607 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395960011608 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 395960011609 putative substrate translocation pore; other site 395960011610 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 395960011611 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960011612 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960011613 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960011614 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960011615 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 395960011616 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 395960011617 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395960011618 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 395960011619 dimerization interface [polypeptide binding]; other site 395960011620 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960011621 dimer interface [polypeptide binding]; other site 395960011622 putative CheW interface [polypeptide binding]; other site 395960011623 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 395960011624 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 395960011625 Autotransporter beta-domain; Region: Autotransporter; smart00869 395960011626 epoxide hydrolase N-terminal domain-like phosphatase; Region: HAD-1A3-hyp; TIGR02247 395960011627 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 395960011628 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 395960011629 B12 binding site [chemical binding]; other site 395960011630 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 395960011631 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 395960011632 FeS/SAM binding site; other site 395960011633 short chain dehydrogenase; Provisional; Region: PRK07326 395960011634 classical (c) SDR, subgroup 4; Region: SDR_c4; cd08929 395960011635 putative NAD(P) binding site [chemical binding]; other site 395960011636 homodimer interface [polypeptide binding]; other site 395960011637 active site 395960011638 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395960011639 classical (c) SDRs; Region: SDR_c; cd05233 395960011640 NAD(P) binding site [chemical binding]; other site 395960011641 active site 395960011642 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 395960011643 Sodium Bile acid symporter family; Region: SBF; cl17470 395960011644 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 395960011645 ArsC family; Region: ArsC; pfam03960 395960011646 catalytic residues [active] 395960011647 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 395960011648 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395960011649 active site 395960011650 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 395960011651 dimerization interface [polypeptide binding]; other site 395960011652 putative DNA binding site [nucleotide binding]; other site 395960011653 putative Zn2+ binding site [ion binding]; other site 395960011654 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 395960011655 Predicted permeases [General function prediction only]; Region: COG0701 395960011656 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 395960011657 dimerization interface [polypeptide binding]; other site 395960011658 putative DNA binding site [nucleotide binding]; other site 395960011659 putative Zn2+ binding site [ion binding]; other site 395960011660 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 395960011661 dimerization interface [polypeptide binding]; other site 395960011662 putative DNA binding site [nucleotide binding]; other site 395960011663 putative Zn2+ binding site [ion binding]; other site 395960011664 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395960011665 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 395960011666 S-adenosylmethionine binding site [chemical binding]; other site 395960011667 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 395960011668 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 395960011669 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960011670 catalytic residue [active] 395960011671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395960011672 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395960011673 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 395960011674 PRC-barrel domain; Region: PRC; pfam05239 395960011675 osmolarity response regulator; Provisional; Region: ompR; PRK09468 395960011676 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 395960011677 active site 395960011678 phosphorylation site [posttranslational modification] 395960011679 intermolecular recognition site; other site 395960011680 dimerization interface [polypeptide binding]; other site 395960011681 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 395960011682 DNA binding site [nucleotide binding] 395960011683 HAMP domain; Region: HAMP; pfam00672 395960011684 dimerization interface [polypeptide binding]; other site 395960011685 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 395960011686 dimer interface [polypeptide binding]; other site 395960011687 phosphorylation site [posttranslational modification] 395960011688 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 395960011689 ATP binding site [chemical binding]; other site 395960011690 Mg2+ binding site [ion binding]; other site 395960011691 G-X-G motif; other site 395960011692 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 395960011693 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 395960011694 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 395960011695 thiS-thiF/thiG interaction site; other site 395960011696 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 395960011697 ThiS interaction site; other site 395960011698 putative active site [active] 395960011699 tetramer interface [polypeptide binding]; other site 395960011700 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 395960011701 thiamine phosphate binding site [chemical binding]; other site 395960011702 active site 395960011703 pyrophosphate binding site [ion binding]; other site 395960011704 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 395960011705 ThiC-associated domain; Region: ThiC-associated; pfam13667 395960011706 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 395960011707 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 395960011708 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 395960011709 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 395960011710 hypothetical protein; Provisional; Region: PRK07538 395960011711 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395960011712 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 395960011713 homotrimer interaction site [polypeptide binding]; other site 395960011714 putative active site [active] 395960011715 Uncharacterized conserved protein (DUF2277); Region: DUF2277; pfam10041 395960011716 SOUL heme-binding protein; Region: SOUL; pfam04832 395960011717 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 395960011718 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 395960011719 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960011720 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960011721 dimer interface [polypeptide binding]; other site 395960011722 putative CheW interface [polypeptide binding]; other site 395960011723 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 395960011724 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 395960011725 heme binding site [chemical binding]; other site 395960011726 ferroxidase pore; other site 395960011727 ferroxidase diiron center [ion binding]; other site 395960011728 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 395960011729 lytic murein transglycosylase; Region: MltB_2; TIGR02283 395960011730 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 395960011731 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395960011732 catalytic residue [active] 395960011733 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 395960011734 hypothetical protein; Provisional; Region: PRK05208 395960011735 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 395960011736 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 395960011737 S-adenosylmethionine binding site [chemical binding]; other site 395960011738 Protein of unknown function (DUF497); Region: DUF497; pfam04365 395960011739 Protein of unknown function (DUF3680); Region: DUF3680; pfam12441 395960011740 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 395960011741 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395960011742 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395960011743 ABC transporter; Region: ABC_tran_2; pfam12848 395960011744 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395960011745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395960011746 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395960011747 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 395960011748 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 395960011749 active site residue [active] 395960011750 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 395960011751 active site residue [active] 395960011752 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 395960011753 active site 395960011754 catalytic residue [active] 395960011755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 395960011756 PAS domain S-box; Region: sensory_box; TIGR00229 395960011757 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 395960011758 putative active site [active] 395960011759 heme pocket [chemical binding]; other site 395960011760 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960011761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960011762 metal binding site [ion binding]; metal-binding site 395960011763 active site 395960011764 I-site; other site 395960011765 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395960011766 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 395960011767 Walker A motif; other site 395960011768 ATP binding site [chemical binding]; other site 395960011769 Walker B motif; other site 395960011770 arginine finger; other site 395960011771 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395960011772 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 395960011773 iron-sulfur cluster [ion binding]; other site 395960011774 [2Fe-2S] cluster binding site [ion binding]; other site 395960011775 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 395960011776 alpha subunit interface [polypeptide binding]; other site 395960011777 active site 395960011778 substrate binding site [chemical binding]; other site 395960011779 Fe binding site [ion binding]; other site 395960011780 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 395960011781 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395960011782 DNA-binding site [nucleotide binding]; DNA binding site 395960011783 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 395960011784 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395960011785 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 395960011786 FMN-binding pocket [chemical binding]; other site 395960011787 flavin binding motif; other site 395960011788 phosphate binding motif [ion binding]; other site 395960011789 beta-alpha-beta structure motif; other site 395960011790 NAD binding pocket [chemical binding]; other site 395960011791 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 395960011792 catalytic loop [active] 395960011793 iron binding site [ion binding]; other site 395960011794 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 395960011795 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 395960011796 Strictosidine synthase; Region: Str_synth; pfam03088 395960011797 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 395960011798 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 395960011799 GIY-YIG motif/motif A; other site 395960011800 putative active site [active] 395960011801 putative metal binding site [ion binding]; other site 395960011802 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 395960011803 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 395960011804 catalytic residues [active] 395960011805 dimer interface [polypeptide binding]; other site 395960011806 amidase; Provisional; Region: PRK07487 395960011807 Amidase; Region: Amidase; cl11426 395960011808 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 395960011809 short chain dehydrogenase; Provisional; Region: PRK06500 395960011810 classical (c) SDRs; Region: SDR_c; cd05233 395960011811 NAD(P) binding site [chemical binding]; other site 395960011812 active site 395960011813 Predicted transcriptional regulators [Transcription]; Region: COG1733 395960011814 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 395960011815 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 395960011816 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 395960011817 putative active site [active] 395960011818 catalytic residue [active] 395960011819 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 395960011820 active site 395960011821 dimer interface [polypeptide binding]; other site 395960011822 SIS_TAL_PGI: Transaldolase (TAL)/ Phosphoglucose isomerase (PGI). This group represents the SIS (Sugar ISomerase) PGI domain, of a multifunctional protein (TAL-PGI ) having both TAL and PGI activities. TAL_PGI contains an N-terminal TAL domain and a...; Region: SIS_TAL_PGI; cd05798 395960011823 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 395960011824 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 395960011825 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 395960011826 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 395960011827 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 395960011828 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 395960011829 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 395960011830 putative active site [active] 395960011831 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 395960011832 AAA domain; Region: AAA_33; pfam13671 395960011833 ATP-binding site [chemical binding]; other site 395960011834 Gluconate-6-phosphate binding site [chemical binding]; other site 395960011835 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 395960011836 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 395960011837 active site 395960011838 motif I; other site 395960011839 motif II; other site 395960011840 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 395960011841 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 395960011842 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 395960011843 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 395960011844 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 395960011845 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 395960011846 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 395960011847 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 395960011848 active site 395960011849 homodimer interface [polypeptide binding]; other site 395960011850 catalytic site [active] 395960011851 acceptor binding site [chemical binding]; other site 395960011852 trehalose synthase; Region: treS_nterm; TIGR02456 395960011853 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 395960011854 active site 395960011855 catalytic site [active] 395960011856 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 395960011857 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 395960011858 glycogen branching enzyme; Provisional; Region: PRK05402 395960011859 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 395960011860 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 395960011861 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 395960011862 active site 395960011863 catalytic site [active] 395960011864 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 395960011865 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 395960011866 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 395960011867 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 395960011868 active site 395960011869 catalytic site [active] 395960011870 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 395960011871 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 395960011872 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 395960011873 catalytic site [active] 395960011874 active site 395960011875 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 395960011876 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 395960011877 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 395960011878 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 395960011879 active site 395960011880 catalytic site [active] 395960011881 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 395960011882 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 395960011883 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 395960011884 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 395960011885 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 395960011886 active site 395960011887 DNA binding site [nucleotide binding] 395960011888 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 395960011889 DNA binding site [nucleotide binding] 395960011890 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 395960011891 nucleotide binding site [chemical binding]; other site 395960011892 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 395960011893 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 395960011894 putative DNA binding site [nucleotide binding]; other site 395960011895 putative homodimer interface [polypeptide binding]; other site 395960011896 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 395960011897 CPxP motif; other site 395960011898 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 395960011899 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 395960011900 GTP binding site; other site 395960011901 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 395960011902 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 395960011903 putative NAD(P) binding site [chemical binding]; other site 395960011904 catalytic Zn binding site [ion binding]; other site 395960011905 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 395960011906 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 395960011907 FMN binding site [chemical binding]; other site 395960011908 substrate binding site [chemical binding]; other site 395960011909 putative catalytic residue [active] 395960011910 acyl-CoA synthetase; Validated; Region: PRK06188 395960011911 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960011912 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395960011913 acyl-activating enzyme (AAE) consensus motif; other site 395960011914 acyl-activating enzyme (AAE) consensus motif; other site 395960011915 putative AMP binding site [chemical binding]; other site 395960011916 putative active site [active] 395960011917 putative CoA binding site [chemical binding]; other site 395960011918 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 395960011919 UreF; Region: UreF; pfam01730 395960011920 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 395960011921 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 395960011922 dimer interface [polypeptide binding]; other site 395960011923 catalytic residues [active] 395960011924 Uncharacterized conserved protein [Function unknown]; Region: COG1359 395960011925 urease subunit alpha; Reviewed; Region: ureC; PRK13207 395960011926 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 395960011927 subunit interactions [polypeptide binding]; other site 395960011928 active site 395960011929 flap region; other site 395960011930 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 395960011931 HD domain; Region: HD_4; pfam13328 395960011932 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 395960011933 gamma-beta subunit interface [polypeptide binding]; other site 395960011934 alpha-beta subunit interface [polypeptide binding]; other site 395960011935 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 395960011936 alpha-gamma subunit interface [polypeptide binding]; other site 395960011937 beta-gamma subunit interface [polypeptide binding]; other site 395960011938 UreD urease accessory protein; Region: UreD; pfam01774 395960011939 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 395960011940 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960011941 Walker A/P-loop; other site 395960011942 ATP binding site [chemical binding]; other site 395960011943 Q-loop/lid; other site 395960011944 ABC transporter signature motif; other site 395960011945 Walker B; other site 395960011946 D-loop; other site 395960011947 H-loop/switch region; other site 395960011948 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 395960011949 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960011950 Walker A/P-loop; other site 395960011951 ATP binding site [chemical binding]; other site 395960011952 Q-loop/lid; other site 395960011953 ABC transporter signature motif; other site 395960011954 Walker B; other site 395960011955 D-loop; other site 395960011956 H-loop/switch region; other site 395960011957 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960011958 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960011959 TM-ABC transporter signature motif; other site 395960011960 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960011961 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960011962 TM-ABC transporter signature motif; other site 395960011963 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960011964 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 395960011965 putative ligand binding site [chemical binding]; other site 395960011966 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 395960011967 DEAD-like helicases superfamily; Region: DEXDc; smart00487 395960011968 ATP binding site [chemical binding]; other site 395960011969 Mg++ binding site [ion binding]; other site 395960011970 motif III; other site 395960011971 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 395960011972 nucleotide binding region [chemical binding]; other site 395960011973 ATP-binding site [chemical binding]; other site 395960011974 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 395960011975 rRNA binding site [nucleotide binding]; other site 395960011976 predicted 30S ribosome binding site; other site 395960011977 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 395960011978 DNA-binding site [nucleotide binding]; DNA binding site 395960011979 RNA-binding motif; other site 395960011980 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395960011981 TadE-like protein; Region: TadE; pfam07811 395960011982 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395960011983 TadE-like protein; Region: TadE; pfam07811 395960011984 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 395960011985 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 395960011986 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 395960011987 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 395960011988 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 395960011989 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 395960011990 BON domain; Region: BON; pfam04972 395960011991 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395960011992 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 395960011993 Type IV pili component [Cell motility and secretion]; Region: COG5461 395960011994 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 395960011995 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 395960011996 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 395960011997 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 395960011998 ATP binding site [chemical binding]; other site 395960011999 Walker A motif; other site 395960012000 hexamer interface [polypeptide binding]; other site 395960012001 Walker B motif; other site 395960012002 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 395960012003 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395960012004 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 395960012005 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395960012006 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 395960012007 TPR motif; other site 395960012008 TPR repeat; Region: TPR_11; pfam13414 395960012009 binding surface 395960012010 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 395960012011 TPR motif; other site 395960012012 binding surface 395960012013 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 395960012014 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 395960012015 interface (dimer of trimers) [polypeptide binding]; other site 395960012016 Substrate-binding/catalytic site; other site 395960012017 Zn-binding sites [ion binding]; other site 395960012018 Src Homology 3 domain superfamily; Region: SH3; cl17036 395960012019 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 395960012020 NlpC/P60 family; Region: NLPC_P60; pfam00877 395960012021 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 395960012022 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 395960012023 dimer interface [polypeptide binding]; other site 395960012024 active site 395960012025 ADP-ribose binding site [chemical binding]; other site 395960012026 nudix motif; other site 395960012027 metal binding site [ion binding]; metal-binding site 395960012028 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 395960012029 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960012030 Walker A/P-loop; other site 395960012031 ATP binding site [chemical binding]; other site 395960012032 Q-loop/lid; other site 395960012033 ABC transporter signature motif; other site 395960012034 Walker B; other site 395960012035 D-loop; other site 395960012036 H-loop/switch region; other site 395960012037 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960012038 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395960012039 Walker A/P-loop; other site 395960012040 ATP binding site [chemical binding]; other site 395960012041 Q-loop/lid; other site 395960012042 ABC transporter signature motif; other site 395960012043 Walker B; other site 395960012044 D-loop; other site 395960012045 H-loop/switch region; other site 395960012046 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395960012047 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 395960012048 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 395960012049 dimer interface [polypeptide binding]; other site 395960012050 conserved gate region; other site 395960012051 ABC-ATPase subunit interface; other site 395960012052 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 395960012053 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 395960012054 dimer interface [polypeptide binding]; other site 395960012055 conserved gate region; other site 395960012056 putative PBP binding loops; other site 395960012057 ABC-ATPase subunit interface; other site 395960012058 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 395960012059 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 395960012060 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 395960012061 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 395960012062 Cytochrome c2 [Energy production and conversion]; Region: COG3474 395960012063 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 395960012064 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 395960012065 Ligand binding site; other site 395960012066 oligomer interface; other site 395960012067 prephenate dehydratase; Provisional; Region: PRK11899 395960012068 Prephenate dehydratase; Region: PDT; pfam00800 395960012069 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 395960012070 putative L-Phe binding site [chemical binding]; other site 395960012071 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960012072 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960012073 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 395960012074 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960012075 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960012076 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395960012077 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 395960012078 putative substrate translocation pore; other site 395960012079 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 395960012080 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 395960012081 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 395960012082 FAD binding pocket [chemical binding]; other site 395960012083 FAD binding motif [chemical binding]; other site 395960012084 phosphate binding motif [ion binding]; other site 395960012085 NAD binding pocket [chemical binding]; other site 395960012086 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 