-- dump date 20140620_032757 -- class Genbank::misc_feature -- table misc_feature_note -- id note 316058000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 316058000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 316058000003 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 316058000004 Walker A motif; other site 316058000005 ATP binding site [chemical binding]; other site 316058000006 Walker B motif; other site 316058000007 arginine finger; other site 316058000008 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 316058000009 DnaA box-binding interface [nucleotide binding]; other site 316058000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 316058000011 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 316058000012 putative DNA binding surface [nucleotide binding]; other site 316058000013 dimer interface [polypeptide binding]; other site 316058000014 beta-clamp/clamp loader binding surface; other site 316058000015 beta-clamp/translesion DNA polymerase binding surface; other site 316058000016 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 316058000017 putative active site [active] 316058000018 recombination protein F; Reviewed; Region: recF; PRK00064 316058000019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058000020 Walker A/P-loop; other site 316058000021 ATP binding site [chemical binding]; other site 316058000022 Q-loop/lid; other site 316058000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058000024 ABC transporter signature motif; other site 316058000025 Walker B; other site 316058000026 D-loop; other site 316058000027 H-loop/switch region; other site 316058000028 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 316058000029 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 316058000030 Mg2+ binding site [ion binding]; other site 316058000031 G-X-G motif; other site 316058000032 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 316058000033 anchoring element; other site 316058000034 dimer interface [polypeptide binding]; other site 316058000035 ATP binding site [chemical binding]; other site 316058000036 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 316058000037 active site 316058000038 putative metal-binding site [ion binding]; other site 316058000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 316058000040 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058000041 dimer interface [polypeptide binding]; other site 316058000042 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 316058000043 putative CheW interface [polypeptide binding]; other site 316058000044 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316058000045 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 316058000046 putative DNA binding site [nucleotide binding]; other site 316058000047 putative Zn2+ binding site [ion binding]; other site 316058000048 AsnC family; Region: AsnC_trans_reg; pfam01037 316058000049 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 316058000050 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 316058000051 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 316058000052 metal-binding site [ion binding] 316058000053 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316058000054 Soluble P-type ATPase [General function prediction only]; Region: COG4087 316058000055 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 316058000056 FixH; Region: FixH; pfam05751 316058000057 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 316058000058 4Fe-4S binding domain; Region: Fer4_5; pfam12801 316058000059 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 316058000060 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 316058000061 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 316058000062 Cytochrome c; Region: Cytochrom_C; pfam00034 316058000063 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 316058000064 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 316058000065 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 316058000066 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 316058000067 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 316058000068 Low-spin heme binding site [chemical binding]; other site 316058000069 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 316058000070 Putative water exit pathway; other site 316058000071 Binuclear center (active site) [active] 316058000072 Putative proton exit pathway; other site 316058000073 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 316058000074 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 316058000075 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 316058000076 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 316058000077 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 316058000078 putative NAD(P) binding site [chemical binding]; other site 316058000079 active site 316058000080 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 316058000081 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 316058000082 putative catalytic residue [active] 316058000083 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316058000084 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 316058000085 putative C-terminal domain interface [polypeptide binding]; other site 316058000086 putative GSH binding site (G-site) [chemical binding]; other site 316058000087 putative dimer interface [polypeptide binding]; other site 316058000088 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 316058000089 putative N-terminal domain interface [polypeptide binding]; other site 316058000090 putative dimer interface [polypeptide binding]; other site 316058000091 putative substrate binding pocket (H-site) [chemical binding]; other site 316058000092 short chain dehydrogenase; Provisional; Region: PRK08278 316058000093 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 316058000094 NAD(P) binding site [chemical binding]; other site 316058000095 homodimer interface [polypeptide binding]; other site 316058000096 active site 316058000097 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 316058000098 nitrilase; Region: PLN02798 316058000099 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 316058000100 putative active site [active] 316058000101 catalytic triad [active] 316058000102 dimer interface [polypeptide binding]; other site 316058000103 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 316058000104 GSH binding site [chemical binding]; other site 316058000105 catalytic residues [active] 316058000106 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 316058000107 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316058000108 active site 316058000109 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 316058000110 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 316058000111 active site 316058000112 8-oxo-dGMP binding site [chemical binding]; other site 316058000113 nudix motif; other site 316058000114 metal binding site [ion binding]; metal-binding site 316058000115 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 316058000116 heterotetramer interface [polypeptide binding]; other site 316058000117 active site pocket [active] 316058000118 cleavage site 316058000119 OsmC-like protein; Region: OsmC; pfam02566 316058000120 PII uridylyl-transferase; Provisional; Region: PRK05092 316058000121 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 316058000122 metal binding triad; other site 316058000123 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 316058000124 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 316058000125 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 316058000126 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 316058000127 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316058000128 MarR family; Region: MarR_2; pfam12802 316058000129 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 316058000130 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 316058000131 dimer interface [polypeptide binding]; other site 316058000132 phosphorylation site [posttranslational modification] 316058000133 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 316058000134 ATP binding site [chemical binding]; other site 316058000135 Mg2+ binding site [ion binding]; other site 316058000136 G-X-G motif; other site 316058000137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058000138 active site 316058000139 phosphorylation site [posttranslational modification] 316058000140 intermolecular recognition site; other site 316058000141 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 316058000142 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 316058000143 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 316058000144 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058000145 putative ligand binding site [chemical binding]; other site 316058000146 Transglycosylase; Region: Transgly; pfam00912 316058000147 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 316058000148 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 316058000149 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 316058000150 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 316058000151 23S rRNA binding site [nucleotide binding]; other site 316058000152 L21 binding site [polypeptide binding]; other site 316058000153 L13 binding site [polypeptide binding]; other site 316058000154 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 316058000155 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 316058000156 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 316058000157 dimer interface [polypeptide binding]; other site 316058000158 motif 1; other site 316058000159 active site 316058000160 motif 2; other site 316058000161 motif 3; other site 316058000162 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 316058000163 putative active site [active] 316058000164 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 316058000165 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 316058000166 putative tRNA-binding site [nucleotide binding]; other site 316058000167 B3/4 domain; Region: B3_4; pfam03483 316058000168 tRNA synthetase B5 domain; Region: B5; smart00874 316058000169 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 316058000170 dimer interface [polypeptide binding]; other site 316058000171 motif 1; other site 316058000172 motif 3; other site 316058000173 motif 2; other site 316058000174 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 316058000175 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 316058000176 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 316058000177 PAS fold; Region: PAS_7; pfam12860 316058000178 PAS domain S-box; Region: sensory_box; TIGR00229 316058000179 PAS domain; Region: PAS; smart00091 316058000180 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058000181 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058000182 metal binding site [ion binding]; metal-binding site 316058000183 active site 316058000184 I-site; other site 316058000185 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 316058000186 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 316058000187 Galactose binding lectin domain; Region: Gal_Lectin; pfam02140 316058000188 potassium/proton antiporter; Reviewed; Region: PRK05326 316058000189 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 316058000190 Transporter associated domain; Region: CorC_HlyC; smart01091 316058000191 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316058000192 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 316058000193 active site 316058000194 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 316058000195 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058000196 active site 316058000197 phosphorylation site [posttranslational modification] 316058000198 intermolecular recognition site; other site 316058000199 dimerization interface [polypeptide binding]; other site 316058000200 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 316058000201 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058000202 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 316058000203 dimer interface [polypeptide binding]; other site 316058000204 phosphorylation site [posttranslational modification] 316058000205 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 316058000206 ATP binding site [chemical binding]; other site 316058000207 Mg2+ binding site [ion binding]; other site 316058000208 G-X-G motif; other site 316058000209 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 316058000210 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316058000211 Walker A/P-loop; other site 316058000212 ATP binding site [chemical binding]; other site 316058000213 Q-loop/lid; other site 316058000214 ABC transporter signature motif; other site 316058000215 Walker B; other site 316058000216 D-loop; other site 316058000217 H-loop/switch region; other site 316058000218 ABC-2 type transporter; Region: ABC2_membrane; cl17235 316058000219 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316058000220 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 316058000221 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 316058000222 Protein of unknown function DUF45; Region: DUF45; pfam01863 316058000223 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 316058000224 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 316058000225 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 316058000226 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316058000227 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 316058000228 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 316058000229 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 316058000230 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316058000231 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 316058000232 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 316058000233 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 316058000234 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 316058000235 S-adenosylmethionine binding site [chemical binding]; other site 316058000236 peptide chain release factor 1; Validated; Region: prfA; PRK00591 316058000237 This domain is found in peptide chain release factors; Region: PCRF; smart00937 316058000238 RF-1 domain; Region: RF-1; pfam00472 316058000239 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 316058000240 GAF domain; Region: GAF; pfam01590 316058000241 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 316058000242 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316058000243 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316058000244 aspartate kinase; Reviewed; Region: PRK06635 316058000245 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 316058000246 putative nucleotide binding site [chemical binding]; other site 316058000247 putative catalytic residues [active] 316058000248 putative Mg ion binding site [ion binding]; other site 316058000249 putative aspartate binding site [chemical binding]; other site 316058000250 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 316058000251 putative allosteric regulatory site; other site 316058000252 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 316058000253 putative allosteric regulatory residue; other site 316058000254 Bacterial PH domain; Region: DUF304; pfam03703 316058000255 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 316058000256 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 316058000257 S-adenosylmethionine binding site [chemical binding]; other site 316058000258 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 316058000259 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 316058000260 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 316058000261 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 316058000262 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 316058000263 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 316058000264 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 316058000265 purine monophosphate binding site [chemical binding]; other site 316058000266 dimer interface [polypeptide binding]; other site 316058000267 putative catalytic residues [active] 316058000268 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 316058000269 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 316058000270 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 316058000271 NusB family; Region: NusB; pfam01029 316058000272 putative RNA binding site [nucleotide binding]; other site 316058000273 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 316058000274 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 316058000275 S-adenosylmethionine binding site [chemical binding]; other site 316058000276 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 316058000277 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 316058000278 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 316058000279 Catalytic site; other site 316058000280 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 316058000281 Alkaline phosphatase homologues; Region: alkPPc; smart00098 316058000282 active site 316058000283 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 316058000284 argininosuccinate synthase; Validated; Region: PRK05370 316058000285 argininosuccinate synthase; Provisional; Region: PRK13820 316058000286 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 316058000287 active site 316058000288 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 316058000289 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 316058000290 FeS/SAM binding site; other site 316058000291 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 316058000292 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 316058000293 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 316058000294 NAD(P) binding site [chemical binding]; other site 316058000295 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 316058000296 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058000297 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058000298 Uncharacterized conserved protein [Function unknown]; Region: COG3339 316058000299 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 316058000300 aromatic arch; other site 316058000301 DCoH dimer interaction site [polypeptide binding]; other site 316058000302 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 316058000303 DCoH tetramer interaction site [polypeptide binding]; other site 316058000304 substrate binding site [chemical binding]; other site 316058000305 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 316058000306 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 316058000307 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 316058000308 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 316058000309 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 316058000310 N-terminal plug; other site 316058000311 ligand-binding site [chemical binding]; other site 316058000312 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 316058000313 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 316058000314 G1 box; other site 316058000315 putative GEF interaction site [polypeptide binding]; other site 316058000316 GTP/Mg2+ binding site [chemical binding]; other site 316058000317 Switch I region; other site 316058000318 G2 box; other site 316058000319 G3 box; other site 316058000320 Switch II region; other site 316058000321 G4 box; other site 316058000322 G5 box; other site 316058000323 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 316058000324 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 316058000325 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316058000326 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 316058000327 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316058000328 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 316058000329 dimer interface [polypeptide binding]; other site 316058000330 substrate binding site [chemical binding]; other site 316058000331 metal binding sites [ion binding]; metal-binding site 316058000332 hypothetical protein; Provisional; Region: PRK08262 316058000333 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 316058000334 metal binding site [ion binding]; metal-binding site 316058000335 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 316058000336 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 316058000337 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 316058000338 homodimer interface [polypeptide binding]; other site 316058000339 NADP binding site [chemical binding]; other site 316058000340 substrate binding site [chemical binding]; other site 316058000341 hypothetical protein; Validated; Region: PRK01310 316058000342 YGGT family; Region: YGGT; pfam02325 316058000343 enoyl-CoA hydratase; Provisional; Region: PRK06210 316058000344 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 316058000345 substrate binding site [chemical binding]; other site 316058000346 oxyanion hole (OAH) forming residues; other site 316058000347 trimer interface [polypeptide binding]; other site 316058000348 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 316058000349 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 316058000350 catalytic triad [active] 316058000351 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 316058000352 classical (c) SDRs; Region: SDR_c; cd05233 316058000353 NAD(P) binding site [chemical binding]; other site 316058000354 active site 316058000355 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 316058000356 putative metal binding site [ion binding]; other site 316058000357 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316058000358 cyclase homology domain; Region: CHD; cd07302 316058000359 nucleotidyl binding site; other site 316058000360 metal binding site [ion binding]; metal-binding site 316058000361 dimer interface [polypeptide binding]; other site 316058000362 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316058000363 Cytochrome P450; Region: p450; cl12078 316058000364 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 316058000365 Transmembrane secretion effector; Region: MFS_3; pfam05977 316058000366 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 316058000367 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 316058000368 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 316058000369 Phasin protein; Region: Phasin_2; cl11491 316058000370 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 316058000371 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 316058000372 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058000373 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058000374 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058000375 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 316058000376 putative ligand binding site [chemical binding]; other site 316058000377 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 316058000378 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 316058000379 iron-sulfur cluster [ion binding]; other site 316058000380 [2Fe-2S] cluster binding site [ion binding]; other site 316058000381 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 316058000382 alpha subunit interface [polypeptide binding]; other site 316058000383 active site 316058000384 substrate binding site [chemical binding]; other site 316058000385 Fe binding site [ion binding]; other site 316058000386 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 316058000387 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058000388 Walker A/P-loop; other site 316058000389 ATP binding site [chemical binding]; other site 316058000390 Q-loop/lid; other site 316058000391 ABC transporter signature motif; other site 316058000392 Walker B; other site 316058000393 D-loop; other site 316058000394 H-loop/switch region; other site 316058000395 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058000396 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 316058000397 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058000398 Walker A/P-loop; other site 316058000399 ATP binding site [chemical binding]; other site 316058000400 Q-loop/lid; other site 316058000401 ABC transporter signature motif; other site 316058000402 Walker B; other site 316058000403 D-loop; other site 316058000404 H-loop/switch region; other site 316058000405 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058000406 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 316058000407 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 316058000408 dimer interface [polypeptide binding]; other site 316058000409 conserved gate region; other site 316058000410 putative PBP binding loops; other site 316058000411 ABC-ATPase subunit interface; other site 316058000412 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316058000413 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 316058000414 dimer interface [polypeptide binding]; other site 316058000415 conserved gate region; other site 316058000416 putative PBP binding loops; other site 316058000417 ABC-ATPase subunit interface; other site 316058000418 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316058000419 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 316058000420 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 316058000421 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 316058000422 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 316058000423 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 316058000424 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 316058000425 active site 316058000426 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 316058000427 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316058000428 DNA-binding site [nucleotide binding]; DNA binding site 316058000429 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 316058000430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058000431 homodimer interface [polypeptide binding]; other site 316058000432 catalytic residue [active] 316058000433 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 316058000434 Magnetospirillum NAD(P)+-dependent aldehyde dehydrogenase MSR-1-like; Region: ALDH_MGR_2402; cd07108 316058000435 NAD(P) binding site [chemical binding]; other site 316058000436 catalytic residues [active] 316058000437 catalytic residues [active] 316058000438 SnoaL-like domain; Region: SnoaL_2; pfam12680 316058000439 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 316058000440 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 316058000441 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058000442 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058000443 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 316058000444 dimerization interface [polypeptide binding]; other site 316058000445 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058000446 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_5; cd06338 316058000447 putative ligand binding site [chemical binding]; other site 316058000448 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 316058000449 TM-ABC transporter signature motif; other site 316058000450 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058000451 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 316058000452 TM-ABC transporter signature motif; other site 316058000453 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058000454 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058000455 Walker A/P-loop; other site 316058000456 ATP binding site [chemical binding]; other site 316058000457 Q-loop/lid; other site 316058000458 ABC transporter signature motif; other site 316058000459 Walker B; other site 316058000460 D-loop; other site 316058000461 H-loop/switch region; other site 316058000462 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058000463 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058000464 Walker A/P-loop; other site 316058000465 ATP binding site [chemical binding]; other site 316058000466 Q-loop/lid; other site 316058000467 ABC transporter signature motif; other site 316058000468 Walker B; other site 316058000469 D-loop; other site 316058000470 H-loop/switch region; other site 316058000471 putative L-aspartate dehydrogenase; Provisional; Region: PRK13302 316058000472 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 316058000473 Domain of unknown function DUF108; Region: DUF108; pfam01958 316058000474 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 316058000475 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316058000476 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 316058000477 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 316058000478 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 316058000479 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 316058000480 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 316058000481 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316058000482 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 316058000483 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 316058000484 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 316058000485 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 316058000486 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 316058000487 D-pathway; other site 316058000488 Putative ubiquinol binding site [chemical binding]; other site 316058000489 Low-spin heme (heme b) binding site [chemical binding]; other site 316058000490 Putative water exit pathway; other site 316058000491 Binuclear center (heme o3/CuB) [ion binding]; other site 316058000492 K-pathway; other site 316058000493 Putative proton exit pathway; other site 316058000494 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 316058000495 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 316058000496 Predicted membrane protein (DUF2231); Region: DUF2231; pfam09990 316058000497 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 316058000498 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 316058000499 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 316058000500 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 316058000501 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 316058000502 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 316058000503 N-terminal plug; other site 316058000504 ligand-binding site [chemical binding]; other site 316058000505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058000506 NADH(P)-binding; Region: NAD_binding_10; pfam13460 316058000507 NAD(P) binding site [chemical binding]; other site 316058000508 active site 316058000509 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 316058000510 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 316058000511 FeS/SAM binding site; other site 316058000512 Hemin uptake protein hemP; Region: hemP; pfam10636 316058000513 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 316058000514 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 316058000515 putative hemin binding site; other site 316058000516 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 316058000517 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 316058000518 ABC-ATPase subunit interface; other site 316058000519 dimer interface [polypeptide binding]; other site 316058000520 putative PBP binding regions; other site 316058000521 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 316058000522 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316058000523 Walker A/P-loop; other site 316058000524 ATP binding site [chemical binding]; other site 316058000525 Q-loop/lid; other site 316058000526 ABC transporter signature motif; other site 316058000527 Walker B; other site 316058000528 D-loop; other site 316058000529 H-loop/switch region; other site 316058000530 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316058000531 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 316058000532 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 316058000533 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316058000534 Walker A/P-loop; other site 316058000535 ATP binding site [chemical binding]; other site 316058000536 Q-loop/lid; other site 316058000537 ABC transporter signature motif; other site 316058000538 Walker B; other site 316058000539 D-loop; other site 316058000540 H-loop/switch region; other site 316058000541 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 316058000542 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316058000543 Walker A/P-loop; other site 316058000544 ATP binding site [chemical binding]; other site 316058000545 Q-loop/lid; other site 316058000546 ABC transporter signature motif; other site 316058000547 Walker B; other site 316058000548 D-loop; other site 316058000549 H-loop/switch region; other site 316058000550 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316058000551 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 316058000552 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316058000553 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058000554 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058000555 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 316058000556 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316058000557 active site 316058000558 metal binding site [ion binding]; metal-binding site 316058000559 hexamer interface [polypeptide binding]; other site 316058000560 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 316058000561 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316058000562 active site 316058000563 metal binding site [ion binding]; metal-binding site 316058000564 hexamer interface [polypeptide binding]; other site 316058000565 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 316058000566 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316058000567 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316058000568 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 316058000569 dimer interface [polypeptide binding]; other site 316058000570 conserved gate region; other site 316058000571 putative PBP binding loops; other site 316058000572 ABC-ATPase subunit interface; other site 316058000573 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 316058000574 dimer interface [polypeptide binding]; other site 316058000575 conserved gate region; other site 316058000576 putative PBP binding loops; other site 316058000577 ABC-ATPase subunit interface; other site 316058000578 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 316058000579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058000580 Walker A/P-loop; other site 316058000581 ATP binding site [chemical binding]; other site 316058000582 Q-loop/lid; other site 316058000583 ABC transporter signature motif; other site 316058000584 Walker B; other site 316058000585 D-loop; other site 316058000586 H-loop/switch region; other site 316058000587 TOBE domain; Region: TOBE_2; pfam08402 316058000588 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 316058000589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058000590 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 316058000591 dimerization interface [polypeptide binding]; other site 316058000592 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 316058000593 DEAD-like helicases superfamily; Region: DEXDc; smart00487 316058000594 ATP binding site [chemical binding]; other site 316058000595 putative Mg++ binding site [ion binding]; other site 316058000596 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 316058000597 nucleotide binding region [chemical binding]; other site 316058000598 ATP-binding site [chemical binding]; other site 316058000599 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 316058000600 RNA binding site [nucleotide binding]; other site 316058000601 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058000602 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316058000603 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058000604 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 316058000605 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058000606 active site 316058000607 phosphorylation site [posttranslational modification] 316058000608 intermolecular recognition site; other site 316058000609 dimerization interface [polypeptide binding]; other site 316058000610 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 316058000611 DNA binding residues [nucleotide binding] 316058000612 dimerization interface [polypeptide binding]; other site 316058000613 Response regulator receiver domain; Region: Response_reg; pfam00072 316058000614 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058000615 active site 316058000616 phosphorylation site [posttranslational modification] 316058000617 intermolecular recognition site; other site 316058000618 dimerization interface [polypeptide binding]; other site 316058000619 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 316058000620 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 316058000621 active site 316058000622 substrate binding site [chemical binding]; other site 316058000623 activation loop (A-loop); other site 316058000624 AAA ATPase domain; Region: AAA_16; pfam13191 316058000625 Predicted ATPase [General function prediction only]; Region: COG3899 316058000626 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316058000627 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316058000628 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 316058000629 dimer interface [polypeptide binding]; other site 316058000630 phosphorylation site [posttranslational modification] 316058000631 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 316058000632 ATP binding site [chemical binding]; other site 316058000633 Mg2+ binding site [ion binding]; other site 316058000634 G-X-G motif; other site 316058000635 