395960012087 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 395960012088 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 395960012089 FAD binding site [chemical binding]; other site 395960012090 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 395960012091 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 395960012092 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 395960012093 substrate binding pocket [chemical binding]; other site 395960012094 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 395960012095 B12 binding site [chemical binding]; other site 395960012096 cobalt ligand [ion binding]; other site 395960012097 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 395960012098 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 395960012099 GIY-YIG motif/motif A; other site 395960012100 putative active site [active] 395960012101 putative metal binding site [ion binding]; other site 395960012102 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 395960012103 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 395960012104 N- and C-terminal domain interface [polypeptide binding]; other site 395960012105 active site 395960012106 MgATP binding site [chemical binding]; other site 395960012107 catalytic site [active] 395960012108 metal binding site [ion binding]; metal-binding site 395960012109 glycerol binding site [chemical binding]; other site 395960012110 homotetramer interface [polypeptide binding]; other site 395960012111 homodimer interface [polypeptide binding]; other site 395960012112 FBP binding site [chemical binding]; other site 395960012113 protein IIAGlc interface [polypeptide binding]; other site 395960012114 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 395960012115 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 395960012116 active site 395960012117 phosphorylation site [posttranslational modification] 395960012118 intermolecular recognition site; other site 395960012119 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 395960012120 NMT1-like family; Region: NMT1_2; pfam13379 395960012121 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395960012122 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 395960012123 heme-binding site [chemical binding]; other site 395960012124 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 395960012125 heme-binding site [chemical binding]; other site 395960012126 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09567 395960012127 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395960012128 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395960012129 sulfite reductase; Provisional; Region: PRK06214 395960012130 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 395960012131 FAD binding pocket [chemical binding]; other site 395960012132 FAD binding motif [chemical binding]; other site 395960012133 catalytic residues [active] 395960012134 NAD binding pocket [chemical binding]; other site 395960012135 phosphate binding motif [ion binding]; other site 395960012136 beta-alpha-beta structure motif; other site 395960012137 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 395960012138 classical (c) SDRs; Region: SDR_c; cd05233 395960012139 NAD(P) binding site [chemical binding]; other site 395960012140 active site 395960012141 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 395960012142 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 395960012143 active site 395960012144 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 395960012145 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960012146 active site 395960012147 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 395960012148 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 395960012149 dimer interface [polypeptide binding]; other site 395960012150 active site 395960012151 dicarboxylate--CoA ligase PimA; Region: pimA; TIGR03205 395960012152 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 395960012153 acyl-activating enzyme (AAE) consensus motif; other site 395960012154 putative AMP binding site [chemical binding]; other site 395960012155 putative active site [active] 395960012156 putative CoA binding site [chemical binding]; other site 395960012157 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 395960012158 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 395960012159 substrate binding site [chemical binding]; other site 395960012160 oxyanion hole (OAH) forming residues; other site 395960012161 trimer interface [polypeptide binding]; other site 395960012162 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 395960012163 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395960012164 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395960012165 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395960012166 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 395960012167 Bacterial transcriptional regulator; Region: IclR; pfam01614 395960012168 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960012169 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960012170 Walker A/P-loop; other site 395960012171 ATP binding site [chemical binding]; other site 395960012172 Q-loop/lid; other site 395960012173 ABC transporter signature motif; other site 395960012174 Walker B; other site 395960012175 D-loop; other site 395960012176 H-loop/switch region; other site 395960012177 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960012178 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960012179 Walker A/P-loop; other site 395960012180 ATP binding site [chemical binding]; other site 395960012181 Q-loop/lid; other site 395960012182 ABC transporter signature motif; other site 395960012183 Walker B; other site 395960012184 D-loop; other site 395960012185 H-loop/switch region; other site 395960012186 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960012187 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960012188 TM-ABC transporter signature motif; other site 395960012189 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960012190 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960012191 TM-ABC transporter signature motif; other site 395960012192 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960012193 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960012194 putative ligand binding site [chemical binding]; other site 395960012195 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960012196 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960012197 putative ligand binding site [chemical binding]; other site 395960012198 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960012199 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960012200 putative ligand binding site [chemical binding]; other site 395960012201 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 395960012202 dimerization interface [polypeptide binding]; other site 395960012203 metal binding site [ion binding]; metal-binding site 395960012204 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 395960012205 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 395960012206 Cl binding site [ion binding]; other site 395960012207 oligomer interface [polypeptide binding]; other site 395960012208 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960012209 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 395960012210 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395960012211 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395960012212 metal binding site [ion binding]; metal-binding site 395960012213 putative dimer interface [polypeptide binding]; other site 395960012214 choline dehydrogenase; Validated; Region: PRK02106 395960012215 lycopene cyclase; Region: lycopene_cycl; TIGR01789 395960012216 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395960012217 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395960012218 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395960012219 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 395960012220 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 395960012221 inhibitor-cofactor binding pocket; inhibition site 395960012222 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960012223 catalytic residue [active] 395960012224 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 395960012225 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 395960012226 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 395960012227 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 395960012228 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 395960012229 FeS/SAM binding site; other site 395960012230 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 395960012231 PBP superfamily domain; Region: PBP_like_2; cl17296 395960012232 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 395960012233 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 395960012234 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395960012235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960012236 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 395960012237 dimerization interface [polypeptide binding]; other site 395960012238 hypothetical protein; Provisional; Region: PRK07077 395960012239 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 395960012240 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 395960012241 Active site cavity [active] 395960012242 catalytic acid [active] 395960012243 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 395960012244 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 395960012245 active site lid residues [active] 395960012246 substrate binding pocket [chemical binding]; other site 395960012247 catalytic residues [active] 395960012248 substrate-Mg2+ binding site; other site 395960012249 aspartate-rich region 1; other site 395960012250 aspartate-rich region 2; other site 395960012251 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 395960012252 active site lid residues [active] 395960012253 substrate binding pocket [chemical binding]; other site 395960012254 catalytic residues [active] 395960012255 substrate-Mg2+ binding site; other site 395960012256 aspartate-rich region 1; other site 395960012257 aspartate-rich region 2; other site 395960012258 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 395960012259 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 395960012260 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 395960012261 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 395960012262 B12 binding site [chemical binding]; other site 395960012263 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 395960012264 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 395960012265 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 395960012266 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 395960012267 dimerization interface [polypeptide binding]; other site 395960012268 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960012269 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960012270 dimer interface [polypeptide binding]; other site 395960012271 putative CheW interface [polypeptide binding]; other site 395960012272 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 395960012273 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395960012274 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395960012275 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 395960012276 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 395960012277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 395960012278 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 395960012279 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395960012280 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395960012281 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 395960012282 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 395960012283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 395960012284 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 395960012285 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 395960012286 MarR family; Region: MarR_2; cl17246 395960012287 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395960012288 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395960012289 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 395960012290 putative substrate binding pocket [chemical binding]; other site 395960012291 trimer interface [polypeptide binding]; other site 395960012292 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 395960012293 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 395960012294 NAD binding site [chemical binding]; other site 395960012295 catalytic residues [active] 395960012296 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 395960012297 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 395960012298 tetramer interface [polypeptide binding]; other site 395960012299 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 395960012300 tetramer interface [polypeptide binding]; other site 395960012301 active site 395960012302 metal binding site [ion binding]; metal-binding site 395960012303 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 395960012304 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395960012305 hypothetical protein; Provisional; Region: PRK08266 395960012306 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395960012307 PYR/PP interface [polypeptide binding]; other site 395960012308 dimer interface [polypeptide binding]; other site 395960012309 TPP binding site [chemical binding]; other site 395960012310 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395960012311 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 395960012312 TPP-binding site [chemical binding]; other site 395960012313 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 395960012314 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 395960012315 FAD binding pocket [chemical binding]; other site 395960012316 FAD binding motif [chemical binding]; other site 395960012317 phosphate binding motif [ion binding]; other site 395960012318 beta-alpha-beta structure motif; other site 395960012319 NAD(p) ribose binding residues [chemical binding]; other site 395960012320 NAD binding pocket [chemical binding]; other site 395960012321 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 395960012322 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 395960012323 catalytic loop [active] 395960012324 iron binding site [ion binding]; other site 395960012325 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 395960012326 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 395960012327 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 395960012328 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 395960012329 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 395960012330 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 395960012331 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960012332 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960012333 Phasin protein; Region: Phasin_2; cl11491 395960012334 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395960012335 PGAP1-like protein; Region: PGAP1; pfam07819 395960012336 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395960012337 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395960012338 hydroxyglutarate oxidase; Provisional; Region: PRK11728 395960012339 multidrug efflux protein; Reviewed; Region: PRK09579 395960012340 Protein export membrane protein; Region: SecD_SecF; cl14618 395960012341 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960012342 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960012343 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960012344 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960012345 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960012346 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 395960012347 Cytochrome P450; Region: p450; cl12078 395960012348 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395960012349 hypothetical protein; Provisional; Region: PRK12472 395960012350 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 395960012351 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 395960012352 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395960012353 substrate binding site [chemical binding]; other site 395960012354 ATP binding site [chemical binding]; other site 395960012355 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 395960012356 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395960012357 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 395960012358 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 395960012359 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 395960012360 Ligand binding site; other site 395960012361 Putative Catalytic site; other site 395960012362 DXD motif; other site 395960012363 Predicted membrane protein [Function unknown]; Region: COG2246 395960012364 GtrA-like protein; Region: GtrA; pfam04138 395960012365 Protein of unknown function DUF72; Region: DUF72; pfam01904 395960012366 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395960012367 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 395960012368 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 395960012369 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 395960012370 Walker A/P-loop; other site 395960012371 ATP binding site [chemical binding]; other site 395960012372 Q-loop/lid; other site 395960012373 ABC transporter signature motif; other site 395960012374 Walker B; other site 395960012375 D-loop; other site 395960012376 H-loop/switch region; other site 395960012377 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960012378 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960012379 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960012380 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960012381 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960012382 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960012383 metal binding site [ion binding]; metal-binding site 395960012384 active site 395960012385 I-site; other site 395960012386 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 395960012387 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 395960012388 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 395960012389 enoyl-CoA hydratase; Provisional; Region: PRK05862 395960012390 substrate binding site [chemical binding]; other site 395960012391 oxyanion hole (OAH) forming residues; other site 395960012392 trimer interface [polypeptide binding]; other site 395960012393 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960012394 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960012395 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 395960012396 dimerization interface [polypeptide binding]; other site 395960012397 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 395960012398 putative MPT binding site; other site 395960012399 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 395960012400 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 395960012401 Ligand binding site; other site 395960012402 metal-binding site 395960012403 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 395960012404 XdhC Rossmann domain; Region: XdhC_C; pfam13478 395960012405 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 395960012406 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 395960012407 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 395960012408 metal ion-dependent adhesion site (MIDAS); other site 395960012409 MoxR-like ATPases [General function prediction only]; Region: COG0714 395960012410 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 395960012411 Walker A motif; other site 395960012412 ATP binding site [chemical binding]; other site 395960012413 Walker B motif; other site 395960012414 arginine finger; other site 395960012415 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 395960012416 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 395960012417 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 395960012418 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 395960012419 catalytic loop [active] 395960012420 iron binding site [ion binding]; other site 395960012421 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395960012422 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 395960012423 putative hydrophobic ligand binding site [chemical binding]; other site 395960012424 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960012425 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960012426 TM-ABC transporter signature motif; other site 395960012427 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 395960012428 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 395960012429 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960012430 TM-ABC transporter signature motif; other site 395960012431 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960012432 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960012433 Walker A/P-loop; other site 395960012434 ATP binding site [chemical binding]; other site 395960012435 Q-loop/lid; other site 395960012436 ABC transporter signature motif; other site 395960012437 Walker B; other site 395960012438 D-loop; other site 395960012439 H-loop/switch region; other site 395960012440 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960012441 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960012442 Walker A/P-loop; other site 395960012443 ATP binding site [chemical binding]; other site 395960012444 Q-loop/lid; other site 395960012445 ABC transporter signature motif; other site 395960012446 Walker B; other site 395960012447 D-loop; other site 395960012448 H-loop/switch region; other site 395960012449 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395960012450 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395960012451 dimerization interface [polypeptide binding]; other site 395960012452 ligand binding site [chemical binding]; other site 395960012453 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 395960012454 GIY-YIG motif/motif A; other site 395960012455 putative active site [active] 395960012456 putative metal binding site [ion binding]; other site 395960012457 Transposase; Region: HTH_Tnp_1; cl17663 395960012458 Winged helix-turn helix; Region: HTH_29; pfam13551 395960012459 Homeodomain-like domain; Region: HTH_32; pfam13565 395960012460 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395960012461 Integrase core domain; Region: rve; pfam00665 395960012462 Integrase core domain; Region: rve_3; pfam13683 395960012463 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 395960012464 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 395960012465 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 395960012466 putative active site pocket [active] 395960012467 cleavage site 395960012468 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 395960012469 EF-hand domain pair; Region: EF_hand_5; pfam13499 395960012470 Ca2+ binding site [ion binding]; other site 395960012471 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 395960012472 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 395960012473 substrate binding site [chemical binding]; other site 395960012474 hexamer interface [polypeptide binding]; other site 395960012475 metal binding site [ion binding]; metal-binding site 395960012476 Helix-turn-helix domain; Region: HTH_28; pfam13518 395960012477 Winged helix-turn helix; Region: HTH_29; pfam13551 395960012478 Homeodomain-like domain; Region: HTH_32; pfam13565 395960012479 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395960012480 Integrase core domain; Region: rve; pfam00665 395960012481 Integrase core domain; Region: rve_3; pfam13683 395960012482 adenylosuccinate lyase; Provisional; Region: PRK07492 395960012483 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 395960012484 tetramer interface [polypeptide binding]; other site 395960012485 active site 395960012486 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 395960012487 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 395960012488 putative active site [active] 395960012489 catalytic triad [active] 395960012490 ORF6C domain; Region: ORF6C; pfam10552 395960012491 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 395960012492 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 395960012493 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 395960012494 ATP binding site [chemical binding]; other site 395960012495 active site 395960012496 substrate binding site [chemical binding]; other site 395960012497 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 395960012498 Trp repressor protein; Region: Trp_repressor; cl17266 395960012499 Helix-turn-helix domain; Region: HTH_37; pfam13744 395960012500 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 395960012501 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 395960012502 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 395960012503 tetramer interface [polypeptide binding]; other site 395960012504 active site 395960012505 Mg2+/Mn2+ binding site [ion binding]; other site 395960012506 transcription elongation factor regulatory protein; Validated; Region: PRK06342 395960012507 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395960012508 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 395960012509 active site 395960012510 SUMO-1 interface [polypeptide binding]; other site 395960012511 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 395960012512 PAS domain S-box; Region: sensory_box; TIGR00229 395960012513 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 395960012514 putative active site [active] 395960012515 heme pocket [chemical binding]; other site 395960012516 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960012517 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960012518 metal binding site [ion binding]; metal-binding site 395960012519 active site 395960012520 I-site; other site 395960012521 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 395960012522 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 395960012523 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 395960012524 putative active site [active] 395960012525 isocitrate dehydrogenase; Validated; Region: PRK08299 395960012526 Uncharacterized conserved protein [Function unknown]; Region: COG1742 395960012527 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395960012528 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960012529 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 395960012530 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 395960012531 N-terminal plug; other site 395960012532 ligand-binding site [chemical binding]; other site 395960012533 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 395960012534 putative cation:proton antiport protein; Provisional; Region: PRK10669 395960012535 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 395960012536 TrkA-N domain; Region: TrkA_N; pfam02254 395960012537 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 395960012538 TrkA-N domain; Region: TrkA_N; pfam02254 395960012539 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395960012540 Domain of unknown function DUF20; Region: UPF0118; pfam01594 395960012541 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960012542 Coenzyme A binding pocket [chemical binding]; other site 395960012543 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 395960012544 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 395960012545 motif 1; other site 395960012546 active site 395960012547 motif 2; other site 395960012548 motif 3; other site 395960012549 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 395960012550 DHHA1 domain; Region: DHHA1; pfam02272 395960012551 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 395960012552 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 395960012553 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395960012554 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 395960012555 lipoyl attachment site [posttranslational modification]; other site 395960012556 glycine dehydrogenase; Provisional; Region: PRK05367 395960012557 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 395960012558 tetramer interface [polypeptide binding]; other site 395960012559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960012560 catalytic residue [active] 395960012561 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 395960012562 tetramer interface [polypeptide binding]; other site 395960012563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960012564 catalytic residue [active] 395960012565 recombinase A; Provisional; Region: recA; PRK09354 395960012566 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 395960012567 hexamer interface [polypeptide binding]; other site 395960012568 