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316058000636 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316058000637 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316058000638 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 316058000639 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 316058000640 active site 316058000641 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 316058000642 Isochorismatase family; Region: Isochorismatase; pfam00857 316058000643 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 316058000644 catalytic triad [active] 316058000645 dimer interface [polypeptide binding]; other site 316058000646 conserved cis-peptide bond; other site 316058000647 Transmembrane secretion effector; Region: MFS_3; pfam05977 316058000648 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 316058000649 putative substrate translocation pore; other site 316058000650 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 316058000651 active site 316058000652 DNA binding site [nucleotide binding] 316058000653 Int/Topo IB signature motif; other site 316058000654 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316058000655 GAF domain; Region: GAF; pfam01590 316058000656 PAS fold; Region: PAS_7; pfam12860 316058000657 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058000658 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058000659 metal binding site [ion binding]; metal-binding site 316058000660 active site 316058000661 I-site; other site 316058000662 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 316058000663 HAMP domain; Region: HAMP; pfam00672 316058000664 dimerization interface [polypeptide binding]; other site 316058000665 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058000666 dimer interface [polypeptide binding]; other site 316058000667 putative CheW interface [polypeptide binding]; other site 316058000668 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316058000669 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058000670 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316058000671 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316058000672 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316058000673 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 316058000674 Ferritin-like domain; Region: Ferritin; pfam00210 316058000675 dimerization interface [polypeptide binding]; other site 316058000676 DPS ferroxidase diiron center [ion binding]; other site 316058000677 ion pore; other site 316058000678 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 316058000679 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 316058000680 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058000681 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 316058000682 DNA binding residues [nucleotide binding] 316058000683 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 316058000684 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 316058000685 Cupin; Region: Cupin_1; smart00835 316058000686 Cupin; Region: Cupin_1; smart00835 316058000687 CrcB-like protein; Region: CRCB; cl09114 316058000688 camphor resistance protein CrcB; Provisional; Region: PRK14233 316058000689 pyruvate dehydrogenase; Provisional; Region: PRK09124 316058000690 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 316058000691 PYR/PP interface [polypeptide binding]; other site 316058000692 dimer interface [polypeptide binding]; other site 316058000693 tetramer interface [polypeptide binding]; other site 316058000694 TPP binding site [chemical binding]; other site 316058000695 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316058000696 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 316058000697 TPP-binding site [chemical binding]; other site 316058000698 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 316058000699 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 316058000700 putative molybdopterin cofactor binding site [chemical binding]; other site 316058000701 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 316058000702 putative molybdopterin cofactor binding site; other site 316058000703 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 316058000704 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 316058000705 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 316058000706 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 316058000707 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058000708 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058000709 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 316058000710 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 316058000711 putative substrate translocation pore; other site 316058000712 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; pfam02148 316058000713 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058000714 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316058000715 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058000716 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 316058000717 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058000718 active site 316058000719 phosphorylation site [posttranslational modification] 316058000720 intermolecular recognition site; other site 316058000721 dimerization interface [polypeptide binding]; other site 316058000722 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 316058000723 DNA binding residues [nucleotide binding] 316058000724 dimerization interface [polypeptide binding]; other site 316058000725 Response regulator receiver domain; Region: Response_reg; pfam00072 316058000726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058000727 active site 316058000728 phosphorylation site [posttranslational modification] 316058000729 intermolecular recognition site; other site 316058000730 dimerization interface [polypeptide binding]; other site 316058000731 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 316058000732 PAS domain; Region: PAS_9; pfam13426 316058000733 putative active site [active] 316058000734 heme pocket [chemical binding]; other site 316058000735 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 316058000736 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 316058000737 dimer interface [polypeptide binding]; other site 316058000738 phosphorylation site [posttranslational modification] 316058000739 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 316058000740 ATP binding site [chemical binding]; other site 316058000741 Mg2+ binding site [ion binding]; other site 316058000742 G-X-G motif; other site 316058000743 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316058000744 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316058000745 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 316058000746 dimer interface [polypeptide binding]; other site 316058000747 phosphorylation site [posttranslational modification] 316058000748 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 316058000749 ATP binding site [chemical binding]; other site 316058000750 Mg2+ binding site [ion binding]; other site 316058000751 G-X-G motif; other site 316058000752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 316058000753 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 316058000754 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058000755 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058000756 active site 316058000757 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 316058000758 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 316058000759 active site 316058000760 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 316058000761 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 316058000762 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 316058000763 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 316058000764 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058000765 Walker A/P-loop; other site 316058000766 ATP binding site [chemical binding]; other site 316058000767 Q-loop/lid; other site 316058000768 ABC transporter signature motif; other site 316058000769 Walker B; other site 316058000770 D-loop; other site 316058000771 H-loop/switch region; other site 316058000772 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058000773 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 316058000774 Amidase; Region: Amidase; pfam01425 316058000775 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 316058000776 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058000777 Walker A/P-loop; other site 316058000778 ATP binding site [chemical binding]; other site 316058000779 Q-loop/lid; other site 316058000780 ABC transporter signature motif; other site 316058000781 Walker B; other site 316058000782 D-loop; other site 316058000783 H-loop/switch region; other site 316058000784 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 316058000785 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 316058000786 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 316058000787 dimer interface [polypeptide binding]; other site 316058000788 conserved gate region; other site 316058000789 putative PBP binding loops; other site 316058000790 ABC-ATPase subunit interface; other site 316058000791 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316058000792 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 316058000793 dimer interface [polypeptide binding]; other site 316058000794 conserved gate region; other site 316058000795 putative PBP binding loops; other site 316058000796 ABC-ATPase subunit interface; other site 316058000797 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316058000798 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 316058000799 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 316058000800 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 316058000801 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 316058000802 active site 2 [active] 316058000803 active site 1 [active] 316058000804 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 316058000805 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316058000806 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316058000807 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 316058000808 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 316058000809 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 316058000810 carboxyltransferase (CT) interaction site; other site 316058000811 biotinylation site [posttranslational modification]; other site 316058000812 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 316058000813 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 316058000814 oxyanion hole (OAH) forming residues; other site 316058000815 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 316058000816 acyl-CoA synthetase; Validated; Region: PRK06178 316058000817 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058000818 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058000819 AMP binding site [chemical binding]; other site 316058000820 active site 316058000821 acyl-activating enzyme (AAE) consensus motif; other site 316058000822 CoA binding site [chemical binding]; other site 316058000823 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 316058000824 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 316058000825 dimer interface [polypeptide binding]; other site 316058000826 conserved gate region; other site 316058000827 ABC-ATPase subunit interface; other site 316058000828 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316058000829 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 316058000830 dimer interface [polypeptide binding]; other site 316058000831 conserved gate region; other site 316058000832 putative PBP binding loops; other site 316058000833 ABC-ATPase subunit interface; other site 316058000834 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316058000835 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 316058000836 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 316058000837 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058000838 Walker A/P-loop; other site 316058000839 ATP binding site [chemical binding]; other site 316058000840 Q-loop/lid; other site 316058000841 ABC transporter signature motif; other site 316058000842 Walker B; other site 316058000843 D-loop; other site 316058000844 H-loop/switch region; other site 316058000845 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 316058000846 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 316058000847 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058000848 Walker A/P-loop; other site 316058000849 ATP binding site [chemical binding]; other site 316058000850 Q-loop/lid; other site 316058000851 ABC transporter signature motif; other site 316058000852 Walker B; other site 316058000853 D-loop; other site 316058000854 H-loop/switch region; other site 316058000855 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058000856 Transcriptional regulators [Transcription]; Region: GntR; COG1802 316058000857 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316058000858 DNA-binding site [nucleotide binding]; DNA binding site 316058000859 FCD domain; Region: FCD; pfam07729 316058000860 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 316058000861 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058000862 active site 316058000863 phosphorylation site [posttranslational modification] 316058000864 intermolecular recognition site; other site 316058000865 dimerization interface [polypeptide binding]; other site 316058000866 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316058000867 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058000868 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 316058000869 dimer interface [polypeptide binding]; other site 316058000870 phosphorylation site [posttranslational modification] 316058000871 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 316058000872 ATP binding site [chemical binding]; other site 316058000873 Mg2+ binding site [ion binding]; other site 316058000874 G-X-G motif; other site 316058000875 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 316058000876 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 316058000877 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 316058000878 Subunit I/III interface [polypeptide binding]; other site 316058000879 Subunit III/IV interface [polypeptide binding]; other site 316058000880 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 316058000881 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 316058000882 D-pathway; other site 316058000883 Putative ubiquinol binding site [chemical binding]; other site 316058000884 Low-spin heme (heme b) binding site [chemical binding]; other site 316058000885 Putative water exit pathway; other site 316058000886 Binuclear center (heme o3/CuB) [ion binding]; other site 316058000887 K-pathway; other site 316058000888 Putative proton exit pathway; other site 316058000889 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 316058000890 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 316058000891 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 316058000892 metabolite-proton symporter; Region: 2A0106; TIGR00883 316058000893 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 316058000894 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316058000895 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316058000896 nucleotide binding site [chemical binding]; other site 316058000897 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 316058000898 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 316058000899 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 316058000900 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 316058000901 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316058000902 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316058000903 EamA-like transporter family; Region: EamA; cl17759 316058000904 GTPase CgtA; Reviewed; Region: obgE; PRK12299 316058000905 GTP1/OBG; Region: GTP1_OBG; pfam01018 316058000906 Obg GTPase; Region: Obg; cd01898 316058000907 G1 box; other site 316058000908 GTP/Mg2+ binding site [chemical binding]; other site 316058000909 Switch I region; other site 316058000910 G2 box; other site 316058000911 G3 box; other site 316058000912 Switch II region; other site 316058000913 G4 box; other site 316058000914 G5 box; other site 316058000915 gamma-glutamyl kinase; Provisional; Region: PRK05429 316058000916 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 316058000917 nucleotide binding site [chemical binding]; other site 316058000918 homotetrameric interface [polypeptide binding]; other site 316058000919 putative phosphate binding site [ion binding]; other site 316058000920 putative allosteric binding site; other site 316058000921 PUA domain; Region: PUA; pfam01472 316058000922 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 316058000923 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 316058000924 putative catalytic cysteine [active] 316058000925 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 316058000926 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 316058000927 active site 316058000928 (T/H)XGH motif; other site 316058000929 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 316058000930 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 316058000931 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 316058000932 Peptidase family M23; Region: Peptidase_M23; pfam01551 316058000933 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 316058000934 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 316058000935 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 316058000936 protein binding site [polypeptide binding]; other site 316058000937 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 316058000938 Catalytic dyad [active] 316058000939 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 316058000940 NodB motif; other site 316058000941 putative active site [active] 316058000942 putative catalytic site [active] 316058000943 Zn binding site [ion binding]; other site 316058000944 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 316058000945 putative active site [active] 316058000946 Ap4A binding site [chemical binding]; other site 316058000947 nudix motif; other site 316058000948 putative metal binding site [ion binding]; other site 316058000949 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 316058000950 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 316058000951 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 316058000952 NAD binding site [chemical binding]; other site 316058000953 putative substrate binding site 2 [chemical binding]; other site 316058000954 putative substrate binding site 1 [chemical binding]; other site 316058000955 active site 316058000956 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 316058000957 putative active site [active] 316058000958 Ap4A binding site [chemical binding]; other site 316058000959 nudix motif; other site 316058000960 putative metal binding site [ion binding]; other site 316058000961 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13448 316058000962 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 316058000963 gamma subunit interface [polypeptide binding]; other site 316058000964 LBP interface [polypeptide binding]; other site 316058000965 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 316058000966 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 316058000967 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 316058000968 alpha subunit interaction interface [polypeptide binding]; other site 316058000969 Walker A motif; other site 316058000970 ATP binding site [chemical binding]; other site 316058000971 Walker B motif; other site 316058000972 inhibitor binding site; inhibition site 316058000973 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 316058000974 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 316058000975 core domain interface [polypeptide binding]; other site 316058000976 delta subunit interface [polypeptide binding]; other site 316058000977 epsilon subunit interface [polypeptide binding]; other site 316058000978 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 316058000979 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 316058000980 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 316058000981 beta subunit interaction interface [polypeptide binding]; other site 316058000982 Walker A motif; other site 316058000983 ATP binding site [chemical binding]; other site 316058000984 Walker B motif; other site 316058000985 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 316058000986 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 316058000987 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 316058000988 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 316058000989 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 316058000990 primosome assembly protein PriA; Validated; Region: PRK05580 316058000991 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 316058000992 ATP binding site [chemical binding]; other site 316058000993 putative Mg++ binding site [ion binding]; other site 316058000994 nucleotide binding region [chemical binding]; other site 316058000995 helicase superfamily c-terminal domain; Region: HELICc; smart00490 316058000996 ATP-binding site [chemical binding]; other site 316058000997 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 316058000998 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 316058000999 active site 316058001000 DNA binding site [nucleotide binding] 316058001001 Int/Topo IB signature motif; other site 316058001002 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 316058001003 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 316058001004 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316058001005 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316058001006 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 316058001007 short chain dehydrogenase; Provisional; Region: PRK06123 316058001008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058001009 NAD(P) binding site [chemical binding]; other site 316058001010 active site 316058001011 MAPEG family; Region: MAPEG; cl09190 316058001012 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 316058001013 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 316058001014 E3 interaction surface; other site 316058001015 lipoyl attachment site [posttranslational modification]; other site 316058001016 e3 binding domain; Region: E3_binding; pfam02817 316058001017 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 316058001018 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 316058001019 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 316058001020 TPP-binding site [chemical binding]; other site 316058001021 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 316058001022 dimer interface [polypeptide binding]; other site 316058001023 PYR/PP interface [polypeptide binding]; other site 316058001024 TPP binding site [chemical binding]; other site 316058001025 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 316058001026 CoA binding domain; Region: CoA_binding; smart00881 316058001027 CoA-ligase; Region: Ligase_CoA; pfam00549 316058001028 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 316058001029 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 316058001030 CoA-ligase; Region: Ligase_CoA; pfam00549 316058001031 malate dehydrogenase; Reviewed; Region: PRK06223 316058001032 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 316058001033 NAD(P) binding site [chemical binding]; other site 316058001034 dimer interface [polypeptide binding]; other site 316058001035 tetramer (dimer of dimers) interface [polypeptide binding]; other site 316058001036 substrate binding site [chemical binding]; other site 316058001037 Predicted ATPase [General function prediction only]; Region: COG1485 316058001038 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 316058001039 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 316058001040 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 316058001041 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 316058001042 active site 316058001043 catalytic triad [active] 316058001044 oxyanion hole [active] 316058001045 switch loop; other site 316058001046 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316058001047 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 316058001048 Walker A/P-loop; other site 316058001049 ATP binding site [chemical binding]; other site 316058001050 Q-loop/lid; other site 316058001051 ABC transporter signature motif; other site 316058001052 Walker B; other site 316058001053 D-loop; other site 316058001054 H-loop/switch region; other site 316058001055 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 316058001056 FtsX-like permease family; Region: FtsX; pfam02687 316058001057 FtsX-like permease family; Region: FtsX; pfam02687 316058001058 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 316058001059 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 316058001060 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 316058001061 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316058001062 Coenzyme A binding pocket [chemical binding]; other site 316058001063 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 316058001064 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 316058001065 aconitate hydratase; Validated; Region: PRK09277 316058001066 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 316058001067 substrate binding site [chemical binding]; other site 316058001068 ligand binding site [chemical binding]; other site 316058001069 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 316058001070 substrate binding site [chemical binding]; other site 316058001071 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 316058001072 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058001073 Walker A/P-loop; other site 316058001074 ATP binding site [chemical binding]; other site 316058001075 Q-loop/lid; other site 316058001076 ABC transporter signature motif; other site 316058001077 Walker B; other site 316058001078 D-loop; other site 316058001079 H-loop/switch region; other site 316058001080 heme exporter protein CcmB; Region: ccmB; TIGR01190 316058001081 Uncharacterized conserved protein [Function unknown]; Region: COG2835 316058001082 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 316058001083 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 316058001084 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 316058001085 catalytic residues [active] 316058001086 HAMP domain; Region: HAMP; pfam00672 316058001087 dimerization interface [polypeptide binding]; other site 316058001088 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 316058001089 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 316058001090 dimer interface [polypeptide binding]; other site 316058001091 catalytic residue [active] 316058001092 metal binding site [ion binding]; metal-binding site 316058001093 Uncharacterized conserved protein [Function unknown]; Region: COG0432 316058001094 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 316058001095 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058001096 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058001097 OsmC-like protein; Region: OsmC; pfam02566 316058001098 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058001099 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058001100 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 316058001101 Rhodanese-like domain; Region: Rhodanese; pfam00581 316058001102 active site residue [active] 316058001103 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 316058001104 active site residue [active] 316058001105 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316058001106 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 316058001107 Walker A/P-loop; other site 316058001108 ATP binding site [chemical binding]; other site 316058001109 Q-loop/lid; other site 316058001110 ABC transporter signature motif; other site 316058001111 Walker B; other site 316058001112 D-loop; other site 316058001113 H-loop/switch region; other site 316058001114 NMT1-like family; Region: NMT1_2; pfam13379 316058001115 NMT1/THI5 like; Region: NMT1; pfam09084 316058001116 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058001117 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 316058001118 dimer interface [polypeptide binding]; other site 316058001119 conserved gate region; other site 316058001120 putative PBP binding loops; other site 316058001121 ABC-ATPase subunit interface; other site 316058001122 DHHW protein; Region: DHHW; pfam14286 316058001123 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 316058001124 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 316058001125 HemY protein N-terminus; Region: HemY_N; pfam07219 316058001126 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 316058001127 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 316058001128 active site 316058001129 UGMP family protein; Validated; Region: PRK09604 316058001130 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 316058001131 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 316058001132 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 316058001133 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 316058001134 EVE domain; Region: EVE; pfam01878 316058001135 Predicted methyltransferase [General function prediction only]; Region: COG3897 316058001136 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 316058001137 acetyl-CoA synthetase; Provisional; Region: PRK00174 316058001138 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 316058001139 active site 316058001140 CoA binding site [chemical binding]; other site 316058001141 acyl-activating enzyme (AAE) consensus motif; other site 316058001142 AMP binding site [chemical binding]; other site 316058001143 acetate binding site [chemical binding]; other site 316058001144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316058001145 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058001146 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 316058001147 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316058001148 ligand binding site [chemical binding]; other site 316058001149 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 316058001150 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 316058001151 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 316058001152 catalytic loop [active] 316058001153 iron binding site [ion binding]; other site 316058001154 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 316058001155 L-aspartate oxidase; Provisional; Region: PRK06175 316058001156 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 316058001157 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 316058001158 putative SdhC subunit interface [polypeptide binding]; other site 316058001159 putative proximal heme binding site [chemical binding]; other site 316058001160 putative Iron-sulfur protein interface [polypeptide binding]; other site 316058001161 putative proximal quinone binding site; other site 316058001162 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 316058001163 Iron-sulfur protein interface; other site 316058001164 proximal quinone binding site [chemical binding]; other site 316058001165 SdhD (CybS) interface [polypeptide binding]; other site 316058001166 proximal heme binding site [chemical binding]; other site 316058001167 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 316058001168 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 316058001169 malonyl-CoA synthase; Validated; Region: PRK07514 316058001170 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 316058001171 acyl-activating enzyme (AAE) consensus motif; other site 316058001172 active site 316058001173 AMP binding site [chemical binding]; other site 316058001174 CoA binding site [chemical binding]; other site 316058001175 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 316058001176 classical (c) SDRs; Region: SDR_c; cd05233 316058001177 NAD(P) binding site [chemical binding]; other site 316058001178 active site 316058001179 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 316058001180 Fasciclin domain; Region: Fasciclin; pfam02469 316058001181 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 316058001182 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 316058001183 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 316058001184 Moco binding site; other site 316058001185 metal coordination site [ion binding]; other site 316058001186 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 316058001187 tartrate dehydrogenase; Region: TTC; TIGR02089 316058001188 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 316058001189 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 316058001190 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 316058001191 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 316058001192 hypothetical protein; Provisional; Region: PRK05208 316058001193 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 316058001194 active site clefts [active] 316058001195 zinc binding site [ion binding]; other site 316058001196 dimer interface [polypeptide binding]; other site 316058001197 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 316058001198 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 316058001199 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 316058001200 substrate binding site [chemical binding]; other site 316058001201 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 316058001202 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 316058001203 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 316058001204 substrate binding site [chemical binding]; other site 316058001205 ligand binding site [chemical binding]; other site 316058001206 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 316058001207 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 316058001208 RimM N-terminal domain; Region: RimM; pfam01782 316058001209 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 316058001210 PRC-barrel domain; Region: PRC; pfam05239 316058001211 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 316058001212 signal recognition particle protein; Provisional; Region: PRK10867 316058001213 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 316058001214 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 316058001215 P loop; other site 316058001216 GTP binding site [chemical binding]; other site 316058001217 Signal peptide binding domain; Region: SRP_SPB; pfam02978 316058001218 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 316058001219 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 316058001220 putative active site [active] 316058001221 homotetrameric interface [polypeptide binding]; other site 316058001222 metal binding site [ion binding]; metal-binding site 316058001223 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 316058001224 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 316058001225 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 316058001226 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 316058001227 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 316058001228 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 316058001229 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 316058001230 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 316058001231 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 316058001232 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 316058001233 FeS/SAM binding site; other site 316058001234 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316058001235 active site 316058001236 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316058001237 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 316058001238 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 316058001239 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 316058001240 P loop; other site 316058001241 GTP binding site [chemical binding]; other site 316058001242 intracellular septation protein A; Reviewed; Region: PRK00259 316058001243 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 316058001244 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 316058001245 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 316058001246 catalytic residues [active] 316058001247 central insert; other site 316058001248 heme exporter protein CcmC; Region: ccmC; TIGR01191 316058001249 RES domain; Region: RES; smart00953 316058001250 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 316058001251 salt bridge; other site 316058001252 non-specific DNA binding site [nucleotide binding]; other site 316058001253 sequence-specific DNA binding site [nucleotide binding]; other site 316058001254 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 316058001255 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 316058001256 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316058001257 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 316058001258 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 316058001259 active site 316058001260 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 316058001261 catalytic triad [active] 316058001262 dimer interface [polypeptide binding]; other site 316058001263 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 316058001264 Nitrogen regulatory protein P-II; Region: P-II; smart00938 316058001265 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 316058001266 Nitrogen regulatory protein P-II; Region: P-II; smart00938 316058001267 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 