Walker A motif; other site 395960012569 ATP binding site [chemical binding]; other site 395960012570 Walker B motif; other site 395960012571 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 395960012572 active site 395960012573 catalytic triad [active] 395960012574 oxyanion hole [active] 395960012575 Autotransporter beta-domain; Region: Autotransporter; smart00869 395960012576 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 395960012577 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 395960012578 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 395960012579 ligand binding site [chemical binding]; other site 395960012580 flexible hinge region; other site 395960012581 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 395960012582 non-specific DNA interactions [nucleotide binding]; other site 395960012583 DNA binding site [nucleotide binding] 395960012584 sequence specific DNA binding site [nucleotide binding]; other site 395960012585 putative cAMP binding site [chemical binding]; other site 395960012586 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 395960012587 CoenzymeA binding site [chemical binding]; other site 395960012588 subunit interaction site [polypeptide binding]; other site 395960012589 PHB binding site; other site 395960012590 Caspase domain; Region: Peptidase_C14; pfam00656 395960012591 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 395960012592 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 395960012593 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 395960012594 catalytic residues [active] 395960012595 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 395960012596 sequence-specific DNA binding site [nucleotide binding]; other site 395960012597 salt bridge; other site 395960012598 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 395960012599 Intracellular septation protein A; Region: IspA; cl01098 395960012600 fumarate hydratase; Provisional; Region: PRK15389 395960012601 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 395960012602 Fumarase C-terminus; Region: Fumerase_C; pfam05683 395960012603 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 395960012604 Uncharacterized conserved protein [Function unknown]; Region: COG3791 395960012605 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 395960012606 glutathione s-transferase; Provisional; Region: PTZ00057 395960012607 GSH binding site (G-site) [chemical binding]; other site 395960012608 C-terminal domain interface [polypeptide binding]; other site 395960012609 dimer interface [polypeptide binding]; other site 395960012610 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 395960012611 dimer interface [polypeptide binding]; other site 395960012612 N-terminal domain interface [polypeptide binding]; other site 395960012613 substrate binding pocket (H-site) [chemical binding]; other site 395960012614 Tim44-like domain; Region: Tim44; pfam04280 395960012615 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 395960012616 PAS domain; Region: PAS_9; pfam13426 395960012617 putative active site [active] 395960012618 heme pocket [chemical binding]; other site 395960012619 PAS fold; Region: PAS_4; pfam08448 395960012620 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960012621 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 395960012622 dimer interface [polypeptide binding]; other site 395960012623 phosphorylation site [posttranslational modification] 395960012624 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 395960012625 ATP binding site [chemical binding]; other site 395960012626 Mg2+ binding site [ion binding]; other site 395960012627 G-X-G motif; other site 395960012628 Response regulator receiver domain; Region: Response_reg; pfam00072 395960012629 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 395960012630 active site 395960012631 phosphorylation site [posttranslational modification] 395960012632 intermolecular recognition site; other site 395960012633 dimerization interface [polypeptide binding]; other site 395960012634 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 395960012635 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 395960012636 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 395960012637 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 395960012638 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00732 395960012639 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 395960012640 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 395960012641 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 395960012642 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 395960012643 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 395960012644 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 395960012645 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 395960012646 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 395960012647 substrate binding pocket [chemical binding]; other site 395960012648 catalytic triad [active] 395960012649 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960012650 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960012651 Uncharacterized conserved protein [Function unknown]; Region: COG3334 395960012652 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 395960012653 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 395960012654 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK12785 395960012655 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 395960012656 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 395960012657 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 395960012658 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 395960012659 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 395960012660 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK12786 395960012661 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 395960012662 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 395960012663 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 395960012664 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 395960012665 Protein export membrane protein; Region: SecD_SecF; cl14618 395960012666 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960012667 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960012668 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960012669 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960012670 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 395960012671 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 395960012672 flagellar assembly regulator FliX; Reviewed; Region: fliX; PRK12787 395960012673 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 395960012674 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 395960012675 chemotactic signal-response protein CheL; Provisional; Region: PRK12790 395960012676 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 395960012677 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK12791 395960012678 flagellin; Provisional; Region: PRK14708 395960012679 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395960012680 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 395960012681 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 395960012682 Tetratricopeptide repeat; Region: TPR_2; pfam07719 395960012683 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 395960012684 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 395960012685 binding surface 395960012686 TPR motif; other site 395960012687 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 395960012688 binding surface 395960012689 TPR motif; other site 395960012690 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 395960012691 binding surface 395960012692 TPR motif; other site 395960012693 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 395960012694 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 395960012695 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395960012696 PYR/PP interface [polypeptide binding]; other site 395960012697 dimer interface [polypeptide binding]; other site 395960012698 TPP binding site [chemical binding]; other site 395960012699 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395960012700 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 395960012701 TPP-binding site [chemical binding]; other site 395960012702 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 395960012703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960012704 NAD(P) binding site [chemical binding]; other site 395960012705 active site 395960012706 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 395960012707 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 395960012708 active site 395960012709 Substrate binding site; other site 395960012710 Mg++ binding site; other site 395960012711 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395960012712 active site 395960012713 nucleotide binding site [chemical binding]; other site 395960012714 HIGH motif; other site 395960012715 KMSKS motif; other site 395960012716 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 395960012717 putative ribose interaction site [chemical binding]; other site 395960012718 putative ADP binding site [chemical binding]; other site 395960012719 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 395960012720 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 395960012721 NAD binding site [chemical binding]; other site 395960012722 catalytic Zn binding site [ion binding]; other site 395960012723 substrate binding site [chemical binding]; other site 395960012724 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 395960012725 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 395960012726 alpha subunit interface [polypeptide binding]; other site 395960012727 TPP binding site [chemical binding]; other site 395960012728 heterodimer interface [polypeptide binding]; other site 395960012729 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395960012730 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 395960012731 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 395960012732 tetramer interface [polypeptide binding]; other site 395960012733 TPP-binding site [chemical binding]; other site 395960012734 heterodimer interface [polypeptide binding]; other site 395960012735 phosphorylation loop region [posttranslational modification] 395960012736 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395960012737 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 395960012738 S-adenosylmethionine binding site [chemical binding]; other site 395960012739 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 395960012740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960012741 NAD(P) binding site [chemical binding]; other site 395960012742 active site 395960012743 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395960012744 extended (e) SDRs; Region: SDR_e; cd08946 395960012745 NAD(P) binding site [chemical binding]; other site 395960012746 active site 395960012747 substrate binding site [chemical binding]; other site 395960012748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960012749 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 395960012750 dimer interface [polypeptide binding]; other site 395960012751 active site 395960012752 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 395960012753 flagellin; Provisional; Region: PRK14708 395960012754 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395960012755 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 395960012756 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 395960012757 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395960012758 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 395960012759 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 395960012760 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 395960012761 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 395960012762 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 395960012763 PAS fold; Region: PAS_4; pfam08448 395960012764 GAF domain; Region: GAF_3; pfam13492 395960012765 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960012766 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 395960012767 dimer interface [polypeptide binding]; other site 395960012768 phosphorylation site [posttranslational modification] 395960012769 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 395960012770 ATP binding site [chemical binding]; other site 395960012771 Mg2+ binding site [ion binding]; other site 395960012772 G-X-G motif; other site 395960012773 Response regulator receiver domain; Region: Response_reg; pfam00072 395960012774 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 395960012775 active site 395960012776 phosphorylation site [posttranslational modification] 395960012777 intermolecular recognition site; other site 395960012778 dimerization interface [polypeptide binding]; other site 395960012779 PAS fold; Region: PAS_4; pfam08448 395960012780 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 395960012781 putative active site [active] 395960012782 heme pocket [chemical binding]; other site 395960012783 PAS fold; Region: PAS_4; pfam08448 395960012784 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 395960012785 putative active site [active] 395960012786 heme pocket [chemical binding]; other site 395960012787 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960012788 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 395960012789 dimer interface [polypeptide binding]; other site 395960012790 phosphorylation site [posttranslational modification] 395960012791 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 395960012792 ATP binding site [chemical binding]; other site 395960012793 Mg2+ binding site [ion binding]; other site 395960012794 G-X-G motif; other site 395960012795 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960012796 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 395960012797 active site 395960012798 phosphorylation site [posttranslational modification] 395960012799 intermolecular recognition site; other site 395960012800 dimerization interface [polypeptide binding]; other site 395960012801 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 395960012802 methionine sulfoxide reductase B; Provisional; Region: PRK00222 395960012803 SelR domain; Region: SelR; pfam01641 395960012804 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 395960012805 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395960012806 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 395960012807 catalytic core [active] 395960012808 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 395960012809 Ligand Binding Site [chemical binding]; other site 395960012810 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 395960012811 dimerization interface [polypeptide binding]; other site 395960012812 metal binding site [ion binding]; metal-binding site 395960012813 Predicted integral membrane protein [Function unknown]; Region: COG0392 395960012814 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 395960012815 oxyanion hole [active] 395960012816 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 395960012817 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960012818 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 395960012819 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 395960012820 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 395960012821 active site 395960012822 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 395960012823 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 395960012824 NADP-binding site; other site 395960012825 homotetramer interface [polypeptide binding]; other site 395960012826 substrate binding site [chemical binding]; other site 395960012827 homodimer interface [polypeptide binding]; other site 395960012828 active site 395960012829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960012830 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395960012831 NAD(P) binding site [chemical binding]; other site 395960012832 active site 395960012833 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 395960012834 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 395960012835 putative ion selectivity filter; other site 395960012836 putative pore gating glutamate residue; other site 395960012837 putative H+/Cl- coupling transport residue; other site 395960012838 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 395960012839 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395960012840 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 395960012841 active site 395960012842 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 395960012843 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 395960012844 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 395960012845 amidase; Provisional; Region: PRK07869 395960012846 Amidase; Region: Amidase; cl11426 395960012847 Uncharacterized conserved protein [Function unknown]; Region: COG1432 395960012848 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 395960012849 putative metal binding site [ion binding]; other site 395960012850 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 395960012851 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 395960012852 mce related protein; Region: MCE; pfam02470 395960012853 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 395960012854 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 395960012855 Walker A/P-loop; other site 395960012856 ATP binding site [chemical binding]; other site 395960012857 Q-loop/lid; other site 395960012858 ABC transporter signature motif; other site 395960012859 Walker B; other site 395960012860 D-loop; other site 395960012861 H-loop/switch region; other site 395960012862 STAS domain; Region: STAS_2; pfam13466 395960012863 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 395960012864 Permease; Region: Permease; pfam02405 395960012865 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 395960012866 active site 395960012867 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 395960012868 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 395960012869 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 395960012870 tetramer interface [polypeptide binding]; other site 395960012871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960012872 catalytic residue [active] 395960012873 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960012874 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 395960012875 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395960012876 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 395960012877 putative active site [active] 395960012878 putative metal binding site [ion binding]; other site 395960012879 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 395960012880 S-adenosylmethionine binding site [chemical binding]; other site 395960012881 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 395960012882 dimer interface [polypeptide binding]; other site 395960012883 substrate binding site [chemical binding]; other site 395960012884 ATP binding site [chemical binding]; other site 395960012885 AsnC family; Region: AsnC_trans_reg; pfam01037 395960012886 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395960012887 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395960012888 Cytochrome c; Region: Cytochrom_C; pfam00034 395960012889 Cytochrome C' Region: Cytochrom_C_2; pfam01322 395960012890 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395960012891 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395960012892 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395960012893 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 395960012894 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 395960012895 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 395960012896 MviN-like protein; Region: MVIN; pfam03023 395960012897 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 395960012898 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 395960012899 inhibitor-cofactor binding pocket; inhibition site 395960012900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960012901 catalytic residue [active] 395960012902 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395960012903 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 395960012904 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 395960012905 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395960012906 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 395960012907 putative NAD(P) binding site [chemical binding]; other site 395960012908 active site 395960012909 putative substrate binding site [chemical binding]; other site 395960012910 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 395960012911 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 395960012912 Mg++ binding site [ion binding]; other site 395960012913 putative catalytic motif [active] 395960012914 putative substrate binding site [chemical binding]; other site 395960012915 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 395960012916 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 395960012917 NAD(P) binding site [chemical binding]; other site 395960012918 homodimer interface [polypeptide binding]; other site 395960012919 substrate binding site [chemical binding]; other site 395960012920 active site 395960012921 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 395960012922 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 395960012923 putative ribose interaction site [chemical binding]; other site 395960012924 putative ADP binding site [chemical binding]; other site 395960012925 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 395960012926 active site 395960012927 nucleotide binding site [chemical binding]; other site 395960012928 HIGH motif; other site 395960012929 KMSKS motif; other site 395960012930 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 395960012931 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 395960012932 NADP binding site [chemical binding]; other site 395960012933 homopentamer interface [polypeptide binding]; other site 395960012934 substrate binding site [chemical binding]; other site 395960012935 active site 395960012936 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 395960012937 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395960012938 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 395960012939 putative active site [active] 395960012940 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 395960012941 active site 395960012942 dimer interface [polypeptide binding]; other site 395960012943 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 395960012944 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 395960012945 active site 395960012946 motif I; other site 395960012947 motif II; other site 395960012948 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 395960012949 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395960012950 putative active site [active] 395960012951 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 395960012952 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 395960012953 NAD binding site [chemical binding]; other site 395960012954 homodimer interface [polypeptide binding]; other site 395960012955 active site 395960012956 substrate binding site [chemical binding]; other site 395960012957 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395960012958 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395960012959 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 395960012960 Walker A/P-loop; other site 395960012961 ATP binding site [chemical binding]; other site 395960012962 Q-loop/lid; other site 395960012963 ABC transporter signature motif; other site 395960012964 Walker B; other site 395960012965 D-loop; other site 395960012966 H-loop/switch region; other site 395960012967 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 395960012968 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395960012969 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 395960012970 Part of AAA domain; Region: AAA_19; pfam13245 395960012971 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 395960012972 AAA domain; Region: AAA_12; pfam13087 395960012973 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 395960012974 putative active site [active] 395960012975 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 395960012976 PAS fold; Region: PAS_7; pfam12860 395960012977 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960012978 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960012979 metal binding site [ion binding]; metal-binding site 395960012980 active site 395960012981 I-site; other site 395960012982 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960012983 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 395960012984 ligand binding site [chemical binding]; other site 395960012985 flexible hinge region; other site 395960012986 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 395960012987 putative switch regulator; other site 395960012988 non-specific DNA interactions [nucleotide binding]; other site 395960012989 DNA binding site [nucleotide binding] 395960012990 sequence specific DNA binding site [nucleotide binding]; other site 395960012991 putative cAMP binding site [chemical binding]; other site 395960012992 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 395960012993 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 395960012994 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 395960012995 FeS/SAM binding site; other site 395960012996 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 395960012997 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 395960012998 Double zinc ribbon; Region: DZR; pfam12773 395960012999 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 395960013000 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395960013001 cyclase homology domain; Region: CHD; cd07302 395960013002 nucleotidyl binding site; other site 395960013003 metal binding site [ion binding]; metal-binding site 395960013004 dimer interface [polypeptide binding]; other site 395960013005 Predicted ATPase [General function prediction only]; Region: COG3899 395960013006 AAA ATPase domain; Region: AAA_16; pfam13191 395960013007 Predicted ATPase [General function prediction only]; Region: COG3903 395960013008 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 395960013009 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 395960013010 ATP binding site [chemical binding]; other site 395960013011 putative Mg++ binding site [ion binding]; other site 395960013012 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 395960013013 nucleotide binding region [chemical binding]; other site 395960013014 ATP-binding site [chemical binding]; other site 395960013015 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 395960013016 RNA binding site [nucleotide binding]; other site 395960013017 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960013018 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960013019 active site 395960013020 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 395960013021 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 395960013022 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395960013023 GAF domain; Region: GAF; pfam01590 395960013024 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395960013025 GAF domain; Region: GAF; pfam01590 395960013026 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395960013027 HWE histidine kinase; Region: HWE_HK; smart00911 395960013028 Response regulator receiver domain; Region: Response_reg; pfam00072 395960013029 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 395960013030 active site 395960013031 phosphorylation site [posttranslational modification] 395960013032 intermolecular recognition site; other site 395960013033 dimerization interface [polypeptide binding]; other site 395960013034 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 395960013035 catalytic triad [active] 395960013036 putative active site [active] 395960013037 Autotransporter beta-domain; Region: Autotransporter; smart00869 395960013038 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 395960013039 CoenzymeA binding site [chemical binding]; other site 395960013040 subunit interaction site [polypeptide binding]; other site 395960013041 PHB binding site; other site 395960013042 Predicted transcriptional regulator [Transcription]; Region: COG2378 395960013043 HTH domain; Region: HTH_11; pfam08279 395960013044 WYL domain; Region: WYL; pfam13280 395960013045 prevent-host-death family protein; Region: phd_fam; TIGR01552 395960013046 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 395960013047 oligomeric interface; other site 395960013048 putative active site [active] 395960013049 homodimer interface [polypeptide