316058001268 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 316058001269 active site 316058001270 NTP binding site [chemical binding]; other site 316058001271 metal binding triad [ion binding]; metal-binding site 316058001272 antibiotic binding site [chemical binding]; other site 316058001273 Protein of unknown function DUF86; Region: DUF86; cl01031 316058001274 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 316058001275 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 316058001276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058001277 homodimer interface [polypeptide binding]; other site 316058001278 catalytic residue [active] 316058001279 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 316058001280 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 316058001281 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 316058001282 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 316058001283 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 316058001284 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 316058001285 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 316058001286 putative catalytic site [active] 316058001287 putative phosphate binding site [ion binding]; other site 316058001288 active site 316058001289 metal binding site A [ion binding]; metal-binding site 316058001290 DNA binding site [nucleotide binding] 316058001291 putative AP binding site [nucleotide binding]; other site 316058001292 putative metal binding site B [ion binding]; other site 316058001293 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058001294 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 316058001295 ligand binding site [chemical binding]; other site 316058001296 flexible hinge region; other site 316058001297 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316058001298 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058001299 active site 316058001300 phosphorylation site [posttranslational modification] 316058001301 intermolecular recognition site; other site 316058001302 dimerization interface [polypeptide binding]; other site 316058001303 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 316058001304 DNA binding site [nucleotide binding] 316058001305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 316058001306 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 316058001307 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316058001308 catalytic residue [active] 316058001309 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 316058001310 dimerization interface [polypeptide binding]; other site 316058001311 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058001312 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058001313 metal binding site [ion binding]; metal-binding site 316058001314 active site 316058001315 I-site; other site 316058001316 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 316058001317 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 316058001318 HIGH motif; other site 316058001319 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 316058001320 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316058001321 active site 316058001322 KMSKS motif; other site 316058001323 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 316058001324 tRNA binding surface [nucleotide binding]; other site 316058001325 Lipopolysaccharide-assembly; Region: LptE; cl01125 316058001326 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 316058001327 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 316058001328 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 316058001329 ParB-like nuclease domain; Region: ParB; smart00470 316058001330 KorB domain; Region: KorB; pfam08535 316058001331 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 316058001332 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 316058001333 P-loop; other site 316058001334 Magnesium ion binding site [ion binding]; other site 316058001335 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 316058001336 Magnesium ion binding site [ion binding]; other site 316058001337 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 316058001338 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 316058001339 S-adenosylmethionine binding site [chemical binding]; other site 316058001340 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 316058001341 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 316058001342 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 316058001343 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 316058001344 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 316058001345 trmE is a tRNA modification GTPase; Region: trmE; cd04164 316058001346 G1 box; other site 316058001347 GTP/Mg2+ binding site [chemical binding]; other site 316058001348 Switch I region; other site 316058001349 G2 box; other site 316058001350 Switch II region; other site 316058001351 G3 box; other site 316058001352 G4 box; other site 316058001353 G5 box; other site 316058001354 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 316058001355 transcription termination factor Rho; Provisional; Region: rho; PRK09376 316058001356 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 316058001357 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 316058001358 RNA binding site [nucleotide binding]; other site 316058001359 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 316058001360 multimer interface [polypeptide binding]; other site 316058001361 Walker A motif; other site 316058001362 ATP binding site [chemical binding]; other site 316058001363 Walker B motif; other site 316058001364 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 316058001365 PEP synthetase regulatory protein; Provisional; Region: PRK05339 316058001366 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 316058001367 active site 316058001368 dimer interface [polypeptide binding]; other site 316058001369 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 316058001370 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 316058001371 CoA-binding site [chemical binding]; other site 316058001372 ATP-binding [chemical binding]; other site 316058001373 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 316058001374 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 316058001375 active site 316058001376 catalytic site [active] 316058001377 substrate binding site [chemical binding]; other site 316058001378 preprotein translocase subunit SecB; Validated; Region: PRK05751 316058001379 SecA binding site; other site 316058001380 Preprotein binding site; other site 316058001381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 316058001382 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 316058001383 MltA specific insert domain; Region: MltA; smart00925 316058001384 3D domain; Region: 3D; pfam06725 316058001385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 316058001386 Smr domain; Region: Smr; pfam01713 316058001387 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 316058001388 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 316058001389 Walker A motif; other site 316058001390 ATP binding site [chemical binding]; other site 316058001391 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 316058001392 Walker B motif; other site 316058001393 arginine finger; other site 316058001394 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 316058001395 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 316058001396 active site 316058001397 HslU subunit interaction site [polypeptide binding]; other site 316058001398 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 316058001399 putative active site pocket [active] 316058001400 4-fold oligomerization interface [polypeptide binding]; other site 316058001401 metal binding residues [ion binding]; metal-binding site 316058001402 3-fold/trimer interface [polypeptide binding]; other site 316058001403 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 316058001404 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 316058001405 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 316058001406 putative active site [active] 316058001407 oxyanion strand; other site 316058001408 catalytic triad [active] 316058001409 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 316058001410 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 316058001411 catalytic residues [active] 316058001412 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 316058001413 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 316058001414 substrate binding site [chemical binding]; other site 316058001415 glutamase interaction surface [polypeptide binding]; other site 316058001416 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 316058001417 metal binding site [ion binding]; metal-binding site 316058001418 pantothenate kinase; Provisional; Region: PRK05439 316058001419 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 316058001420 ATP-binding site [chemical binding]; other site 316058001421 CoA-binding site [chemical binding]; other site 316058001422 Mg2+-binding site [ion binding]; other site 316058001423 Putative hemolysin [General function prediction only]; Region: COG3176 316058001424 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 316058001425 dimer interface [polypeptide binding]; other site 316058001426 phosphorylation site [posttranslational modification] 316058001427 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 316058001428 ATP binding site [chemical binding]; other site 316058001429 Mg2+ binding site [ion binding]; other site 316058001430 G-X-G motif; other site 316058001431 Response regulator receiver domain; Region: Response_reg; pfam00072 316058001432 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058001433 active site 316058001434 phosphorylation site [posttranslational modification] 316058001435 intermolecular recognition site; other site 316058001436 dimerization interface [polypeptide binding]; other site 316058001437 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 316058001438 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 316058001439 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 316058001440 Walker A motif; other site 316058001441 ATP binding site [chemical binding]; other site 316058001442 Walker B motif; other site 316058001443 arginine finger; other site 316058001444 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 316058001445 Autoinducer synthetase; Region: Autoind_synth; cl17404 316058001446 Autoinducer binding domain; Region: Autoind_bind; pfam03472 316058001447 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 316058001448 DNA binding residues [nucleotide binding] 316058001449 dimerization interface [polypeptide binding]; other site 316058001450 glutathione synthetase; Provisional; Region: PRK05246 316058001451 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 316058001452 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 316058001453 hypothetical protein; Reviewed; Region: PRK12497 316058001454 Predicted methyltransferases [General function prediction only]; Region: COG0313 316058001455 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 316058001456 putative SAM binding site [chemical binding]; other site 316058001457 putative homodimer interface [polypeptide binding]; other site 316058001458 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058001459 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 316058001460 putative ligand binding site [chemical binding]; other site 316058001461 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 316058001462 HemN C-terminal domain; Region: HemN_C; pfam06969 316058001463 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 316058001464 active site 316058001465 dimerization interface [polypeptide binding]; other site 316058001466 ribonuclease PH; Reviewed; Region: rph; PRK00173 316058001467 Ribonuclease PH; Region: RNase_PH_bact; cd11362 316058001468 hexamer interface [polypeptide binding]; other site 316058001469 active site 316058001470 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 316058001471 heat shock protein GrpE; Provisional; Region: PRK14141 316058001472 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 316058001473 dimer interface [polypeptide binding]; other site 316058001474 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 316058001475 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 316058001476 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 316058001477 nucleotide binding site [chemical binding]; other site 316058001478 NEF interaction site [polypeptide binding]; other site 316058001479 SBD interface [polypeptide binding]; other site 316058001480 chaperone protein DnaJ; Provisional; Region: PRK10767 316058001481 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 316058001482 HSP70 interaction site [polypeptide binding]; other site 316058001483 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 316058001484 substrate binding site [polypeptide binding]; other site 316058001485 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 316058001486 Zn binding sites [ion binding]; other site 316058001487 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 316058001488 dimer interface [polypeptide binding]; other site 316058001489 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 316058001490 S-adenosylmethionine binding site [chemical binding]; other site 316058001491 Predicted flavoprotein [General function prediction only]; Region: COG0431 316058001492 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 316058001493 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 316058001494 active site 316058001495 dimer interface [polypeptide binding]; other site 316058001496 Uncharacterized conserved protein [Function unknown]; Region: COG5470 316058001497 dihydrodipicolinate reductase; Provisional; Region: PRK00048 316058001498 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 316058001499 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 316058001500 phosphoglyceromutase; Provisional; Region: PRK05434 316058001501 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 316058001502 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316058001503 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 316058001504 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 316058001505 DNA binding site [nucleotide binding] 316058001506 active site 316058001507 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 316058001508 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 316058001509 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 316058001510 minor groove reading motif; other site 316058001511 helix-hairpin-helix signature motif; other site 316058001512 substrate binding pocket [chemical binding]; other site 316058001513 active site 316058001514 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 316058001515 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 316058001516 glycogen synthase; Provisional; Region: PRK14099 316058001517 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 316058001518 ADP-binding pocket [chemical binding]; other site 316058001519 homodimer interface [polypeptide binding]; other site 316058001520 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 316058001521 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 316058001522 ligand binding site; other site 316058001523 oligomer interface; other site 316058001524 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 316058001525 dimer interface [polypeptide binding]; other site 316058001526 N-terminal domain interface [polypeptide binding]; other site 316058001527 sulfate 1 binding site; other site 316058001528 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 316058001529 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 316058001530 putative molybdopterin cofactor binding site [chemical binding]; other site 316058001531 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 316058001532 putative molybdopterin cofactor binding site; other site 316058001533 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 316058001534 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 316058001535 putative substrate binding site [chemical binding]; other site 316058001536 putative ATP binding site [chemical binding]; other site 316058001537 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 316058001538 alpha-galactosidase; Provisional; Region: PRK15076 316058001539 LDH/MDH dimer interface [polypeptide binding]; other site 316058001540 NAD(P) binding site [chemical binding]; other site 316058001541 substrate binding site [chemical binding]; other site 316058001542 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 316058001543 Ligand Binding Site [chemical binding]; other site 316058001544 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 316058001545 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 316058001546 S-adenosylmethionine binding site [chemical binding]; other site 316058001547 thioredoxin 2; Provisional; Region: PRK10996 316058001548 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 316058001549 catalytic residues [active] 316058001550 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316058001551 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 316058001552 putative DNA binding site [nucleotide binding]; other site 316058001553 putative Zn2+ binding site [ion binding]; other site 316058001554 AsnC family; Region: AsnC_trans_reg; pfam01037 316058001555 methionine gamma-lyase; Provisional; Region: PRK07503 316058001556 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 316058001557 homodimer interface [polypeptide binding]; other site 316058001558 substrate-cofactor binding pocket; other site 316058001559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058001560 catalytic residue [active] 316058001561 PAS domain; Region: PAS_9; pfam13426 316058001562 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 316058001563 PAS fold; Region: PAS_3; pfam08447 316058001564 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058001565 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058001566 metal binding site [ion binding]; metal-binding site 316058001567 active site 316058001568 I-site; other site 316058001569 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 316058001570 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 316058001571 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 316058001572 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 316058001573 RNA binding surface [nucleotide binding]; other site 316058001574 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316058001575 active site 316058001576 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 316058001577 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 316058001578 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058001579 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 316058001580 DNA binding residues [nucleotide binding] 316058001581 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 316058001582 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 316058001583 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 316058001584 putative active site [active] 316058001585 putative catalytic site [active] 316058001586 putative Mg binding site IVb [ion binding]; other site 316058001587 putative phosphate binding site [ion binding]; other site 316058001588 putative DNA binding site [nucleotide binding]; other site 316058001589 putative Mg binding site IVa [ion binding]; other site 316058001590 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 316058001591 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 316058001592 active site 316058001593 substrate-binding site [chemical binding]; other site 316058001594 metal-binding site [ion binding] 316058001595 ATP binding site [chemical binding]; other site 316058001596 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 316058001597 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 316058001598 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 316058001599 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316058001600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058001601 active site 316058001602 phosphorylation site [posttranslational modification] 316058001603 intermolecular recognition site; other site 316058001604 dimerization interface [polypeptide binding]; other site 316058001605 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 316058001606 DNA binding site [nucleotide binding] 316058001607 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 316058001608 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 316058001609 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058001610 HAMP domain; Region: HAMP; pfam00672 316058001611 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 316058001612 dimer interface [polypeptide binding]; other site 316058001613 phosphorylation site [posttranslational modification] 316058001614 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 316058001615 ATP binding site [chemical binding]; other site 316058001616 Mg2+ binding site [ion binding]; other site 316058001617 G-X-G motif; other site 316058001618 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 316058001619 Hpr binding site; other site 316058001620 active site 316058001621 homohexamer subunit interaction site [polypeptide binding]; other site 316058001622 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 316058001623 active pocket/dimerization site; other site 316058001624 active site 316058001625 phosphorylation site [posttranslational modification] 316058001626 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 316058001627 dimerization domain swap beta strand [polypeptide binding]; other site 316058001628 regulatory protein interface [polypeptide binding]; other site 316058001629 active site 316058001630 regulatory phosphorylation site [posttranslational modification]; other site 316058001631 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 316058001632 GTP-binding protein LepA; Provisional; Region: PRK05433 316058001633 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 316058001634 G1 box; other site 316058001635 putative GEF interaction site [polypeptide binding]; other site 316058001636 GTP/Mg2+ binding site [chemical binding]; other site 316058001637 Switch I region; other site 316058001638 G2 box; other site 316058001639 G3 box; other site 316058001640 Switch II region; other site 316058001641 G4 box; other site 316058001642 G5 box; other site 316058001643 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 316058001644 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 316058001645 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 316058001646 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 316058001647 additional DNA contacts [nucleotide binding]; other site 316058001648 mismatch recognition site; other site 316058001649 active site 316058001650 zinc binding site [ion binding]; other site 316058001651 DNA intercalation site [nucleotide binding]; other site 316058001652 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 316058001653 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 316058001654 cofactor binding site; other site 316058001655 DNA binding site [nucleotide binding] 316058001656 substrate interaction site [chemical binding]; other site 316058001657 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 316058001658 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 316058001659 CysZ-like protein; Reviewed; Region: PRK12768 316058001660 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 316058001661 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316058001662 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 316058001663 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 316058001664 dimer interface [polypeptide binding]; other site 316058001665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058001666 catalytic residue [active] 316058001667 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 316058001668 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 316058001669 active site 316058001670 Secretin and TonB N terminus short domain; Region: STN; smart00965 316058001671 RNA polymerase sigma factor; Reviewed; Region: PRK12527 316058001672 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 316058001673 DNA binding residues [nucleotide binding] 316058001674 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 316058001675 FecR protein; Region: FecR; pfam04773 316058001676 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 316058001677 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 316058001678 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 316058001679 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 316058001680 S-adenosylmethionine binding site [chemical binding]; other site 316058001681 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 316058001682 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058001683 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 316058001684 DNA binding residues [nucleotide binding] 316058001685 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 316058001686 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 316058001687 Domain of unknown function DUF20; Region: UPF0118; pfam01594 316058001688 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 316058001689 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 316058001690 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058001691 dimer interface [polypeptide binding]; other site 316058001692 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316058001693 putative CheW interface [polypeptide binding]; other site 316058001694 Predicted esterase [General function prediction only]; Region: COG0400 316058001695 LrgB-like family; Region: LrgB; pfam04172 316058001696 LrgA family; Region: LrgA; pfam03788 316058001697 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 316058001698 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 316058001699 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 316058001700 PRC-barrel domain; Region: PRC; pfam05239 316058001701 Response regulator receiver domain; Region: Response_reg; pfam00072 316058001702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058001703 active site 316058001704 phosphorylation site [posttranslational modification] 316058001705 intermolecular recognition site; other site 316058001706 dimerization interface [polypeptide binding]; other site 316058001707 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316058001708 GAF domain; Region: GAF; cl17456 316058001709 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 316058001710 Histidine kinase; Region: HisKA_2; pfam07568 316058001711 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 316058001712 ATP binding site [chemical binding]; other site 316058001713 Mg2+ binding site [ion binding]; other site 316058001714 G-X-G motif; other site 316058001715 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 316058001716 acetyl esterase; Provisional; Region: PRK10162 316058001717 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316058001718 MarR family; Region: MarR_2; pfam12802 316058001719 Porin subfamily; Region: Porin_2; pfam02530 316058001720 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 316058001721 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 316058001722 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 316058001723 Predicted membrane protein [Function unknown]; Region: COG4763 316058001724 Acyltransferase family; Region: Acyl_transf_3; pfam01757 316058001725 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 316058001726 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 316058001727 ATP binding site [chemical binding]; other site 316058001728 putative Mg++ binding site [ion binding]; other site 316058001729 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 316058001730 nucleotide binding region [chemical binding]; other site 316058001731 ATP-binding site [chemical binding]; other site 316058001732 Helicase associated domain (HA2); Region: HA2; cl04503 316058001733 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 316058001734 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 316058001735 catalytic motif [active] 316058001736 Catalytic residue [active] 316058001737 aromatic amino acid exporter; Provisional; Region: PRK11689 316058001738 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 316058001739 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 316058001740 NAD(P) binding site [chemical binding]; other site 316058001741 homotetramer interface [polypeptide binding]; other site 316058001742 homodimer interface [polypeptide binding]; other site 316058001743 active site 316058001744 putative acyltransferase; Provisional; Region: PRK05790 316058001745 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 316058001746 dimer interface [polypeptide binding]; other site 316058001747 active site 316058001748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 316058001749 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 316058001750 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 316058001751 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058001752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058001753 metal binding site [ion binding]; metal-binding site 316058001754 active site 316058001755 I-site; other site 316058001756 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 316058001757 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 316058001758 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 316058001759 Transglycosylase; Region: Transgly; cl17702 316058001760 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 316058001761 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 316058001762 substrate binding pocket [chemical binding]; other site 316058001763 chain length determination region; other site 316058001764 substrate-Mg2+ binding site; other site 316058001765 catalytic residues [active] 316058001766 aspartate-rich region 1; other site 316058001767 active site lid residues [active] 316058001768 aspartate-rich region 2; other site 316058001769 Sensors of blue-light using FAD; Region: BLUF; smart01034 316058001770 PAS domain; Region: PAS; smart00091 316058001771 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058001772 metal binding site [ion binding]; metal-binding site 316058001773 active site 316058001774 I-site; other site 316058001775 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 316058001776 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 316058001777 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 316058001778 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 316058001779 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 316058001780 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316058001781 EamA-like transporter family; Region: EamA; pfam00892 316058001782 EamA-like transporter family; Region: EamA; pfam00892 316058001783 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 316058001784 metal binding site 2 [ion binding]; metal-binding site 316058001785 putative DNA binding helix; other site 316058001786 metal binding site 1 [ion binding]; metal-binding site 316058001787 dimer interface [polypeptide binding]; other site 316058001788 structural Zn2+ binding site [ion binding]; other site 316058001789 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 316058001790 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 316058001791 dimer interface [polypeptide binding]; other site 316058001792 active site 316058001793 short chain dehydrogenase; Provisional; Region: PRK06482 316058001794 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 316058001795 NADP binding site [chemical binding]; other site 316058001796 active site 316058001797 steroid binding site; other site 316058001798 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058001799 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058001800 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_5; cd08474 316058001801 putative effector binding pocket; other site 316058001802 putative dimerization interface [polypeptide binding]; other site 316058001803 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 316058001804 MutS domain I; Region: MutS_I; pfam01624 316058001805 MutS domain II; Region: MutS_II; pfam05188 316058001806 MutS domain III; Region: MutS_III; pfam05192 316058001807 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 316058001808 Walker A/P-loop; other site 316058001809 ATP binding site [chemical binding]; other site 316058001810 Q-loop/lid; other site 316058001811 ABC transporter signature motif; other site 316058001812 Walker B; other site 316058001813 D-loop; other site 316058001814 H-loop/switch region; other site 316058001815 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 316058001816 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 316058001817 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 316058001818 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 316058001819 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 316058001820 SEC-C motif; Region: SEC-C; pfam02810 316058001821 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 316058001822 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 316058001823 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 316058001824 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 316058001825 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 316058001826 active site 316058001827 DNA binding site [nucleotide binding] 316058001828 Int/Topo IB signature motif; other site 316058001829 shikimate kinase; Provisional; Region: PRK13946 316058001830 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 316058001831 ADP binding site [chemical binding]; other site 316058001832 magnesium binding site [ion binding]; other site 316058001833 putative shikimate binding site; other site 316058001834 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 316058001835 active site 316058001836 dimer interface [polypeptide binding]; other site 316058001837 metal binding site [ion binding]; metal-binding site 316058001838 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 316058001839 Domain of unknown function DUF21; Region: DUF21; pfam01595 316058001840 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 316058001841 Transporter associated domain; Region: CorC_HlyC; smart01091 316058001842 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 316058001843 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 316058001844 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 316058001845 HSP70 interaction site [polypeptide binding]; other site 316058001846 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 316058001847 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 316058001848 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 316058001849 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 316058001850 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 316058001851 Domain of unknown function DUF29; Region: DUF29; pfam01724 316058001852 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 316058001853 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 316058001854 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 316058001855 metal ion-dependent adhesion site (MIDAS); other site 316058001856 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 316058001857 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 316058001858 HAMP domain; Region: HAMP; pfam00672 316058001859 PAS domain; Region: PAS_9; pfam13426 316058001860 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 316058001861 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 316058001862 putative active site [active] 316058001863 heme pocket [chemical binding]; other site 316058001864 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 316058001865 dimer interface [polypeptide binding]; other site 316058001866 phosphorylation site [posttranslational modification] 316058001867 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 316058001868 ATP binding site [chemical binding]; other site 316058001869 Mg2+ binding site [ion binding]; other site 316058001870 G-X-G motif; other site 316058001871 Response regulator receiver domain; Region: Response_reg; pfam00072 316058001872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058001873 active site 316058001874 phosphorylation site [posttranslational modification] 316058001875 intermolecular recognition site; other site 316058001876 dimerization interface [polypeptide binding]; other site 316058001877 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 316058001878 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 316058001879 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 316058001880 DEAD/DEAH box helicase; Region: DEAD; pfam00270 316058001881 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 316058001882 nucleotide binding region [chemical binding]; other site 316058001883 ATP-binding site [chemical binding]; other site 316058001884 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 316058001885 RNA binding surface [nucleotide binding]; other site 316058001886 Ferredoxin [Energy production and conversion]; Region: COG1146 316058001887 4Fe-4S binding domain; Region: Fer4; pfam00037 316058001888 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 316058001889 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 316058001890 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 316058001891 Peptidase family M48; Region: Peptidase_M48; pfam01435 316058001892 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058001893 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 