binding]; other site 395960013050 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 395960013051 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 395960013052 homotetramer interface [polypeptide binding]; other site 395960013053 ligand binding site [chemical binding]; other site 395960013054 catalytic site [active] 395960013055 NAD binding site [chemical binding]; other site 395960013056 S-adenosylmethionine synthetase; Validated; Region: PRK05250 395960013057 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 395960013058 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 395960013059 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 395960013060 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 395960013061 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 395960013062 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 395960013063 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 395960013064 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395960013065 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 395960013066 putative ligand binding site [chemical binding]; other site 395960013067 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960013068 TM-ABC transporter signature motif; other site 395960013069 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960013070 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960013071 TM-ABC transporter signature motif; other site 395960013072 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960013073 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960013074 Walker A/P-loop; other site 395960013075 ATP binding site [chemical binding]; other site 395960013076 Q-loop/lid; other site 395960013077 ABC transporter signature motif; other site 395960013078 Walker B; other site 395960013079 D-loop; other site 395960013080 H-loop/switch region; other site 395960013081 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960013082 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960013083 Walker A/P-loop; other site 395960013084 ATP binding site [chemical binding]; other site 395960013085 Q-loop/lid; other site 395960013086 ABC transporter signature motif; other site 395960013087 Walker B; other site 395960013088 D-loop; other site 395960013089 H-loop/switch region; other site 395960013090 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 395960013091 substrate binding site [chemical binding]; other site 395960013092 THF binding site; other site 395960013093 zinc-binding site [ion binding]; other site 395960013094 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960013095 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960013096 Walker A/P-loop; other site 395960013097 ATP binding site [chemical binding]; other site 395960013098 Q-loop/lid; other site 395960013099 ABC transporter signature motif; other site 395960013100 Walker B; other site 395960013101 D-loop; other site 395960013102 H-loop/switch region; other site 395960013103 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960013104 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960013105 Walker A/P-loop; other site 395960013106 ATP binding site [chemical binding]; other site 395960013107 Q-loop/lid; other site 395960013108 ABC transporter signature motif; other site 395960013109 Walker B; other site 395960013110 D-loop; other site 395960013111 H-loop/switch region; other site 395960013112 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960013113 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960013114 TM-ABC transporter signature motif; other site 395960013115 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960013116 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960013117 TM-ABC transporter signature motif; other site 395960013118 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960013119 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395960013120 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 395960013121 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 395960013122 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 395960013123 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 395960013124 putative active site [active] 395960013125 putative substrate binding site [chemical binding]; other site 395960013126 putative cosubstrate binding site; other site 395960013127 catalytic site [active] 395960013128 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 395960013129 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 395960013130 active site 395960013131 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960013132 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 395960013133 putative ligand binding site [chemical binding]; other site 395960013134 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960013135 TM-ABC transporter signature motif; other site 395960013136 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960013137 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960013138 TM-ABC transporter signature motif; other site 395960013139 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960013140 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960013141 Walker A/P-loop; other site 395960013142 ATP binding site [chemical binding]; other site 395960013143 Q-loop/lid; other site 395960013144 ABC transporter signature motif; other site 395960013145 Walker B; other site 395960013146 D-loop; other site 395960013147 H-loop/switch region; other site 395960013148 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960013149 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960013150 Walker A/P-loop; other site 395960013151 ATP binding site [chemical binding]; other site 395960013152 Q-loop/lid; other site 395960013153 ABC transporter signature motif; other site 395960013154 Walker B; other site 395960013155 D-loop; other site 395960013156 H-loop/switch region; other site 395960013157 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960013158 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960013159 Walker A/P-loop; other site 395960013160 ATP binding site [chemical binding]; other site 395960013161 Q-loop/lid; other site 395960013162 ABC transporter signature motif; other site 395960013163 Walker B; other site 395960013164 D-loop; other site 395960013165 H-loop/switch region; other site 395960013166 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 395960013167 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 395960013168 acyl-activating enzyme (AAE) consensus motif; other site 395960013169 putative AMP binding site [chemical binding]; other site 395960013170 putative active site [active] 395960013171 putative CoA binding site [chemical binding]; other site 395960013172 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960013173 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960013174 TM-ABC transporter signature motif; other site 395960013175 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960013176 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960013177 TM-ABC transporter signature motif; other site 395960013178 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960013179 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 395960013180 putative ligand binding site [chemical binding]; other site 395960013181 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960013182 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960013183 Walker A/P-loop; other site 395960013184 ATP binding site [chemical binding]; other site 395960013185 Q-loop/lid; other site 395960013186 ABC transporter signature motif; other site 395960013187 Walker B; other site 395960013188 D-loop; other site 395960013189 H-loop/switch region; other site 395960013190 putative glycosyl transferase; Provisional; Region: PRK10307 395960013191 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 395960013192 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 395960013193 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 395960013194 active site 395960013195 homodimer interface [polypeptide binding]; other site 395960013196 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960013197 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 395960013198 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 395960013199 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960013200 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960013201 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 395960013202 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 395960013203 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960013204 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 395960013205 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 395960013206 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 395960013207 NADP binding site [chemical binding]; other site 395960013208 active site 395960013209 putative substrate binding site [chemical binding]; other site 395960013210 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 395960013211 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 395960013212 NAD(P) binding site [chemical binding]; other site 395960013213 homodimer interface [polypeptide binding]; other site 395960013214 substrate binding site [chemical binding]; other site 395960013215 active site 395960013216 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 395960013217 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 395960013218 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960013219 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395960013220 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 395960013221 S-adenosylmethionine binding site [chemical binding]; other site 395960013222 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 395960013223 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 395960013224 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 395960013225 Walker A/P-loop; other site 395960013226 ATP binding site [chemical binding]; other site 395960013227 Q-loop/lid; other site 395960013228 ABC transporter signature motif; other site 395960013229 Walker B; other site 395960013230 D-loop; other site 395960013231 H-loop/switch region; other site 395960013232 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 395960013233 putative carbohydrate binding site [chemical binding]; other site 395960013234 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 395960013235 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 395960013236 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 395960013237 active site 395960013238 dimer interface [polypeptide binding]; other site 395960013239 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 395960013240 Ligand Binding Site [chemical binding]; other site 395960013241 Molecular Tunnel; other site 395960013242 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 395960013243 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 395960013244 active site 395960013245 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 395960013246 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960013247 putative ADP-binding pocket [chemical binding]; other site 395960013248 Methyltransferase domain; Region: Methyltransf_24; pfam13578 395960013249 Transposase; Region: HTH_Tnp_1; pfam01527 395960013250 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395960013251 HTH-like domain; Region: HTH_21; pfam13276 395960013252 Integrase core domain; Region: rve; pfam00665 395960013253 Integrase core domain; Region: rve_3; pfam13683 395960013254 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395960013255 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 395960013256 methionine sulfoxide reductase B; Provisional; Region: PRK00222 395960013257 SelR domain; Region: SelR; pfam01641 395960013258 methionine sulfoxide reductase A; Provisional; Region: PRK13014 395960013259 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 395960013260 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395960013261 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 395960013262 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 395960013263 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395960013264 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395960013265 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 395960013266 IMP binding site; other site 395960013267 dimer interface [polypeptide binding]; other site 395960013268 interdomain contacts; other site 395960013269 partial ornithine binding site; other site 395960013270 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 395960013271 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 395960013272 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395960013273 Predicted membrane protein [Function unknown]; Region: COG2259 395960013274 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395960013275 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 395960013276 putative DNA binding site [nucleotide binding]; other site 395960013277 putative Zn2+ binding site [ion binding]; other site 395960013278 AsnC family; Region: AsnC_trans_reg; pfam01037 395960013279 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 395960013280 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395960013281 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395960013282 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960013283 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960013284 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 395960013285 putative effector binding pocket; other site 395960013286 dimerization interface [polypeptide binding]; other site 395960013287 AAA domain; Region: AAA_31; pfam13614 395960013288 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 395960013289 P-loop; other site 395960013290 Magnesium ion binding site [ion binding]; other site 395960013291 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 395960013292 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 395960013293 phasin; Region: phasin_2; TIGR01985 395960013294 Phasin protein; Region: Phasin_2; cl11491 395960013295 PAS domain; Region: PAS_8; pfam13188 395960013296 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395960013297 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 395960013298 putative active site [active] 395960013299 heme pocket [chemical binding]; other site 395960013300 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 395960013301 dimer interface [polypeptide binding]; other site 395960013302 phosphorylation site [posttranslational modification] 395960013303 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 395960013304 ATP binding site [chemical binding]; other site 395960013305 Mg2+ binding site [ion binding]; other site 395960013306 G-X-G motif; other site 395960013307 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 395960013308 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 395960013309 putative active site [active] 395960013310 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960013311 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 395960013312 ligand binding site [chemical binding]; other site 395960013313 flexible hinge region; other site 395960013314 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 395960013315 putative switch regulator; other site 395960013316 non-specific DNA interactions [nucleotide binding]; other site 395960013317 DNA binding site [nucleotide binding] 395960013318 sequence specific DNA binding site [nucleotide binding]; other site 395960013319 putative cAMP binding site [chemical binding]; other site 395960013320 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 395960013321 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 395960013322 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 395960013323 Multicopper oxidase; Region: Cu-oxidase; pfam00394 395960013324 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 395960013325 Uncharacterized conserved protein [Function unknown]; Region: COG1262 395960013326 thymidine phosphorylase; Provisional; Region: PRK04350 395960013327 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 395960013328 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 395960013329 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 395960013330 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 395960013331 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 395960013332 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395960013333 active site 395960013334 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 395960013335 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395960013336 Beta-Casp domain; Region: Beta-Casp; smart01027 395960013337 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 395960013338 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 395960013339 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960013340 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 395960013341 dimerization interface [polypeptide binding]; other site 395960013342 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 395960013343 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395960013344 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 395960013345 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 395960013346 dimer interface [polypeptide binding]; other site 395960013347 conserved gate region; other site 395960013348 ABC-ATPase subunit interface; other site 395960013349 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 395960013350 putative PBP binding loops; other site 395960013351 ABC-ATPase subunit interface; other site 395960013352 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 395960013353 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 395960013354 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 395960013355 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 395960013356 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395960013357 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 395960013358 dimer interface [polypeptide binding]; other site 395960013359 conserved gate region; other site 395960013360 putative PBP binding loops; other site 395960013361 ABC-ATPase subunit interface; other site 395960013362 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 395960013363 dimer interface [polypeptide binding]; other site 395960013364 conserved gate region; other site 395960013365 putative PBP binding loops; other site 395960013366 ABC-ATPase subunit interface; other site 395960013367 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395960013368 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 395960013369 Walker A/P-loop; other site 395960013370 ATP binding site [chemical binding]; other site 395960013371 Q-loop/lid; other site 395960013372 ABC transporter signature motif; other site 395960013373 Walker B; other site 395960013374 D-loop; other site 395960013375 H-loop/switch region; other site 395960013376 TOBE domain; Region: TOBE_2; pfam08402 395960013377 Predicted transcriptional regulators [Transcription]; Region: COG1378 395960013378 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 395960013379 putative Zn2+ binding site [ion binding]; other site 395960013380 putative DNA binding site [nucleotide binding]; other site 395960013381 dimerization interface [polypeptide binding]; other site 395960013382 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395960013383 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 395960013384 dimer interface [polypeptide binding]; other site 395960013385 conserved gate region; other site 395960013386 putative PBP binding loops; other site 395960013387 ABC-ATPase subunit interface; other site 395960013388 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395960013389 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395960013390 Walker A/P-loop; other site 395960013391 ATP binding site [chemical binding]; other site 395960013392 Q-loop/lid; other site 395960013393 ABC transporter signature motif; other site 395960013394 Walker B; other site 395960013395 D-loop; other site 395960013396 H-loop/switch region; other site 395960013397 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395960013398 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 395960013399 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 395960013400 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395960013401 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 395960013402 putative active site [active] 395960013403 catalytic triad [active] 395960013404 putative dimer interface [polypeptide binding]; other site 395960013405 PAS domain; Region: PAS; smart00091 395960013406 PAS fold; Region: PAS_7; pfam12860 395960013407 PAS fold; Region: PAS_4; pfam08448 395960013408 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 395960013409 putative active site [active] 395960013410 heme pocket [chemical binding]; other site 395960013411 PAS fold; Region: PAS_4; pfam08448 395960013412 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960013413 metal binding site [ion binding]; metal-binding site 395960013414 active site 395960013415 I-site; other site 395960013416 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 395960013417 Predicted dehydrogenase [General function prediction only]; Region: COG0579 395960013418 hydroxyglutarate oxidase; Provisional; Region: PRK11728 395960013419 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395960013420 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395960013421 DNA-binding site [nucleotide binding]; DNA binding site 395960013422 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 395960013423 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960013424 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960013425 putative ligand binding site [chemical binding]; other site 395960013426 Uncharacterized small protein [Function unknown]; Region: COG5570 395960013427 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 395960013428 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960013429 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960013430 metal binding site [ion binding]; metal-binding site 395960013431 active site 395960013432 I-site; other site 395960013433 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 395960013434 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 395960013435 ATP-grasp domain; Region: ATP-grasp; pfam02222 395960013436 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 395960013437 Cupin domain; Region: Cupin_2; cl17218 395960013438 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 395960013439 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395960013440 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 395960013441 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 395960013442 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 395960013443 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 395960013444 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 395960013445 ligand binding site [chemical binding]; other site 395960013446 homodimer interface [polypeptide binding]; other site 395960013447 NAD(P) binding site [chemical binding]; other site 395960013448 trimer interface B [polypeptide binding]; other site 395960013449 trimer interface A [polypeptide binding]; other site 395960013450 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 395960013451 Fic/DOC family; Region: Fic; cl00960 395960013452 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 395960013453 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 395960013454 active site 395960013455 Zn binding site [ion binding]; other site 395960013456 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 395960013457 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395960013458 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 395960013459 active site 395960013460 phosphorylation site [posttranslational modification] 395960013461 intermolecular recognition site; other site 395960013462 dimerization interface [polypeptide binding]; other site 395960013463 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 395960013464 Walker A motif; other site 395960013465 ATP binding site [chemical binding]; other site 395960013466 Walker B motif; other site 395960013467 arginine finger; other site 395960013468 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395960013469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 395960013470 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 395960013471 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395960013472 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395960013473 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 395960013474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 395960013475 hypothetical protein; Provisional; Region: PRK13694 395960013476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 395960013477 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 395960013478 pyruvate kinase; Provisional; Region: PRK06247 395960013479 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 395960013480 domain interfaces; other site 395960013481 active site 395960013482 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 395960013483 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395960013484 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 395960013485 catalytic site [active] 395960013486 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 395960013487 binding surface 395960013488 TPR motif; other site 395960013489 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 395960013490 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 395960013491 active site 395960013492 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 395960013493 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 395960013494 motif II; other site 395960013495 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 395960013496 putative deacylase active site [active] 395960013497 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960013498 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960013499 dimer interface [polypeptide binding]; other site 395960013500 putative CheW interface [polypeptide binding]; other site 395960013501 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 395960013502 PAS fold; Region: PAS_3; pfam08447 395960013503 putative active site [active] 395960013504 heme pocket [chemical binding]; other site 395960013505 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 395960013506 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 395960013507 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 395960013508 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 395960013509 NAD binding site [chemical binding]; other site 395960013510 homotetramer interface [polypeptide binding]; other site 395960013511 homodimer interface [polypeptide binding]; other site 395960013512 substrate binding site [chemical binding]; other site 395960013513 active site 395960013514 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 395960013515 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 395960013516 Patatin phospholipase; Region: DUF3734; pfam12536 395960013517 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 395960013518 glutamine synthetase; Region: PLN02284 395960013519 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 395960013520 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395960013521 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 395960013522 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 395960013523 glutaminase; Provisional; Region: PRK00971 395960013524 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 395960013525 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 395960013526 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395960013527 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395960013528 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 395960013529 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 395960013530 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 395960013531 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 395960013532 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 395960013533 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 395960013534 active site 395960013535 SAM binding site [chemical binding]; other site 395960013536 homodimer interface [polypeptide binding]; other site 395960013537 malate synthase G; Provisional; Region: PRK02999 395960013538 active site 395960013539 CsbD-like; Region: CsbD; cl17424 395960013540 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 395960013541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395960013542 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395960013543 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395960013544 Domain of unknown function DUF20; Region: UPF0118; pfam01594 395960013545 two-component response regulator; Provisional; Region: PRK09191 395960013546 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 395960013547 active site 395960013548 phosphorylation site [posttranslational modification] 395960013549 intermolecular recognition site; other site 395960013550 dimerization interface [polypeptide binding]; other site 395960013551 RNA polymerase sigma factor; Provisional; Region: PRK12540 395960013552 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960013553 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 395960013554 DNA binding residues [nucleotide binding] 395960013555 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 395960013556 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395960013557 HWE histidine kinase; Region: HWE_HK; pfam07536 395960013558 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 395960013559 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 395960013560 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 395960013561 putative [4Fe-4S] binding site [ion binding]; other site 395960013562 putative molybdopterin cofactor binding site [chemical binding]; other site 395960013563 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 395960013564 putative molybdopterin cofactor binding site; other site 395960013565 Ion transport protein; Region: Ion_trans; pfam00520 395960013566 Ion channel; Region: Ion_trans_2; pfam07885 395960013567 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960013568 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 395960013569 ligand binding site [chemical binding]; other site 395960013570 flexible hinge region; other site 395960013571 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 395960013572 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960013573 ligand binding site [chemical binding]; other site 395960013574 flexible hinge region; other site 395960013575 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 395960013576 putative switch regulator; other site 395960013577 non-specific DNA interactions [nucleotide binding]; other site 395960013578 DNA binding site [nucleotide binding] 395960013579 sequence specific DNA binding site [nucleotide binding]; other site 395960013580 putative cAMP binding site [chemical binding]; other site 395960013581 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395960013582 Cytochrome c; Region: Cytochrom_C; pfam00034 395960013583 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 395960013584 mce related protein; Region: MCE; pfam02470 395960013585 Protein of unknown function (DUF330); Region: DUF330; cl01135 395960013586 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 395960013587 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 395960013588 Walker A/P-loop; other site 395960013589 ATP binding site [chemical binding]; other site 395960013590 Q-loop/lid; other site 395960013591 ABC transporter signature motif; other site 395960013592 Walker B; other site 395960013593 D-loop; other site 395960013594 H-loop/switch region; other site 395960013595 STAS domain; Region: STAS_2; pfam13466 395960013596 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 395960013597 Permease; Region: Permease; pfam02405 395960013598 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 395960013599 CoA binding domain; Region: CoA_binding_2; pfam13380 395960013600 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 395960013601 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 395960013602 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395960013603 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960013604 Coenzyme A binding pocket [chemical binding]; other site 395960013605 FOG: CBS domain [General function prediction only]; Region: COG0517 395960013606 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 395960013607 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 395960013608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 395960013609 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 395960013610 substrate binding site [chemical binding]; other site 395960013611 Predicted kinase [General function prediction only]; Region: COG0645 395960013612 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 395960013613 active site 395960013614 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 395960013615 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 395960013616 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 395960013617 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 395960013618 Ligand Binding Site [chemical binding]; other site 395960013619 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 395960013620 Ligand Binding Site [chemical binding]; other site 395960013621 FOG: CBS domain [General function prediction only]; Region: COG0517 395960013622 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 395960013623 BON domain; Region: BON; pfam04972 395960013624 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 395960013625 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395960013626 putative active site [active] 395960013627 heme pocket [chemical binding]; other site 395960013628 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395960013629 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 395960013630 putative active site [active] 395960013631 heme pocket [chemical binding]; other site 395960013632 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 395960013633 dimer interface [polypeptide binding]; other site 395960013634 phosphorylation site [posttranslational modification] 395960013635 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 395960013636 ATP binding site [chemical binding]; other site 395960013637 Mg2+ binding site [ion binding]; other site 395960013638 G-X-G motif; other site 395960013639 response regulator FixJ; Provisional; Region: fixJ; PRK09390 395960013640 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 395960013641 active site 395960013642 phosphorylation site [posttranslational modification] 395960013643 intermolecular recognition site; other site 395960013644 dimerization interface [polypeptide binding]; other site 395960013645 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 395960013646 DNA binding residues [nucleotide binding] 395960013647 dimerization interface [polypeptide binding]; other site 395960013648 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 395960013649 active site 395960013650 phosphorylation site [posttranslational modification] 395960013651 intermolecular recognition site; other site 395960013652 dimerization interface [polypeptide binding]; other site 395960013653 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 395960013654 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 395960013655 ligand binding site [chemical binding]; other site 395960013656 flexible hinge region; other site 395960013657 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 395960013658 putative switch regulator; other site 395960013659 non-specific DNA interactions [nucleotide binding]; other site 395960013660 DNA binding site [nucleotide binding] 395960013661 sequence specific DNA binding site [nucleotide binding]; other site 395960013662 putative cAMP binding site [chemical binding]; other site 395960013663 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 395960013664 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 395960013665 homodimer interface [polypeptide binding]; other site 395960013666 substrate-cofactor binding pocket; other site 395960013667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960013668 catalytic residue [active] 395960013669 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 395960013670 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395960013671 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 395960013672 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395960013673 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395960013674 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 395960013675 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 395960013676 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 395960013677 4Fe-4S binding domain; Region: Fer4; pfam00037 395960013678 4Fe-4S binding domain; Region: Fer4; pfam00037 395960013679 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 395960013680 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 395960013681 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 395960013682 catalytic loop [active] 395960013683 iron binding site [ion binding]; other site 395960013684 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 395960013685 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 395960013686 [4Fe-4S] binding site [ion binding]; other site 395960013687 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 395960013688 SLBB domain; Region: SLBB; pfam10531 395960013689 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 395960013690 NADH dehydrogenase subunit E; Validated; Region: PRK07539 395960013691 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 395960013692 putative dimer interface [polypeptide binding]; other site 395960013693 [2Fe-2S] cluster binding site [ion binding]; other site 395960013694 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 395960013695 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 395960013696 NADH dehydrogenase subunit D; Validated; Region: PRK06075 395960013697 NADH dehydrogenase subunit B; Validated; Region: PRK06411 395960013698 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 395960013699 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 395960013700 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395960013701 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960013702 Walker A/P-loop; other site 395960013703 ATP binding site [chemical binding]; other site 395960013704 Q-loop/lid; other site 395960013705 ABC transporter signature motif; other site 395960013706 Walker B; other site 395960013707 D-loop; other site 395960013708 H-loop/switch region; other site 395960013709 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 395960013710 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 395960013711 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 395960013712 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 395960013713 acyl-activating enzyme (AAE) consensus motif; other site 395960013714 putative AMP binding site [chemical binding]; other site 395960013715 putative active site [active] 395960013716 putative CoA binding site [chemical binding]; other site 395960013717 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 395960013718 catalytic triad [active] 395960013719 dimer interface [polypeptide binding]; other site 395960013720 Transposase; Region: HTH_Tnp_1; cl17663 395960013721 Winged helix-turn helix; Region: HTH_29; pfam13551 395960013722 Homeodomain-like domain; Region: HTH_32; pfam13565 395960013723 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395960013724 Integrase core domain; Region: rve; pfam00665 395960013725 Integrase core domain; Region: rve_3; pfam13683 395960013726 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 395960013727 RNA/DNA hybrid binding site [nucleotide binding]; other site 395960013728 active site 395960013729 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 395960013730 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 395960013731 putative active site [active] 395960013732 putative substrate binding site [chemical binding]; other site 395960013733 ATP binding site [chemical binding]; other site 395960013734 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 395960013735 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 395960013736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 395960013737 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 395960013738 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 395960013739 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395960013740 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960013741 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 395960013742 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 395960013743 Sensors of blue-light using FAD; Region: BLUF; smart01034 395960013744 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960013745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960013746 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 395960013747 dimerization interface [polypeptide binding]; other site 395960013748 Uncharacterized conserved protein [Function unknown]; Region: COG2353 395960013749 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 395960013750 putative FMN binding site [chemical binding]; other site 395960013751 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 395960013752 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 395960013753 putative active site [active] 395960013754 metal binding site [ion binding]; metal-binding site 395960013755 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 395960013756 S-adenosylmethionine binding site [chemical binding]; other site 395960013757 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395960013758 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 395960013759 active site 395960013760 catalytic residues [active] 395960013761 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 395960013762 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 395960013763 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 395960013764 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 395960013765 GDP-binding site [chemical binding]; other site 395960013766 ACT binding site; other site 395960013767 IMP binding site; other site 395960013768 PilZ domain; Region: PilZ; pfam07238 395960013769 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 395960013770 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395960013771 active site 395960013772 catalytic tetrad [active] 395960013773 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 395960013774 putative deacylase active site [active] 395960013775 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395960013776 EamA-like transporter family; Region: EamA; pfam00892 395960013777 EamA-like transporter family; Region: EamA; pfam00892 395960013778 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 395960013779 EamA-like transporter family; Region: EamA; pfam00892 395960013780 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395960013781 EamA-like transporter family; Region: EamA; pfam00892 395960013782 Cache domain; Region: Cache_1; pfam02743 395960013783 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 395960013784 dimerization interface [polypeptide binding]; other site 395960013785 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960013786 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960013787 dimer interface [polypeptide binding]; other site 395960013788 putative CheW interface [polypeptide binding]; other site 395960013789 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 395960013790 diiron binding motif [ion binding]; other site 395960013791 Uncharacterized conserved protein [Function unknown]; Region: COG1633 395960013792 CCC1-related family of proteins; Region: CCC1_like; cl00278 395960013793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 395960013794 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 395960013795 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 395960013796 dimerization interface [polypeptide binding]; other site 395960013797 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960013798 dimer interface [polypeptide binding]; other site 395960013799 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395960013800 putative CheW interface [polypeptide binding]; other site 395960013801 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 395960013802 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 395960013803 dimerization interface [polypeptide binding]; other site 395960013804 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395960013805 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960013806 dimer interface [polypeptide binding]; other site 395960013807 putative CheW interface [polypeptide binding]; other site 395960013808 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 395960013809 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 395960013810 ligand binding site [chemical binding]; other site 395960013811 NAD binding site [chemical binding]; other site 395960013812 dimerization interface [polypeptide binding]; other site 395960013813 catalytic site [active] 395960013814 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 395960013815 putative L-serine binding site [chemical binding]; other site 395960013816 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 395960013817 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960013818 catalytic residue [active] 395960013819 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960013820 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960013821 dimer interface [polypeptide binding]; other site 395960013822 putative CheW interface [polypeptide binding]; other site 395960013823 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 395960013824 PAS fold; Region: PAS_3; pfam08447 395960013825 putative active site [active] 395960013826 heme pocket [chemical binding]; other site 395960013827 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395960013828 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960013829 Coenzyme A binding pocket [chemical binding]; other site 395960013830 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395960013831 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 395960013832 putative C-terminal domain interface [polypeptide binding]; other site 395960013833 putative GSH binding site (G-site) [chemical binding]; other site 395960013834 putative dimer interface [polypeptide binding]; other site 395960013835 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395960013836 N-terminal domain interface [polypeptide binding]; other site 395960013837 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960013838 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960013839 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395960013840 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 395960013841 putative substrate translocation pore; other site 395960013842 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 395960013843 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 395960013844 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 395960013845 active site 395960013846 substrate binding site [chemical binding]; other site 395960013847 metal binding site [ion binding]; metal-binding site 395960013848 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 395960013849 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 395960013850 phosphate binding site [ion binding]; other site 395960013851 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 395960013852 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 395960013853 substrate binding site [chemical binding]; other site 395960013854 oxyanion hole (OAH) forming residues; other site 395960013855 trimer interface [polypeptide binding]; other site 395960013856 Response regulator receiver domain; Region: Response_reg; pfam00072 395960013857 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 395960013858 active site 395960013859 phosphorylation site [posttranslational modification] 395960013860 intermolecular recognition site; other site 395960013861 dimerization interface [polypeptide binding]; other site 395960013862 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 395960013863 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 395960013864 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 395960013865 shikimate binding site; other site 395960013866 NAD(P) binding site [chemical binding]; other site 395960013867 putative transporter; Provisional; Region: PRK11660 395960013868 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 395960013869 Sulfate transporter family; Region: Sulfate_transp; pfam00916 395960013870 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 395960013871 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 395960013872 sequence-specific DNA binding site [nucleotide binding]; other site 395960013873 salt bridge; other site 395960013874 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 395960013875 elongation factor G; Reviewed; Region: PRK12740 395960013876 G1 box; other site 395960013877 putative GEF interaction site [polypeptide binding]; other site 395960013878 GTP/Mg2+ binding site [chemical binding]; other site 395960013879 Switch I region; other site 395960013880 G2 box; other site 395960013881 G3 box; other site 395960013882 Switch II region; other site 395960013883 G4 box; other site 395960013884 G5 box; other site 395960013885 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 395960013886 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 395960013887 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 395960013888 Protein of unknown function (DUF992); Region: DUF992; pfam06186 395960013889 Protein of unknown function (DUF992); Region: DUF992; pfam06186 395960013890 aspartate aminotransferase; Provisional; Region: PRK05764 395960013891 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 395960013892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960013893 homodimer interface [polypeptide binding]; other site 395960013894 catalytic residue [active] 395960013895 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395960013896 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 395960013897 putative C-terminal domain interface [polypeptide binding]; other site 395960013898 putative GSH binding site (G-site) [chemical binding]; other site 395960013899 putative dimer interface [polypeptide binding]; other site 395960013900 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 395960013901 dimer interface [polypeptide binding]; other site 395960013902 N-terminal domain interface [polypeptide binding]; other site 395960013903 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 395960013904 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 395960013905 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 395960013906 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395960013907 putative acyl-acceptor binding pocket; other site 395960013908 replicative DNA helicase; Provisional; Region: PRK05973 395960013909 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 395960013910 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395960013911 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 395960013912 active site 395960013913 catalytic tetrad [active] 395960013914 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 395960013915 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395960013916 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 395960013917 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 395960013918 motif II; other site 395960013919 enoyl-CoA hydratase; Provisional; Region: PRK05980 395960013920 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 395960013921 substrate binding site [chemical binding]; other site 395960013922 oxyanion hole (OAH) forming residues; other site 395960013923 trimer interface [polypeptide binding]; other site 395960013924 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 395960013925 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395960013926 putative C-terminal domain interface [polypeptide binding]; other site 395960013927 putative GSH binding site (G-site) [chemical binding]; other site 395960013928 putative dimer interface [polypeptide binding]; other site 395960013929 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 395960013930 putative N-terminal domain interface [polypeptide binding]; other site 395960013931 putative dimer interface [polypeptide binding]; other site 395960013932 putative substrate binding pocket (H-site) [chemical binding]; other site 395960013933 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 395960013934 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395960013935 excinuclease ABC subunit B; Provisional; Region: PRK05298 395960013936 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 395960013937 ATP binding site [chemical binding]; other site 395960013938 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 395960013939 nucleotide binding region [chemical binding]; other site 395960013940 ATP-binding site [chemical binding]; other site 395960013941 Ultra-violet resistance protein B; Region: UvrB; pfam12344 395960013942 UvrB/uvrC motif; Region: UVR; pfam02151 395960013943 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 395960013944 YcfA-like protein; Region: YcfA; pfam07927 395960013945 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 395960013946 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 395960013947 sequence-specific DNA binding site [nucleotide binding]; other site 395960013948 salt bridge; other site 395960013949 acetyl-CoA acetyltransferase; Provisional; Region: PRK06025 395960013950 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 395960013951 dimer interface [polypeptide binding]; other site 395960013952 active site 395960013953 SnoaL-like domain; Region: SnoaL_2; pfam12680 395960013954 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 395960013955 putative active site [active] 395960013956 putative catalytic site [active] 395960013957 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 395960013958 putative active site [active] 395960013959 putative catalytic site [active] 395960013960 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 395960013961 GTP-binding protein YchF; Reviewed; Region: PRK09601 395960013962 YchF GTPase; Region: YchF; cd01900 395960013963 G1 box; other site 395960013964 GTP/Mg2+ binding site [chemical binding]; other site 395960013965 Switch I region; other site 395960013966 G2 box; other site 395960013967 Switch II region; other site 395960013968 G3 box; other site 395960013969 G4 box; other site 395960013970 G5 box; other site 395960013971 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 395960013972 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 395960013973 putative active site [active] 395960013974 catalytic residue [active] 395960013975 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 395960013976 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 395960013977 5S rRNA interface [nucleotide binding]; other site 395960013978 CTC domain interface [polypeptide binding]; other site 395960013979 L16 interface [polypeptide binding]; other site 395960013980 Membrane fusogenic activity; Region: BMFP; pfam04380 395960013981 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 395960013982 Uncharacterized conserved protein [Function unknown]; Region: COG1565 395960013983 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 395960013984 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 395960013985 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 395960013986 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 395960013987 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395960013988 active site 395960013989 riboflavin synthase subunit beta; Provisional; Region: PRK12419 395960013990 active site 395960013991 homopentamer interface [polypeptide binding]; other site 395960013992 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 395960013993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960013994 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395960013995 Coenzyme A binding pocket [chemical binding]; other site 395960013996 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 395960013997 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 395960013998 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960013999 HAMP domain; Region: HAMP; pfam00672 395960014000 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 395960014001 dimer interface [polypeptide binding]; other site 395960014002 phosphorylation site [posttranslational modification] 395960014003 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 395960014004 ATP binding site [chemical binding]; other site 395960014005 Mg2+ binding site [ion binding]; other site 395960014006 G-X-G motif; other site 395960014007 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 395960014008 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 395960014009 active site 395960014010 phosphorylation site [posttranslational modification] 395960014011 intermolecular recognition site; other site 395960014012 dimerization interface [polypeptide binding]; other site 395960014013 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 395960014014 DNA