316058001894 putative ligand binding site [chemical binding]; other site 316058001895 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 316058001896 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 316058001897 substrate binding site [chemical binding]; other site 316058001898 oxyanion hole (OAH) forming residues; other site 316058001899 trimer interface [polypeptide binding]; other site 316058001900 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 316058001901 active site 316058001902 metal binding site [ion binding]; metal-binding site 316058001903 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 316058001904 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 316058001905 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 316058001906 substrate binding site [chemical binding]; other site 316058001907 oxyanion hole (OAH) forming residues; other site 316058001908 trimer interface [polypeptide binding]; other site 316058001909 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058001910 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058001911 active site 316058001912 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058001913 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058001914 active site 316058001915 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 316058001916 classical (c) SDRs; Region: SDR_c; cd05233 316058001917 NAD(P) binding site [chemical binding]; other site 316058001918 active site 316058001919 Predicted membrane protein [Function unknown]; Region: COG2261 316058001920 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 316058001921 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 316058001922 Prostaglandin dehydrogenases; Region: PGDH; cd05288 316058001923 NAD(P) binding site [chemical binding]; other site 316058001924 substrate binding site [chemical binding]; other site 316058001925 dimer interface [polypeptide binding]; other site 316058001926 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 316058001927 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316058001928 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316058001929 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 316058001930 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 316058001931 active site 316058001932 FMN binding site [chemical binding]; other site 316058001933 substrate binding site [chemical binding]; other site 316058001934 3Fe-4S cluster binding site [ion binding]; other site 316058001935 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316058001936 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 316058001937 Creatinine amidohydrolase; Region: Creatininase; pfam02633 316058001938 NMT1/THI5 like; Region: NMT1; pfam09084 316058001939 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 316058001940 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316058001941 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316058001942 Walker A/P-loop; other site 316058001943 ATP binding site [chemical binding]; other site 316058001944 Q-loop/lid; other site 316058001945 ABC transporter signature motif; other site 316058001946 Walker B; other site 316058001947 D-loop; other site 316058001948 H-loop/switch region; other site 316058001949 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058001950 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 316058001951 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 316058001952 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 316058001953 putative ligand binding site [chemical binding]; other site 316058001954 NAD binding site [chemical binding]; other site 316058001955 catalytic site [active] 316058001956 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 316058001957 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 316058001958 oligomeric interface; other site 316058001959 homodimer interface [polypeptide binding]; other site 316058001960 putative active site [active] 316058001961 succinic semialdehyde dehydrogenase; Region: PLN02278 316058001962 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 316058001963 tetramerization interface [polypeptide binding]; other site 316058001964 NAD(P) binding site [chemical binding]; other site 316058001965 catalytic residues [active] 316058001966 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316058001967 Beta-lactamase; Region: Beta-lactamase; pfam00144 316058001968 AMP-binding domain protein; Validated; Region: PRK08315 316058001969 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058001970 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 316058001971 acyl-activating enzyme (AAE) consensus motif; other site 316058001972 acyl-activating enzyme (AAE) consensus motif; other site 316058001973 putative AMP binding site [chemical binding]; other site 316058001974 putative active site [active] 316058001975 putative CoA binding site [chemical binding]; other site 316058001976 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 316058001977 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316058001978 substrate binding site [chemical binding]; other site 316058001979 ATP binding site [chemical binding]; other site 316058001980 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 316058001981 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 316058001982 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 316058001983 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 316058001984 active site 316058001985 HIGH motif; other site 316058001986 dimer interface [polypeptide binding]; other site 316058001987 KMSKS motif; other site 316058001988 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316058001989 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 316058001990 Ligand Binding Site [chemical binding]; other site 316058001991 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 316058001992 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 316058001993 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 316058001994 Glycoprotease family; Region: Peptidase_M22; pfam00814 316058001995 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 316058001996 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316058001997 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 316058001998 metal binding site 2 [ion binding]; metal-binding site 316058001999 putative DNA binding helix; other site 316058002000 metal binding site 1 [ion binding]; metal-binding site 316058002001 dimer interface [polypeptide binding]; other site 316058002002 structural Zn2+ binding site [ion binding]; other site 316058002003 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 316058002004 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 316058002005 motif II; other site 316058002006 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 316058002007 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 316058002008 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 316058002009 FeS/SAM binding site; other site 316058002010 TRAM domain; Region: TRAM; cl01282 316058002011 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 316058002012 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 316058002013 nucleic acid binding region [nucleotide binding]; other site 316058002014 G-X-X-G motif; other site 316058002015 PhoH-like protein; Region: PhoH; pfam02562 316058002016 metal-binding heat shock protein; Provisional; Region: PRK00016 316058002017 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 316058002018 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 316058002019 Transporter associated domain; Region: CorC_HlyC; smart01091 316058002020 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 316058002021 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 316058002022 putative active site [active] 316058002023 catalytic triad [active] 316058002024 putative dimer interface [polypeptide binding]; other site 316058002025 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 316058002026 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 316058002027 non-specific DNA binding site [nucleotide binding]; other site 316058002028 salt bridge; other site 316058002029 sequence-specific DNA binding site [nucleotide binding]; other site 316058002030 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 316058002031 ribosome maturation protein RimP; Reviewed; Region: PRK00092 316058002032 Sm and related proteins; Region: Sm_like; cl00259 316058002033 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 316058002034 putative oligomer interface [polypeptide binding]; other site 316058002035 putative RNA binding site [nucleotide binding]; other site 316058002036 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 316058002037 NusA N-terminal domain; Region: NusA_N; pfam08529 316058002038 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 316058002039 RNA binding site [nucleotide binding]; other site 316058002040 homodimer interface [polypeptide binding]; other site 316058002041 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 316058002042 G-X-X-G motif; other site 316058002043 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 316058002044 G-X-X-G motif; other site 316058002045 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 316058002046 hypothetical protein; Provisional; Region: PRK09190 316058002047 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 316058002048 putative RNA binding cleft [nucleotide binding]; other site 316058002049 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 316058002050 translation initiation factor IF-2; Region: IF-2; TIGR00487 316058002051 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 316058002052 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 316058002053 G1 box; other site 316058002054 putative GEF interaction site [polypeptide binding]; other site 316058002055 GTP/Mg2+ binding site [chemical binding]; other site 316058002056 Switch I region; other site 316058002057 G2 box; other site 316058002058 G3 box; other site 316058002059 Switch II region; other site 316058002060 G4 box; other site 316058002061 G5 box; other site 316058002062 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 316058002063 Translation-initiation factor 2; Region: IF-2; pfam11987 316058002064 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 316058002065 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 316058002066 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 316058002067 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 316058002068 RNA binding site [nucleotide binding]; other site 316058002069 active site 316058002070 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 316058002071 16S/18S rRNA binding site [nucleotide binding]; other site 316058002072 S13e-L30e interaction site [polypeptide binding]; other site 316058002073 25S rRNA binding site [nucleotide binding]; other site 316058002074 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 316058002075 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 316058002076 RNase E interface [polypeptide binding]; other site 316058002077 trimer interface [polypeptide binding]; other site 316058002078 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 316058002079 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 316058002080 RNase E interface [polypeptide binding]; other site 316058002081 trimer interface [polypeptide binding]; other site 316058002082 active site 316058002083 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 316058002084 putative nucleic acid binding region [nucleotide binding]; other site 316058002085 G-X-X-G motif; other site 316058002086 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 316058002087 RNA binding site [nucleotide binding]; other site 316058002088 domain interface; other site 316058002089 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 316058002090 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 316058002091 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 316058002092 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 316058002093 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 316058002094 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 316058002095 putative active site [active] 316058002096 heme pocket [chemical binding]; other site 316058002097 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 316058002098 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 316058002099 putative active site [active] 316058002100 heme pocket [chemical binding]; other site 316058002101 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 316058002102 putative active site [active] 316058002103 heme pocket [chemical binding]; other site 316058002104 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316058002105 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058002106 dimer interface [polypeptide binding]; other site 316058002107 putative CheW interface [polypeptide binding]; other site 316058002108 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 316058002109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058002110 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 316058002111 dimerization interface [polypeptide binding]; other site 316058002112 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 316058002113 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 316058002114 dimer interface [polypeptide binding]; other site 316058002115 active site 316058002116 heme binding site [chemical binding]; other site 316058002117 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 316058002118 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 316058002119 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 316058002120 NAD binding site [chemical binding]; other site 316058002121 homotetramer interface [polypeptide binding]; other site 316058002122 homodimer interface [polypeptide binding]; other site 316058002123 substrate binding site [chemical binding]; other site 316058002124 active site 316058002125 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 316058002126 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 316058002127 dimer interface [polypeptide binding]; other site 316058002128 active site 316058002129 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 316058002130 active site 2 [active] 316058002131 active site 1 [active] 316058002132 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 316058002133 metal binding site 2 [ion binding]; metal-binding site 316058002134 putative DNA binding helix; other site 316058002135 metal binding site 1 [ion binding]; metal-binding site 316058002136 dimer interface [polypeptide binding]; other site 316058002137 structural Zn2+ binding site [ion binding]; other site 316058002138 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 316058002139 Bacterial SH3 domain; Region: SH3_4; pfam06347 316058002140 Bacterial SH3 domain; Region: SH3_4; pfam06347 316058002141 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 316058002142 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 316058002143 dimerization interface [polypeptide binding]; other site 316058002144 ligand binding site [chemical binding]; other site 316058002145 NADP binding site [chemical binding]; other site 316058002146 catalytic site [active] 316058002147 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 316058002148 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 316058002149 ATP binding site [chemical binding]; other site 316058002150 substrate interface [chemical binding]; other site 316058002151 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316058002152 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316058002153 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 316058002154 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 316058002155 DNA binding site [nucleotide binding] 316058002156 catalytic residue [active] 316058002157 H2TH interface [polypeptide binding]; other site 316058002158 putative catalytic residues [active] 316058002159 turnover-facilitating residue; other site 316058002160 intercalation triad [nucleotide binding]; other site 316058002161 8OG recognition residue [nucleotide binding]; other site 316058002162 putative reading head residues; other site 316058002163 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 316058002164 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 316058002165 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 316058002166 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 316058002167 S-adenosylmethionine binding site [chemical binding]; other site 316058002168 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 316058002169 ABC1 family; Region: ABC1; cl17513 316058002170 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 316058002171 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 316058002172 Flavoprotein; Region: Flavoprotein; pfam02441 316058002173 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 316058002174 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 316058002175 trimer interface [polypeptide binding]; other site 316058002176 active site 316058002177 PAS fold; Region: PAS_7; pfam12860 316058002178 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 316058002179 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 316058002180 dimer interface [polypeptide binding]; other site 316058002181 phosphorylation site [posttranslational modification] 316058002182 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 316058002183 ATP binding site [chemical binding]; other site 316058002184 Mg2+ binding site [ion binding]; other site 316058002185 G-X-G motif; other site 316058002186 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 316058002187 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 316058002188 Phosphotransferase enzyme family; Region: APH; pfam01636 316058002189 PilZ domain; Region: PilZ; cl01260 316058002190 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 316058002191 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 316058002192 Substrate binding site; other site 316058002193 metal-binding site 316058002194 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 316058002195 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 316058002196 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 316058002197 Part of AAA domain; Region: AAA_19; pfam13245 316058002198 Family description; Region: UvrD_C_2; pfam13538 316058002199 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 316058002200 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 316058002201 catalytic residues [active] 316058002202 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 316058002203 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316058002204 active site 316058002205 metal binding site [ion binding]; metal-binding site 316058002206 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 316058002207 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 