binding site [nucleotide binding] 395960014015 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395960014016 MarR family; Region: MarR_2; pfam12802 395960014017 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 395960014018 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 395960014019 homodimer interface [polypeptide binding]; other site 395960014020 substrate-cofactor binding pocket; other site 395960014021 catalytic residue [active] 395960014022 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 395960014023 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 395960014024 ATP binding site [chemical binding]; other site 395960014025 Mg2+ binding site [ion binding]; other site 395960014026 G-X-G motif; other site 395960014027 DNA mismatch repair protein, C-terminal domain; Region: DNA_mis_repair; pfam01119 395960014028 ATP binding site [chemical binding]; other site 395960014029 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 395960014030 hypothetical protein; Provisional; Region: PRK09256 395960014031 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 395960014032 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 395960014033 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 395960014034 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 395960014035 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 395960014036 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 395960014037 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 395960014038 lipoprotein signal peptidase; Provisional; Region: PRK14796 395960014039 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 395960014040 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395960014041 active site 395960014042 HIGH motif; other site 395960014043 nucleotide binding site [chemical binding]; other site 395960014044 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 395960014045 active site 395960014046 KMSKS motif; other site 395960014047 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 395960014048 tRNA binding surface [nucleotide binding]; other site 395960014049 anticodon binding site; other site 395960014050 maltose O-acetyltransferase; Provisional; Region: PRK10092 395960014051 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 395960014052 active site 395960014053 substrate binding site [chemical binding]; other site 395960014054 trimer interface [polypeptide binding]; other site 395960014055 CoA binding site [chemical binding]; other site 395960014056 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 395960014057 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 395960014058 active site 395960014059 Riboflavin kinase; Region: Flavokinase; smart00904 395960014060 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 395960014061 B1 nucleotide binding pocket [chemical binding]; other site 395960014062 B2 nucleotide binding pocket [chemical binding]; other site 395960014063 CAS motifs; other site 395960014064 active site 395960014065 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 395960014066 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 395960014067 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 395960014068 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 395960014069 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 395960014070 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 395960014071 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395960014072 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960014073 Coenzyme A binding pocket [chemical binding]; other site 395960014074 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 395960014075 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395960014076 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 395960014077 nudix motif; other site 395960014078 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 395960014079 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 395960014080 putative active site [active] 395960014081 putative metal binding site [ion binding]; other site 395960014082 isocitrate lyase; Provisional; Region: PRK15063 395960014083 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 395960014084 tetramer interface [polypeptide binding]; other site 395960014085 active site 395960014086 Mg2+/Mn2+ binding site [ion binding]; other site 395960014087 isocitrate lyase; Region: PLN02892 395960014088 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395960014089 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 395960014090 non-specific DNA binding site [nucleotide binding]; other site 395960014091 salt bridge; other site 395960014092 sequence-specific DNA binding site [nucleotide binding]; other site 395960014093 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 395960014094 Domain of unknown function (DUF955); Region: DUF955; pfam06114 395960014095 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 395960014096 EVE domain; Region: EVE; cl00728 395960014097 HNH endonuclease; Region: HNH_2; pfam13391 395960014098 lytic murein transglycosylase; Region: MltB_2; TIGR02283 395960014099 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 395960014100 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 395960014101 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395960014102 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 395960014103 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960014104 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 395960014105 putative ligand binding site [chemical binding]; other site 395960014106 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395960014107 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395960014108 Walker A/P-loop; other site 395960014109 ATP binding site [chemical binding]; other site 395960014110 Q-loop/lid; other site 395960014111 ABC transporter signature motif; other site 395960014112 Walker B; other site 395960014113 D-loop; other site 395960014114 H-loop/switch region; other site 395960014115 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395960014116 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395960014117 Walker A/P-loop; other site 395960014118 ATP binding site [chemical binding]; other site 395960014119 Q-loop/lid; other site 395960014120 ABC transporter signature motif; other site 395960014121 Walker B; other site 395960014122 D-loop; other site 395960014123 H-loop/switch region; other site 395960014124 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960014125 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395960014126 TM-ABC transporter signature motif; other site 395960014127 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395960014128 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395960014129 TM-ABC transporter signature motif; other site 395960014130 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 395960014131 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 395960014132 FMN binding site [chemical binding]; other site 395960014133 active site 395960014134 substrate binding site [chemical binding]; other site 395960014135 catalytic residue [active] 395960014136 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395960014137 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 395960014138 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395960014139 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 395960014140 dimer interface [polypeptide binding]; other site 395960014141 conserved gate region; other site 395960014142 putative PBP binding loops; other site 395960014143 ABC-ATPase subunit interface; other site 395960014144 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395960014145 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 395960014146 dimer interface [polypeptide binding]; other site 395960014147 conserved gate region; other site 395960014148 putative PBP binding loops; other site 395960014149 ABC-ATPase subunit interface; other site 395960014150 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395960014151 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 395960014152 Walker A/P-loop; other site 395960014153 ATP binding site [chemical binding]; other site 395960014154 Q-loop/lid; other site 395960014155 ABC transporter signature motif; other site 395960014156 Walker B; other site 395960014157 D-loop; other site 395960014158 H-loop/switch region; other site 395960014159 TOBE domain; Region: TOBE_2; pfam08402 395960014160 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 395960014161 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 395960014162 Walker A/P-loop; other site 395960014163 ATP binding site [chemical binding]; other site 395960014164 Q-loop/lid; other site 395960014165 ABC transporter signature motif; other site 395960014166 Walker B; other site 395960014167 D-loop; other site 395960014168 H-loop/switch region; other site 395960014169 TOBE domain; Region: TOBE; pfam03459 395960014170 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 395960014171 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395960014172 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 395960014173 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 395960014174 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 395960014175 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395960014176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395960014177 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395960014178 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395960014179 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960014180 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 395960014181 dimer interface [polypeptide binding]; other site 395960014182 PAS fold; Region: PAS_4; pfam08448 395960014183 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 395960014184 putative active site [active] 395960014185 heme pocket [chemical binding]; other site 395960014186 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 395960014187 dimer interface [polypeptide binding]; other site 395960014188 phosphorylation site [posttranslational modification] 395960014189 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 395960014190 ATP binding site [chemical binding]; other site 395960014191 Mg2+ binding site [ion binding]; other site 395960014192 G-X-G motif; other site 395960014193 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 395960014194 active site 395960014195 phosphorylation site [posttranslational modification] 395960014196 intermolecular recognition site; other site 395960014197 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 395960014198 putative binding surface; other site 395960014199 active site 395960014200 CsbD-like; Region: CsbD; pfam05532 395960014201 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 395960014202 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 395960014203 SlyX; Region: SlyX; pfam04102 395960014204 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 395960014205 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960014206 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395960014207 acyl-activating enzyme (AAE) consensus motif; other site 395960014208 acyl-activating enzyme (AAE) consensus motif; other site 395960014209 putative AMP binding site [chemical binding]; other site 395960014210 putative active site [active] 395960014211 putative CoA binding site [chemical binding]; other site 395960014212 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960014213 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 395960014214 ligand binding site [chemical binding]; other site 395960014215 flexible hinge region; other site 395960014216 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 395960014217 non-specific DNA interactions [nucleotide binding]; other site 395960014218 DNA binding site [nucleotide binding] 395960014219 sequence specific DNA binding site [nucleotide binding]; other site 395960014220 putative cAMP binding site [chemical binding]; other site 395960014221 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 395960014222 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395960014223 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 395960014224 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395960014225 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395960014226 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 395960014227 putative C-terminal domain interface [polypeptide binding]; other site 395960014228 putative GSH binding site (G-site) [chemical binding]; other site 395960014229 putative dimer interface [polypeptide binding]; other site 395960014230 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 395960014231 N-terminal domain interface [polypeptide binding]; other site 395960014232 dimer interface [polypeptide binding]; other site 395960014233 putative substrate binding pocket (H-site) [chemical binding]; other site 395960014234 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 395960014235 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 395960014236 DNA binding site [nucleotide binding] 395960014237 active site 395960014238 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 395960014239 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 395960014240 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 395960014241 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 395960014242 N-terminal plug; other site 395960014243 ligand-binding site [chemical binding]; other site 395960014244 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 395960014245 Peptidase family M23; Region: Peptidase_M23; pfam01551 395960014246 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 395960014247 Strictosidine synthase; Region: Str_synth; pfam03088 395960014248 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 395960014249 Clp amino terminal domain; Region: Clp_N; pfam02861 395960014250 Clp amino terminal domain; Region: Clp_N; pfam02861 395960014251 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 395960014252 Walker A motif; other site 395960014253 ATP binding site [chemical binding]; other site 395960014254 Walker B motif; other site 395960014255 arginine finger; other site 395960014256 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 395960014257 Walker A motif; other site 395960014258 ATP binding site [chemical binding]; other site 395960014259 Walker B motif; other site 395960014260 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 395960014261 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 395960014262 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 395960014263 MOSC domain; Region: MOSC; pfam03473 395960014264 TIGR02594 family protein; Region: TIGR02594 395960014265 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395960014266 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 395960014267 S-adenosylmethionine binding site [chemical binding]; other site 395960014268 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 395960014269 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 395960014270 hypothetical protein; Provisional; Region: PRK06034 395960014271 Chorismate mutase type II; Region: CM_2; pfam01817 395960014272 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 395960014273 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 395960014274 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960014275 homodimer interface [polypeptide binding]; other site 395960014276 catalytic residue [active] 395960014277 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 395960014278 prephenate dehydrogenase; Validated; Region: PRK08507 395960014279 Protein of unknown function (DUF497); Region: DUF497; pfam04365 395960014280 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 395960014281 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 395960014282 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 395960014283 Cl binding site [ion binding]; other site 395960014284 oligomer interface [polypeptide binding]; other site 395960014285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395960014286 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395960014287 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 395960014288 putative acyl-CoA synthetase; Provisional; Region: PRK06018 395960014289 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 395960014290 dimer interface [polypeptide binding]; other site 395960014291 acyl-activating enzyme (AAE) consensus motif; other site 395960014292 putative active site [active] 395960014293 AMP binding site [chemical binding]; other site 395960014294 putative CoA binding site [chemical binding]; other site 395960014295 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 395960014296 putative active site [active] 395960014297 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 395960014298 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 395960014299 Heavy-metal resistance; Region: Metal_resist; pfam13801 395960014300 RNA polymerase sigma factor; Reviewed; Region: PRK05602 395960014301 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960014302 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 395960014303 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 395960014304 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 395960014305 dimerization interface [polypeptide binding]; other site 395960014306 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960014307 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960014308 dimer interface [polypeptide binding]; other site 395960014309 putative CheW interface [polypeptide binding]; other site 395960014310 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 395960014311 tyrosine decarboxylase; Region: PLN02880 395960014312 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 395960014313 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960014314 catalytic residue [active] 395960014315 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 395960014316 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395960014317 putative active site [active] 395960014318 metal binding site [ion binding]; metal-binding site 395960014319 homodimer binding site [polypeptide binding]; other site 395960014320 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 395960014321 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 395960014322 active site 395960014323 catalytic residue [active] 395960014324 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 395960014325 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 395960014326 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 395960014327 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 395960014328 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 395960014329 Cytochrome c; Region: Cytochrom_C; cl11414 395960014330 Sulphur transport; Region: Sulf_transp; pfam04143 395960014331 Cytochrome c; Region: Cytochrom_C; pfam00034 395960014332 bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a...; Region: bact_SoxC_Moco; cd02113 395960014333 Moco binding site; other site 395960014334 metal coordination site [ion binding]; other site 395960014335 dimerization interface [polypeptide binding]; other site 395960014336 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 395960014337 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 395960014338 active site 395960014339 metal binding site [ion binding]; metal-binding site 395960014340 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 395960014341 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 395960014342 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 395960014343 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 395960014344 Cytochrome c [Energy production and conversion]; Region: COG3258 395960014345 Cytochrome c; Region: Cytochrom_C; pfam00034 395960014346 Domain of unknown function (DUF336); Region: DUF336; cl01249 395960014347 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 395960014348 catalytic residues [active] 395960014349 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 395960014350 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395960014351 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395960014352 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 395960014353 dimerization interface [polypeptide binding]; other site 395960014354 putative DNA binding site [nucleotide binding]; other site 395960014355 putative Zn2+ binding site [ion binding]; other site 395960014356 Sulphur transport; Region: Sulf_transp; pfam04143 395960014357 Sulphur transport; Region: Sulf_transp; pfam04143 395960014358 DsrE/DsrF-like family; Region: DrsE; pfam02635 395960014359 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 395960014360 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395960014361 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395960014362 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 395960014363 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960014364 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960014365 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960014366 dimer interface [polypeptide binding]; other site 395960014367 putative CheW interface [polypeptide binding]; other site 395960014368 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 395960014369 PAS fold; Region: PAS_3; pfam08447 395960014370 putative active site [active] 395960014371 heme pocket [chemical binding]; other site 395960014372 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960014373 dimer interface [polypeptide binding]; other site 395960014374 putative CheW interface [polypeptide binding]; other site 395960014375 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 395960014376 PAS fold; Region: PAS_3; pfam08447 395960014377 putative active site [active] 395960014378 heme pocket [chemical binding]; other site 395960014379 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 395960014380 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395960014381 minor groove reading motif; other site 395960014382 helix-hairpin-helix signature motif; other site 395960014383 substrate binding pocket [chemical binding]; other site 395960014384 active site 395960014385 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 395960014386 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 395960014387 DNA binding and oxoG recognition site [nucleotide binding] 395960014388 Protein of unknown function (DUF721); Region: DUF721; cl02324 395960014389 Thioredoxin; Region: Thioredoxin_4; pfam13462 395960014390 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 395960014391 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395960014392 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 395960014393 Walker A/P-loop; other site 395960014394 ATP binding site [chemical binding]; other site 395960014395 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 395960014396 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 395960014397 ABC transporter signature motif; other site 395960014398 Walker B; other site 395960014399 D-loop; other site 395960014400 H-loop/switch region; other site 395960014401 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 395960014402 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 395960014403 Peptidase family M48; Region: Peptidase_M48; cl12018 395960014404 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 395960014405 Transposase domain (DUF772); Region: DUF772; pfam05598 395960014406 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 395960014407 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395960014408 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395960014409 active site 395960014410 anthranilate synthase; Provisional; Region: PRK13566 395960014411 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 395960014412 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 395960014413 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 395960014414 glutamine binding [chemical binding]; other site 395960014415 catalytic triad [active] 395960014416 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 395960014417 PhnA protein; Region: PhnA; pfam03831 395960014418 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 395960014419 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 395960014420 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 395960014421 acyl-activating enzyme (AAE) consensus motif; other site 395960014422 putative AMP binding site [chemical binding]; other site 395960014423 putative active site [active] 395960014424 putative CoA binding site [chemical binding]; other site 395960014425 TPR repeat; Region: TPR_11; pfam13414 395960014426 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 395960014427 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395960014428 classical (c) SDRs; Region: SDR_c; cd05233 395960014429 NAD(P) binding site [chemical binding]; other site 395960014430 active site 395960014431 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 395960014432 Radical SAM superfamily; Region: Radical_SAM; pfam04055 395960014433 FeS/SAM binding site; other site 395960014434 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 395960014435 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 395960014436 DctM-like transporters; Region: DctM; pfam06808 395960014437 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 395960014438 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 395960014439 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395960014440 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960014441 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 395960014442 active site 395960014443 phosphorylation site [posttranslational modification] 395960014444 intermolecular recognition site; other site 395960014445 dimerization interface [polypeptide binding]; other site 395960014446 PAS fold; Region: PAS; pfam00989 395960014447 hypothetical protein; Provisional; Region: PRK13559 395960014448 HWE histidine kinase; Region: HWE_HK; smart00911 395960014449 PhoD-like phosphatase; Region: PhoD; pfam09423 395960014450 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 395960014451 putative active site [active] 395960014452 putative metal binding site [ion binding]; other site 395960014453 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 395960014454 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 395960014455 Response regulator receiver domain; Region: Response_reg; pfam00072 395960014456 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 395960014457 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 395960014458 putative active site [active] 395960014459 putative CoA binding site [chemical binding]; other site 395960014460 nudix motif; other site 395960014461 metal binding site [ion binding]; metal-binding site 395960014462 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 395960014463 CoenzymeA binding site [chemical binding]; other site 395960014464 subunit interaction site [polypeptide binding]; other site 395960014465 PHB binding site; other site 395960014466 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395960014467 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 395960014468 motif II; other site 395960014469 Response regulator receiver domain; Region: Response_reg; pfam00072 395960014470 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 395960014471 active site 395960014472 phosphorylation site [posttranslational modification] 395960014473 intermolecular recognition site; other site 395960014474 dimerization interface [polypeptide binding]; other site 395960014475 zinc-binding protein; Provisional; Region: PRK01343 395960014476 Maf-like protein; Region: Maf; pfam02545 395960014477 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 395960014478 active site 395960014479 dimer interface [polypeptide binding]; other site 395960014480 Predicted ATPase [General function prediction only]; Region: COG4637 395960014481 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960014482 Walker A/P-loop; other site 395960014483 ATP binding site [chemical binding]; other site 395960014484 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395960014485 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 395960014486 active site 395960014487 hypothetical protein; Provisional; Region: PRK02853 395960014488 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 395960014489 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 395960014490 NAD binding site [chemical binding]; other site 395960014491 dimerization interface [polypeptide binding]; other site 395960014492 product binding site; other site 395960014493 substrate binding site [chemical binding]; other site 395960014494 zinc binding site [ion binding]; other site 395960014495 catalytic residues [active] 395960014496 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 395960014497 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 395960014498 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 395960014499 hinge; other site 395960014500 active site 395960014501 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 395960014502 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395960014503 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 395960014504 ligand binding site [chemical binding]; other site 395960014505 flexible hinge region; other site 395960014506 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 395960014507 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395960014508 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395960014509 SnoaL-like domain; Region: SnoaL_2; pfam12680 395960014510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 395960014511 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 395960014512 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 395960014513 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 395960014514 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960014515 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960014516 active site 395960014517 DctM-like transporters; Region: DctM; pfam06808 395960014518 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 395960014519 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 395960014520 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 395960014521 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 395960014522 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395960014523 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395960014524 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 395960014525 putative active site [active] 395960014526 putative catalytic site [active] 395960014527 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 395960014528 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 395960014529 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395960014530 Bacterial transcriptional regulator; Region: IclR; pfam01614 395960014531 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 395960014532 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 395960014533 active site 395960014534 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 395960014535 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 395960014536 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 395960014537 Staphylococcal nuclease homologues; Region: SNc; smart00318 395960014538 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 395960014539 Catalytic site; other site 395960014540 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 395960014541 CoenzymeA binding site [chemical binding]; other site 395960014542 subunit interaction site [polypeptide binding]; other site 395960014543 PHB binding site; other site 395960014544 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 395960014545 CoenzymeA binding site [chemical binding]; other site 395960014546 subunit interaction site [polypeptide binding]; other site 395960014547 PHB binding site; other site 395960014548 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395960014549 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395960014550 metal binding site [ion binding]; metal-binding site 395960014551 active site 395960014552 I-site; other site 395960014553 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 395960014554 propionate/acetate kinase; Provisional; Region: PRK12379 395960014555 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 395960014556 (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. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 395960014557 dimer interaction site [polypeptide binding]; other site 395960014558 substrate-binding tunnel; other site 395960014559 active site 395960014560 catalytic site [active] 395960014561 substrate binding site [chemical binding]; other site 395960014562 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 395960014563 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 395960014564 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 395960014565 NAD binding site [chemical binding]; other site 395960014566 homotetramer interface [polypeptide binding]; other site 395960014567 homodimer interface [polypeptide binding]; other site 395960014568 substrate binding site [chemical binding]; other site 395960014569 active site 395960014570 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 395960014571 BA14K-like protein; Region: BA14K; pfam07886 395960014572 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395960014573 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395960014574 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 395960014575 protein binding site [polypeptide binding]; other site 395960014576 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 395960014577 protein binding site [polypeptide binding]; other site 395960014578 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 395960014579 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 395960014580 Walker A/P-loop; other site 395960014581 ATP binding site [chemical binding]; other site 395960014582 Q-loop/lid; other site 395960014583 ABC transporter signature motif; other site 395960014584 Walker B; other site 395960014585 D-loop; other site 395960014586 H-loop/switch region; other site 395960014587 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 395960014588 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395960014589 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395960014590 TM-ABC transporter signature motif; other site 395960014591 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 395960014592 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 395960014593 TM-ABC transporter signature motif; other site 395960014594 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 395960014595 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 395960014596 putative ligand binding site [chemical binding]; other site 395960014597 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 395960014598 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395960014599 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 395960014600 protein binding site [polypeptide binding]; other site 395960014601 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 395960014602 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 395960014603 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 395960014604 NAD binding site [chemical binding]; other site 395960014605 homodimer interface [polypeptide binding]; other site 395960014606 active site 395960014607 substrate binding site [chemical binding]; other site 395960014608 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 395960014609 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 395960014610 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 395960014611 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 395960014612 Chain length determinant protein; Region: Wzz; cl15801 395960014613 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 395960014614 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 395960014615 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395960014616 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 395960014617 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 395960014618 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 395960014619 homoserine O-succinyltransferase; Provisional; Region: PRK05368 395960014620 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395960014621 conserved cys residue [active] 395960014622 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 395960014623 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 395960014624 homodimer interface [polypeptide binding]; other site 395960014625 substrate-cofactor binding pocket; other site 395960014626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960014627 catalytic residue [active] 395960014628 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 395960014629 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 395960014630 acyl-activating enzyme (AAE) consensus motif; other site 395960014631 putative AMP binding site [chemical binding]; other site 395960014632 putative active site [active] 395960014633 putative CoA binding site [chemical binding]; other site 395960014634 aminotransferase; Provisional; Region: PRK13356 395960014635 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 395960014636 homodimer interface [polypeptide binding]; other site 395960014637 substrate-cofactor binding pocket; other site 395960014638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960014639 catalytic residue [active] 395960014640 Phosphopantetheine attachment site; Region: PP-binding; cl09936 395960014641 AMP-binding enzyme; Region: AMP-binding; pfam00501 395960014642 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960014643 acyl-activating enzyme (AAE) consensus motif; other site 395960014644 AMP binding site [chemical binding]; other site 395960014645 active site 395960014646 CoA binding site [chemical binding]; other site 395960014647 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395960014648 classical (c) SDRs; Region: SDR_c; cd05233 395960014649 NAD(P) binding site [chemical binding]; other site 395960014650 active site 395960014651 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 395960014652 dimer interface [polypeptide binding]; other site 395960014653 motif 1; other site 395960014654 active site 395960014655 motif 2; other site 395960014656 motif 3; other site 395960014657 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395960014658 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 395960014659 acyl carrier protein; Provisional; Region: PRK07081 395960014660 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 395960014661 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 395960014662 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 395960014663 oxidoreductase; Provisional; Region: PRK10015 395960014664 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 395960014665 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 395960014666 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 395960014667 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 395960014668 Ligand binding site [chemical binding]; other site 395960014669 Electron transfer flavoprotein domain; Region: ETF; pfam01012 395960014670 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK00810 395960014671 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 395960014672 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 395960014673 active site 395960014674 catalytic residues [active] 395960014675 metal binding site [ion binding]; metal-binding site 395960014676 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 395960014677 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 395960014678 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395960014679 catalytic residue [active] 395960014680 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 395960014681 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 395960014682 active site 395960014683 trimerization site [polypeptide binding]; other site 395960014684 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 395960014685 NifU-like domain; Region: NifU; pfam01106 395960014686 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 395960014687 NifQ; Region: NifQ; pfam04891 395960014688 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 395960014689 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 395960014690 Rop-like; Region: Rop-like; pfam05082 395960014691 probable nitrogen fixation protein; Region: TIGR02935 395960014692 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 395960014693 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 395960014694 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 395960014695 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 395960014696 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 395960014697 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 395960014698 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 395960014699 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 395960014700 MoFe protein beta/alpha subunit interactions; other site 395960014701 Beta subunit P cluster binding residues; other site 395960014702 MoFe protein beta subunit/Fe protein contacts; other site 395960014703 MoFe protein dimer/ dimer interactions; other site 395960014704 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 395960014705 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 395960014706 MoFe protein alpha/beta subunit interactions; other site 395960014707 Alpha subunit P cluster binding residues; other site 395960014708 FeMoco binding residues [chemical binding]; other site 395960014709 MoFe protein alpha subunit/Fe protein contacts; other site 395960014710 MoFe protein dimer/ dimer interactions; other site 395960014711 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 395960014712 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 395960014713 Nucleotide-binding sites [chemical binding]; other site 395960014714 Walker A motif; other site 395960014715 Switch I region of nucleotide binding site; other site 395960014716 Fe4S4 binding sites [ion binding]; other site 395960014717 Switch II region of nucleotide binding site; other site 395960014718 SIR2-like domain; Region: SIR2_2; pfam13289 395960014719 NifT/FixU protein; Region: NifT; pfam06988 395960014720 NifZ domain; Region: NifZ; pfam04319 395960014721 NifZ domain; Region: NifZ; pfam04319 395960014722 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 395960014723 HEAT repeats; Region: HEAT_2; pfam13646 395960014724 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; pfam01521 395960014725 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 395960014726 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 395960014727 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 395960014728 FeS/SAM binding site; other site 395960014729 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 395960014730 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 395960014731 Nif-specific regulatory protein; Region: nifA; TIGR01817 395960014732 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 395960014733 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 395960014734 Walker A motif; other site 395960014735 ATP binding site [chemical binding]; other site 395960014736 Walker B motif; other site 395960014737 arginine finger; other site 395960014738 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395960014739 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395960014740 classical (c) SDRs; Region: SDR_c; cd05233 395960014741 NAD(P) binding site [chemical binding]; other site 395960014742 active site 395960014743 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 395960014744 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 395960014745 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 395960014746 G1 box; other site 395960014747 GTP/Mg2+ binding site [chemical binding]; other site 395960014748 Switch I region; other site 395960014749 G2 box; other site 395960014750 G3 box; other site 395960014751 Switch II region; other site 395960014752 G4 box; other site 395960014753 G5 box; other site 395960014754 Nucleoside recognition; Region: Gate; pfam07670 395960014755 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 395960014756 Nucleoside recognition; Region: Gate; pfam07670 395960014757 FeoA domain; Region: FeoA; cl00838 395960014758 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395960014759 HAMP domain; Region: HAMP; pfam00672 395960014760 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960014761 dimer interface [polypeptide binding]; other site 395960014762 putative CheW interface [polypeptide binding]; other site 395960014763 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395960014764 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395960014765 HAMP domain; Region: HAMP; pfam00672 395960014766 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960014767 dimer interface [polypeptide binding]; other site 395960014768 putative CheW interface [polypeptide binding]; other site 395960014769 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 395960014770 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 395960014771 dimer interface [polypeptide binding]; other site 395960014772 active site 395960014773 catalytic residue [active] 395960014774 metal binding site [ion binding]; metal-binding site 395960014775 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 395960014776 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 395960014777 intersubunit interface [polypeptide binding]; other site 395960014778 active site 395960014779 zinc binding site [ion binding]; other site 395960014780 Na+ binding site [ion binding]; other site 395960014781 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 395960014782 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 395960014783 TPP-binding site [chemical binding]; other site 395960014784 dimer interface [polypeptide binding]; other site 395960014785 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 395960014786 PYR/PP interface [polypeptide binding]; other site 395960014787 dimer interface [polypeptide binding]; other site 395960014788 TPP binding site [chemical binding]; other site 395960014789 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395960014790 phosphoribulokinase; Provisional; Region: PRK15453 395960014791 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 395960014792 metal binding site [ion binding]; metal-binding site 395960014793 active site 395960014794 Esterase/lipase [General function prediction only]; Region: COG1647 395960014795 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395960014796 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 395960014797 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395960014798 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395960014799 Bacterial transcriptional regulator; Region: IclR; pfam01614 395960014800 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395960014801 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395960014802 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 395960014803 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 395960014804 dimer interface [polypeptide binding]; other site 395960014805 conserved gate region; other site 395960014806 putative PBP binding loops; other site 395960014807 ABC-ATPase subunit interface; other site 395960014808 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395960014809 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 395960014810 putative PBP binding loops; other site 395960014811 ABC-ATPase subunit interface; other site 395960014812 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 395960014813 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395960014814 Walker A/P-loop; other site 395960014815 ATP binding site [chemical binding]; other site 395960014816 Q-loop/lid; other site 395960014817 ABC transporter signature motif; other site 395960014818 Walker B; other site 395960014819 D-loop; other site 395960014820 H-loop/switch region; other site 395960014821 TOBE domain; Region: TOBE_2; pfam08402 395960014822 Coenzyme A transferase; Region: CoA_trans; smart00882 395960014823 Coenzyme A transferase; Region: CoA_trans; smart00882 395960014824 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 395960014825 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 395960014826 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 395960014827 intersubunit interface [polypeptide binding]; other site 395960014828 active site 395960014829 Zn2+ binding site [ion binding]; other site 395960014830 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 395960014831 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395960014832 substrate binding site [chemical binding]; other site 395960014833 ATP binding site [chemical binding]; other site 395960014834 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395960014835 classical (c) SDRs; Region: SDR_c; cd05233 395960014836 NAD(P) binding site [chemical binding]; other site 395960014837 active site 395960014838 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 395960014839 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 395960014840 NADP binding site [chemical binding]; other site 395960014841 dimer interface [polypeptide binding]; other site 395960014842 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395960014843 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395960014844 Coenzyme A binding pocket [chemical binding]; other site 395960014845 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 395960014846 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 395960014847 active site 395960014848 homotetramer interface [polypeptide binding]; other site 395960014849 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 395960014850 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 395960014851 benzoate transport; Region: 2A0115; TIGR00895 395960014852 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 395960014853 putative substrate translocation pore; other site 395960014854 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 395960014855 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 395960014856 dimerization interface [polypeptide binding]; other site 395960014857 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960014858 dimer interface [polypeptide binding]; other site 395960014859 putative CheW interface [polypeptide binding]; other site 395960014860 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 395960014861 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395960014862 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960014863 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395960014864 2-isopropylmalate synthase; Validated; Region: PRK03739 395960014865 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 395960014866 active site 395960014867 catalytic residues [active] 395960014868 metal binding site [ion binding]; metal-binding site 395960014869 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 395960014870 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 395960014871 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 395960014872 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395960014873 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395960014874 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395960014875 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395960014876 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 395960014877 FAD binding domain; Region: FAD_binding_4; pfam01565 395960014878 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 395960014879 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395960014880 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395960014881 fumarylacetoacetase; Region: PLN02856 395960014882 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 395960014883 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395960014884 maleylacetoacetate isomerase; Region: maiA; TIGR01262 395960014885 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 395960014886 C-terminal domain interface [polypeptide binding]; other site 395960014887 GSH binding site (G-site) [chemical binding]; other site 395960014888 putative dimer interface [polypeptide binding]; other site 395960014889 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 395960014890 dimer interface [polypeptide binding]; other site 395960014891 N-terminal domain interface [polypeptide binding]; other site 395960014892 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 395960014893 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 395960014894 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395960014895 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 395960014896 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 395960014897 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395960014898 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395960014899 MarR family; Region: MarR_2; pfam12802 395960014900 MarR family; Region: MarR_2; cl17246 395960014901 Caspase domain; Region: Peptidase_C14; pfam00656 395960014902 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 395960014903 binding surface 395960014904 TPR repeat; Region: TPR_11; pfam13414 395960014905 TPR motif; other site 395960014906 TPR repeat; Region: TPR_11; pfam13414 395960014907 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395960014908 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395960014909 ligand binding site [chemical binding]; other site 395960014910 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 395960014911 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 395960014912 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960014913 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395960014914 Protein export membrane protein; Region: SecD_SecF; cl14618 395960014915 AsmA family; Region: AsmA; pfam05170 395960014916 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 395960014917 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 395960014918 HlyD family secretion protein; Region: HlyD_3; pfam13437 395960014919 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 395960014920 HAMP domain; Region: HAMP; pfam00672 395960014921 dimerization interface [polypeptide binding]; other site 395960014922 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395960014923 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960014924 dimer interface [polypeptide binding]; other site 395960014925 putative CheW interface [polypeptide binding]; other site 395960014926 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 395960014927 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395960014928 active site 395960014929 nucleotide binding site [chemical binding]; other site 395960014930 HIGH motif; other site 395960014931 KMSKS motif; other site 395960014932 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 395960014933 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395960014934 substrate binding pocket [chemical binding]; other site 395960014935 membrane-bound complex binding site; other site 395960014936 hinge residues; other site 395960014937 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 395960014938 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395960014939 active site 395960014940 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 395960014941 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395960014942 Cu(I) binding site [ion binding]; other site 395960014943 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395960014944 HAMP domain; Region: HAMP; pfam00672 395960014945 dimerization interface [polypeptide binding]; other site 395960014946 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395960014947 dimer interface [polypeptide binding]; other site 395960014948 putative CheW interface [polypeptide binding]; other site 395960014949 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 395960014950 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 395960014951 active site 395960014952 FMN binding site [chemical binding]; other site 395960014953 substrate binding site [chemical binding]; other site 395960014954 homotetramer interface [polypeptide binding]; other site 395960014955 catalytic residue [active] 395960014956 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 395960014957 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395960014958 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960014959 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 395960014960 putative dimerization interface [polypeptide binding]; other site 395960014961 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 395960014962 Amidohydrolase; Region: Amidohydro_2; pfam04909 395960014963 hypothetical protein; Provisional; Region: PRK09262 395960014964 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395960014965 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 395960014966 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 395960014967 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 395960014968 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 395960014969 active site 395960014970 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 395960014971 tetramer interface [polypeptide binding]; other site 395960014972 dimer interface [polypeptide binding]; other site 395960014973 active site 395960014974 Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate; Region: PCA_45_Dioxygenase_B; cd07364 395960014975 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 395960014976 active site 395960014977 Fe(II) binding site [ion binding]; other site 395960014978 dimer interface [polypeptide binding]; other site 395960014979 tetramer interface [polypeptide binding]; other site 395960014980 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395960014981 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 395960014982 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 395960014983 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 395960014984 metal binding site [ion binding]; metal-binding site 395960014985 Predicted membrane protein [Function unknown]; Region: COG1238 395960014986 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 395960014987 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 395960014988 FMN binding site [chemical binding]; other site 395960014989 substrate binding site [chemical binding]; other site 395960014990 putative catalytic residue [active] 395960014991 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 395960014992 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 395960014993 active site 2 [active] 395960014994 Predicted integral membrane protein [Function unknown]; Region: COG5616 395960014995 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 395960014996 TPR motif; other site 395960014997 binding surface 395960014998 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 395960014999 TPR motif; other site 395960015000 TPR repeat; Region: TPR_11; pfam13414 395960015001 binding surface 395960015002 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395960015003 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 395960015004 binding surface 395960015005 TPR motif; other site 395960015006 Peptidase S8 family domain in Thiazoline oxidase/subtilisin-like proteases; Region: Peptidases_S8_thiazoline_oxidase_subtilisin-like_p; cd07476 395960015007 putative active site [active] 395960015008 putative catalytic triad [active] 395960015009 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 395960015010 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960015011 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 395960015012 Walker A/P-loop; other site 395960015013 ATP binding site [chemical binding]; other site 395960015014 Q-loop/lid; other site 395960015015 ABC transporter signature motif; other site 395960015016 Walker B; other site 395960015017 D-loop; other site 395960015018 H-loop/switch region; other site 395960015019 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 395960015020 dimer interface [polypeptide binding]; other site 395960015021 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395960015022 conserved gate region; other site 395960015023 putative PBP binding loops; other site 395960015024 ABC-ATPase subunit interface; other site 395960015025 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395960015026 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395960015027 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 395960015028 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 395960015029 molybdenum-pterin binding domain; Region: Mop; TIGR00638 395960015030 TOBE domain; Region: TOBE; cl01440 395960015031 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 395960015032 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 395960015033 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 395960015034 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 395960015035 dimer interface [polypeptide binding]; other site 395960015036 PYR/PP interface [polypeptide binding]; other site 395960015037 TPP binding site [chemical binding]; other site 395960015038 substrate binding site [chemical binding]; other site 395960015039 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 395960015040 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 395960015041 4Fe-4S binding domain; Region: Fer4_6; pfam12837 395960015042 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 395960015043 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 395960015044 dimer interface [polypeptide binding]; other site 395960015045 TPP-binding site [chemical binding]; other site 395960015046 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Provisional; Region: PRK12779 395960015047 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395960015048 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 395960015049 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 395960015050 FAD binding pocket [chemical binding]; other site 395960015051 FAD binding motif [chemical binding]; other site 395960015052 phosphate binding motif [ion binding]; other site 395960015053 beta-alpha-beta structure motif; other site 395960015054 NAD binding pocket [chemical binding]; other site 395960015055 Iron coordination center [ion binding]; other site 395960015056 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 395960015057 DNA polymerase I; Region: pola; TIGR00593 395960015058 active site 395960015059 metal binding site 1 [ion binding]; metal-binding site 395960015060 putative 5' ssDNA interaction site; other site 395960015061 metal binding site 3; metal-binding site 395960015062 metal binding site 2 [ion binding]; metal-binding site 395960015063 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 395960015064 putative DNA binding site [nucleotide binding]; other site 395960015065 putative metal binding site [ion binding]; other site 395960015066 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 395960015067 active site 395960015068 catalytic site [active] 395960015069 substrate binding site [chemical binding]; other site 395960015070 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 395960015071 active site 395960015072 DNA binding site [nucleotide binding] 395960015073 catalytic site [active] 395960015074 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395960015075 active site 395960015076 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 395960015077 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 395960015078 homodimer interface [polypeptide binding]; other site 395960015079 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 395960015080 active site pocket [active] 395960015081 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 395960015082 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 395960015083 agmatinase; Region: agmatinase; TIGR01230 395960015084 Arginase family; Region: Arginase; cd09989 395960015085 active site 395960015086 Mn binding site [ion binding]; other site 395960015087 oligomer interface [polypeptide binding]; other site 395960015088 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395960015089 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395960015090 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395960015091 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 395960015092 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395960015093 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395960015094 ABC transporter; Region: ABC_tran_2; pfam12848 395960015095 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395960015096 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 395960015097 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 395960015098 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 395960015099 putative active site pocket [active] 395960015100 dimerization interface [polypeptide binding]; other site 395960015101 putative catalytic residue [active] 395960015102 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 395960015103 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395960015104 putative acyl-acceptor binding pocket; other site 395960015105 Uncharacterized conserved protein [Function unknown]; Region: COG1434 395960015106 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 395960015107 putative active site [active] 395960015108 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 395960015109 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 395960015110 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 395960015111 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395960015112 Walker A/P-loop; other site 395960015113 ATP binding site [chemical binding]; other site 395960015114 Q-loop/lid; other site 395960015115 ABC transporter signature motif; other site 395960015116 Walker B; other site 395960015117 D-loop; other site 395960015118 H-loop/switch region; other site 395960015119 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 395960015120 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 395960015121 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 395960015122 Response regulator receiver domain; Region: Response_reg; pfam00072 395960015123 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 395960015124 active site 395960015125 phosphorylation site [posttranslational modification] 395960015126 intermolecular recognition site; other site 395960015127 dimerization interface [polypeptide binding]; other site 395960015128 TIGR02302 family protein; Region: aProt_lowcomp 395960015129 Pex19 protein family; Region: Pex19; pfam04614 395960015130 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395960015131 diaminopimelate decarboxylase; Region: lysA; TIGR01048 395960015132 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 395960015133 active site 395960015134 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395960015135 substrate binding site [chemical binding]; other site 395960015136 catalytic residues [active] 395960015137 dimer interface [polypeptide binding]; other site 395960015138 argininosuccinate lyase; Provisional; Region: PRK00855 395960015139 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 395960015140 active sites [active] 395960015141 tetramer interface [polypeptide binding]; other site 395960015142 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 395960015143 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395960015144 catalytic residues [active] 395960015145 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 395960015146 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395960015147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395960015148 LysR family transcriptional regulator; Provisional; Region: PRK14997 395960015149 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 395960015150 putative effector binding pocket; other site 395960015151 dimerization interface [polypeptide binding]; other site 395960015152 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 395960015153 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 395960015154 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395960015155 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 395960015156 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 395960015157 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 395960015158 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 395960015159 Ligand binding site [chemical binding]; other site 395960015160 Electron transfer flavoprotein domain; Region: ETF; pfam01012 395960015161 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 395960015162 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 395960015163 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 395960015164 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 395960015165 dimer interface [polypeptide binding]; other site 395960015166 phosphorylation site [posttranslational modification] 395960015167 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 395960015168 ATP binding site [chemical binding]; other site 395960015169 Mg2+ binding site [ion binding]; other site 395960015170 G-X-G motif; other site 395960015171 Response regulator receiver domain; Region: Response_reg; pfam00072 395960015172 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 395960015173 active site 395960015174 phosphorylation site [posttranslational modification] 395960015175 intermolecular recognition site; other site 395960015176 dimerization interface [polypeptide binding]; other site 395960015177 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 395960015178 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 395960015179 active site 395960015180 HIGH motif; other site 395960015181 nucleotide binding site [chemical binding]; other site 395960015182 active site 395960015183 KMSKS motif; other site 395960015184 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 395960015185 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395960015186 minor groove reading motif; other site 395960015187 helix-hairpin-helix signature motif; other site 395960015188 active site 395960015189 nickel responsive regulator; Provisional; Region: PRK02967 395960015190 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 395960015191 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 395960015192 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 395960015193 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 395960015194 PRC-barrel domain; Region: PRC; pfam05239 395960015195 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu_like; cd11331 395960015196 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 395960015197 active site 395960015198 catalytic site [active] 395960015199 polyadenylate binding protein, human types 1, 2, 3, 4 family; Region: PABP-1234; TIGR01628 395960015200 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 395960015201 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 395960015202 DNA binding site [nucleotide binding] 395960015203 active site 395960015204 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_3; cd13148 395960015205 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 395960015206 metallophosphoesterase, RPA4764 family; Region: RPA4764; TIGR03768 395960015207 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 395960015208 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 395960015209 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 395960015210 trimer interface [polypeptide binding]; other site 395960015211 active site 395960015212 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 395960015213 trimer interface [polypeptide binding]; other site 395960015214 active site 395960015215 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 395960015216 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 395960015217 homodimer interface [polypeptide binding]; other site 395960015218 substrate-cofactor binding pocket; other site 395960015219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960015220 catalytic residue [active] 395960015221 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 395960015222 active site 395960015223 oxyanion hole [active] 395960015224 catalytic triad [active] 395960015225 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 395960015226 active site 395960015227 oxyanion hole [active] 395960015228 OpgC protein; Region: OpgC_C; pfam10129 395960015229 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 395960015230 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 395960015231 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 395960015232 dimerization interface [polypeptide binding]; other site 395960015233 domain crossover interface; other site 395960015234 redox-dependent activation switch; other site 395960015235 ornithine carbamoyltransferase; Provisional; Region: PRK00779 395960015236 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395960015237 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 395960015238 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 395960015239 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 395960015240 inhibitor-cofactor binding pocket; inhibition site 395960015241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395960015242 catalytic residue [active] 395960015243 GcrA cell cycle regulator; Region: GcrA; pfam07750 395960015244 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 395960015245 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 395960015246 active site 395960015247 phosphorylation site [posttranslational modification] 395960015248 intermolecular recognition site; other site 395960015249 dimerization interface [polypeptide binding]; other site 395960015250 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 395960015251 DNA binding site [nucleotide binding] 395960015252 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 395960015253 PhoU domain; Region: PhoU; pfam01895 395960015254 PhoU domain; Region: PhoU; pfam01895 395960015255 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 395960015256 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 395960015257 Walker A/P-loop; other site 395960015258 ATP binding site [chemical binding]; other site 395960015259 Q-loop/lid; other site 395960015260 ABC transporter signature motif; other site 395960015261 Walker B; other site 395960015262 D-loop; other site 395960015263 H-loop/switch region; other site 395960015264 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 395960015265 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 395960015266 dimer interface [polypeptide binding]; other site 395960015267 conserved gate region; other site 395960015268 putative PBP binding loops; other site 395960015269 ABC-ATPase subunit interface; other site 395960015270 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 395960015271 dimer interface [polypeptide binding]; other site 395960015272 conserved gate region; other site 395960015273 putative PBP binding loops; other site 395960015274 ABC-ATPase subunit interface; other site 395960015275 PBP superfamily domain; Region: PBP_like_2; cl17296 395960015276 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395960015277 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 395960015278 dimer interface [polypeptide binding]; other site 395960015279 phosphorylation site [posttranslational modification] 395960015280 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 395960015281 ATP binding site [chemical binding]; other site 395960015282 Mg2+ binding site [ion binding]; other site 395960015283 G-X-G motif; other site 395960015284 Predicted integral membrane protein [Function unknown]; Region: COG0392 395960015285 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395960015286 ligand binding site [chemical binding]; other site 395960015287 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395960015288 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 395960015289 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 395960015290 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 395960015291 putative active site [active] 395960015292 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 395960015293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395960015294 NAD(P) binding site [chemical binding]; other site 395960015295 active site 395960015296 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 395960015297 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 395960015298 non-specific DNA binding site [nucleotide binding]; other site 395960015299 salt bridge; other site 395960015300 sequence-specific DNA binding site [nucleotide binding]; other site 395960015301 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 395960015302 ADP binding site [chemical binding]; other site 395960015303 magnesium binding site [ion binding]; other site 395960015304 putative shikimate binding site; other site 395960015305 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395960015306 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395960015307 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960015308 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 395960015309 dimerization interface [polypeptide binding]; other site 395960015310 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 395960015311 ATP binding site [chemical binding]; other site 395960015312 Mg2+ binding site [ion binding]; other site 395960015313 G-X-G motif; other site 395960015314 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395960015315 cheY-homologous receiver domain; Region: REC; smart00448 395960015316 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 395960015317 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960015318 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 395960015319 dimer interface [polypeptide binding]; other site 395960015320 phosphorylation site [posttranslational modification] 395960015321 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 395960015322 ATP binding site [chemical binding]; other site 395960015323 Mg2+ binding site [ion binding]; other site 395960015324 G-X-G motif; other site 395960015325 osmolarity response regulator; Provisional; Region: ompR; PRK09468 395960015326 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 395960015327 active site 395960015328 phosphorylation site [posttranslational modification] 395960015329 intermolecular recognition site; other site 395960015330 dimerization interface [polypeptide binding]; other site 395960015331 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 395960015332 DNA binding site [nucleotide binding] 395960015333 RNA polymerase sigma factor; Provisional; Region: PRK12515 395960015334 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395960015335 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 395960015336 DNA binding residues [nucleotide binding] 395960015337 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 395960015338 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 395960015339 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 395960015340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395960015341 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395960015342 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 395960015343 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 395960015344 substrate binding pocket [chemical binding]; other site 395960015345 membrane-bound complex binding site; other site 395960015346 hinge residues; other site 395960015347 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 395960015348 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 395960015349 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 395960015350 active site 395960015351 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 395960015352 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395960015353 active site 395960015354 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 395960015355 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 395960015356 putative substrate translocation pore; other site 395960015357 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 395960015358 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 395960015359 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395960015360 putative substrate translocation pore; other site 395960015361 Protein of unknown function (DUF938); Region: DUF938; pfam06080 395960015362 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 395960015363 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 395960015364 N-terminal plug; other site 395960015365 ligand-binding site [chemical binding]; other site 395960015366 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 395960015367 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960015368 putative ligand binding site [chemical binding]; other site 395960015369 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 395960015370 D-galactonate transporter; Region: 2A0114; TIGR00893 395960015371 putative substrate translocation pore; other site 395960015372 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395960015373 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395960015374 Walker A/P-loop; other site 395960015375 ATP binding site [chemical binding]; other site 395960015376 Q-loop/lid; other site 395960015377 ABC transporter signature motif; other site 395960015378 Walker B; other site 395960015379 D-loop; other site 395960015380 H-loop/switch region; other site 395960015381 FtsX-like permease family; Region: FtsX; pfam02687 395960015382 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 395960015383 MAPEG family; Region: MAPEG; pfam01124 395960015384 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395960015385 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 395960015386 putative ligand binding site [chemical binding]; other site 395960015387 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 395960015388 Omptin family; Region: Omptin; cl01886 395960015389 heat shock protein 90; Provisional; Region: PRK05218 395960015390 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 395960015391 ATP binding site [chemical binding]; other site 395960015392 Mg2+ binding site [ion binding]; other site 395960015393 G-X-G motif; other site 395960015394 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395960015395 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 395960015396 ATP binding site [chemical binding]; other site 395960015397 Mg2+ binding site [ion binding]; other site 395960015398 G-X-G motif; other site 395960015399 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395960015400 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 395960015401 active site 395960015402 phosphorylation site [posttranslational modification] 395960015403 intermolecular recognition site; other site 395960015404 dimerization interface [polypeptide binding]; other site 395960015405 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 395960015406 DNA binding site [nucleotide binding] 395960015407 Predicted membrane protein [Function unknown]; Region: COG3212 395960015408 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 395960015409 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 395960015410 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 395960015411 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 395960015412 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395960015413 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 395960015414 active site 395960015415 dimer interface [polypeptide binding]; other site 395960015416 metal binding site [ion binding]; metal-binding site 395960015417 acyl-CoA synthetase; Provisional; Region: PRK13391 395960015418 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395960015419 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395960015420 acyl-activating enzyme (AAE) consensus motif; other site 395960015421 acyl-activating enzyme (AAE) consensus motif; other site 395960015422 putative AMP binding site [chemical binding]; other site 395960015423 putative active site [active] 395960015424 putative CoA binding site [chemical binding]; other site 395960015425 EthD domain; Region: EthD; pfam07110 395960015426 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 395960015427 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395960015428 DNA binding residues [nucleotide binding] 395960015429 putative dimer interface [polypeptide binding]; other site 395960015430 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 395960015431 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 395960015432 ATP binding site [chemical binding]; other site 395960015433 putative Mg++ binding site [ion binding]; other site 395960015434 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 395960015435 nucleotide binding region [chemical binding]; other site 395960015436 ATP-binding site [chemical binding]; other site 395960015437 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 395960015438 HRDC domain; Region: HRDC; pfam00570 395960015439 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 395960015440 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 395960015441 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 395960015442 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 395960015443 acyl-activating enzyme (AAE) consensus motif; other site 395960015444 putative AMP binding site [chemical binding]; other site 395960015445 putative active site [active] 395960015446 putative CoA binding site [chemical binding]; other site 395960015447 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 395960015448 active site 395960015449 phosphorylation site [posttranslational modification] 395960015450 intermolecular recognition site; other site 395960015451 dimerization interface [polypeptide binding]; other site 395960015452 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395960015453 Zn2+ binding site [ion binding]; other site 395960015454 Mg2+ binding site [ion binding]; other site 395960015455 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395960015456 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395960015457 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395960015458 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 395960015459 SLBB domain; Region: SLBB; pfam10531 395960015460 methionine sulfoxide reductase A; Provisional; Region: PRK00058 395960015461 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239