316058002208 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 316058002209 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 316058002210 substrate binding site [chemical binding]; other site 316058002211 active site 316058002212 catalytic residues [active] 316058002213 heterodimer interface [polypeptide binding]; other site 316058002214 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 316058002215 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 316058002216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058002217 catalytic residue [active] 316058002218 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 316058002219 active site 316058002220 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 316058002221 IHF dimer interface [polypeptide binding]; other site 316058002222 IHF - DNA interface [nucleotide binding]; other site 316058002223 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 316058002224 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 316058002225 tandem repeat interface [polypeptide binding]; other site 316058002226 oligomer interface [polypeptide binding]; other site 316058002227 active site residues [active] 316058002228 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 316058002229 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 316058002230 RNA binding site [nucleotide binding]; other site 316058002231 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 316058002232 RNA binding site [nucleotide binding]; other site 316058002233 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 316058002234 RNA binding site [nucleotide binding]; other site 316058002235 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 316058002236 RNA binding site [nucleotide binding]; other site 316058002237 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 316058002238 RNA binding site [nucleotide binding]; other site 316058002239 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 316058002240 RNA binding site [nucleotide binding]; other site 316058002241 cytidylate kinase; Provisional; Region: cmk; PRK00023 316058002242 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 316058002243 CMP-binding site; other site 316058002244 The sites determining sugar specificity; other site 316058002245 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 316058002246 putative acyl-acceptor binding pocket; other site 316058002247 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 316058002248 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 316058002249 hinge; other site 316058002250 active site 316058002251 TIGR02300 family protein; Region: FYDLN_acid 316058002252 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 316058002253 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316058002254 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316058002255 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316058002256 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 316058002257 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 316058002258 putative active site [active] 316058002259 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316058002260 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 316058002261 dimer interface [polypeptide binding]; other site 316058002262 conserved gate region; other site 316058002263 ABC-ATPase subunit interface; other site 316058002264 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316058002265 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 316058002266 dimer interface [polypeptide binding]; other site 316058002267 conserved gate region; other site 316058002268 putative PBP binding loops; other site 316058002269 ABC-ATPase subunit interface; other site 316058002270 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 316058002271 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 316058002272 Walker A/P-loop; other site 316058002273 ATP binding site [chemical binding]; other site 316058002274 Q-loop/lid; other site 316058002275 ABC transporter signature motif; other site 316058002276 Walker B; other site 316058002277 D-loop; other site 316058002278 H-loop/switch region; other site 316058002279 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 316058002280 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 316058002281 putative dimer interface [polypeptide binding]; other site 316058002282 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 316058002283 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 316058002284 active site 316058002285 phosphorylation site [posttranslational modification] 316058002286 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 316058002287 30S subunit binding site; other site 316058002288 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 316058002289 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 316058002290 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 316058002291 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 316058002292 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 316058002293 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 316058002294 Walker A/P-loop; other site 316058002295 ATP binding site [chemical binding]; other site 316058002296 Q-loop/lid; other site 316058002297 ABC transporter signature motif; other site 316058002298 Walker B; other site 316058002299 D-loop; other site 316058002300 H-loop/switch region; other site 316058002301 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 316058002302 OstA-like protein; Region: OstA; pfam03968 316058002303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 316058002304 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 316058002305 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 316058002306 catalytic site [active] 316058002307 putative active site [active] 316058002308 putative substrate binding site [chemical binding]; other site 316058002309 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 316058002310 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 316058002311 putative NAD(P) binding site [chemical binding]; other site 316058002312 active site 316058002313 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 316058002314 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316058002315 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 316058002316 C-terminal domain interface [polypeptide binding]; other site 316058002317 GSH binding site (G-site) [chemical binding]; other site 316058002318 dimer interface [polypeptide binding]; other site 316058002319 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 316058002320 N-terminal domain interface [polypeptide binding]; other site 316058002321 dimer interface [polypeptide binding]; other site 316058002322 substrate binding pocket (H-site) [chemical binding]; other site 316058002323 epoxyqueuosine reductase; Region: TIGR00276 316058002324 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 316058002325 muropeptide transporter; Validated; Region: ampG; cl17669 316058002326 muropeptide transporter; Reviewed; Region: ampG; PRK11902 316058002327 recombination protein RecR; Reviewed; Region: recR; PRK00076 316058002328 RecR protein; Region: RecR; pfam02132 316058002329 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 316058002330 tetramer interface [polypeptide binding]; other site 316058002331 putative active site [active] 316058002332 putative metal-binding site [ion binding]; other site 316058002333 hypothetical protein; Validated; Region: PRK00153 316058002334 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 316058002335 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 316058002336 Walker A motif; other site 316058002337 ATP binding site [chemical binding]; other site 316058002338 Walker B motif; other site 316058002339 arginine finger; other site 316058002340 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 316058002341 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 316058002342 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 316058002343 nucleotide binding site/active site [active] 316058002344 HIT family signature motif; other site 316058002345 catalytic residue [active] 316058002346 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 316058002347 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 316058002348 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 316058002349 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 316058002350 putative NADH binding site [chemical binding]; other site 316058002351 putative active site [active] 316058002352 nudix motif; other site 316058002353 putative metal binding site [ion binding]; other site 316058002354 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316058002355 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 316058002356 substrate binding site [chemical binding]; other site 316058002357 ATP binding site [chemical binding]; other site 316058002358 RmuC family; Region: RmuC; pfam02646 316058002359 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 316058002360 active site 316058002361 catalytic residues [active] 316058002362 metal binding site [ion binding]; metal-binding site 316058002363 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 316058002364 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 316058002365 putative active site [active] 316058002366 substrate binding site [chemical binding]; other site 316058002367 putative cosubstrate binding site; other site 316058002368 catalytic site [active] 316058002369 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 316058002370 substrate binding site [chemical binding]; other site 316058002371 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 316058002372 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 316058002373 dimerization interface 3.5A [polypeptide binding]; other site 316058002374 active site 316058002375 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 316058002376 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 316058002377 metal binding site [ion binding]; metal-binding site 316058002378 dimer interface [polypeptide binding]; other site 316058002379 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 316058002380 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 316058002381 trimer interface [polypeptide binding]; other site 316058002382 active site 316058002383 substrate binding site [chemical binding]; other site 316058002384 CoA binding site [chemical binding]; other site 316058002385 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 316058002386 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 316058002387 motif II; other site 316058002388 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 316058002389 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316058002390 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 316058002391 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 316058002392 feedback inhibition sensing region; other site 316058002393 homohexameric interface [polypeptide binding]; other site 316058002394 nucleotide binding site [chemical binding]; other site 316058002395 N-acetyl-L-glutamate binding site [chemical binding]; other site 316058002396 Protein of unknown function (DUF423); Region: DUF423; pfam04241 316058002397 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 316058002398 G1 box; other site 316058002399 GTP/Mg2+ binding site [chemical binding]; other site 316058002400 Switch I region; other site 316058002401 G2 box; other site 316058002402 G3 box; other site 316058002403 Switch II region; other site 316058002404 G4 box; other site 316058002405 G5 box; other site 316058002406 membrane protein insertase; Provisional; Region: PRK01318 316058002407 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 316058002408 Ribonuclease P; Region: Ribonuclease_P; cl00457 316058002409 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 316058002410 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 316058002411 ATP binding site [chemical binding]; other site 316058002412 Mg2+ binding site [ion binding]; other site 316058002413 G-X-G motif; other site 316058002414 HipA N-terminal domain; Region: Couple_hipA; pfam13657 316058002415 HipA-like N-terminal domain; Region: HipA_N; pfam07805 316058002416 HipA-like C-terminal domain; Region: HipA_C; pfam07804 316058002417 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 316058002418 non-specific DNA binding site [nucleotide binding]; other site 316058002419 salt bridge; other site 316058002420 sequence-specific DNA binding site [nucleotide binding]; other site 316058002421 hypothetical protein; Provisional; Region: PRK01254 316058002422 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 316058002423 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 316058002424 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058002425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058002426 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 316058002427 substrate binding pocket [chemical binding]; other site 316058002428 dimerization interface [polypeptide binding]; other site 316058002429 amidase; Provisional; Region: PRK06170 316058002430 Amidase; Region: Amidase; pfam01425 316058002431 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316058002432 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 316058002433 putative ligand binding site [chemical binding]; other site 316058002434 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 316058002435 TM-ABC transporter signature motif; other site 316058002436 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058002437 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 316058002438 TM-ABC transporter signature motif; other site 316058002439 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058002440 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058002441 Walker A/P-loop; other site 316058002442 ATP binding site [chemical binding]; other site 316058002443 Q-loop/lid; other site 316058002444 ABC transporter signature motif; other site 316058002445 Walker B; other site 316058002446 D-loop; other site 316058002447 H-loop/switch region; other site 316058002448 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058002449 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058002450 Walker A/P-loop; other site 316058002451 ATP binding site [chemical binding]; other site 316058002452 Q-loop/lid; other site 316058002453 ABC transporter signature motif; other site 316058002454 Walker B; other site 316058002455 D-loop; other site 316058002456 H-loop/switch region; other site 316058002457 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058002458 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058002459 active site 316058002460 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 316058002461 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 316058002462 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 316058002463 putative DNA binding site [nucleotide binding]; other site 316058002464 putative homodimer interface [polypeptide binding]; other site 316058002465 hypothetical protein; Reviewed; Region: PRK00024 316058002466 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 316058002467 MPN+ (JAMM) motif; other site 316058002468 Zinc-binding site [ion binding]; other site 316058002469 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 316058002470 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 316058002471 substrate binding site [chemical binding]; other site 316058002472 oxyanion hole (OAH) forming residues; other site 316058002473 trimer interface [polypeptide binding]; other site 316058002474 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 316058002475 ATP binding site [chemical binding]; other site 316058002476 active site 316058002477 substrate binding site [chemical binding]; other site 316058002478 Pirin-related protein [General function prediction only]; Region: COG1741 316058002479 Pirin; Region: Pirin; pfam02678 316058002480 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 316058002481 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 316058002482 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 316058002483 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 316058002484 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 316058002485 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 316058002486 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316058002487 PAS domain; Region: PAS_9; pfam13426 316058002488 PAS fold; Region: PAS_3; pfam08447 316058002489 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 316058002490 PAS domain S-box; Region: sensory_box; TIGR00229 316058002491 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 316058002492 putative active site [active] 316058002493 heme pocket [chemical binding]; other site 316058002494 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058002495 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 316058002496 dimer interface [polypeptide binding]; other site 316058002497 phosphorylation site [posttranslational modification] 316058002498 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 316058002499 ATP binding site [chemical binding]; other site 316058002500 Mg2+ binding site [ion binding]; other site 316058002501 G-X-G motif; other site 316058002502 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058002503 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058002504 active site 316058002505 phosphorylation site [posttranslational modification] 316058002506 intermolecular recognition site; other site 316058002507 dimerization interface [polypeptide binding]; other site 316058002508 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 316058002509 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316058002510 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 316058002511 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 316058002512 metal ion-dependent adhesion site (MIDAS); other site 316058002513 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 316058002514 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 316058002515 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 316058002516 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 316058002517 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 316058002518 Walker A motif; other site 316058002519 ATP binding site [chemical binding]; other site 316058002520 Walker B motif; other site 316058002521 arginine finger; other site 316058002522 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058002523 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316058002524 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 316058002525 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 316058002526 heme binding pocket [chemical binding]; other site 316058002527 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 316058002528 domain interactions; other site 316058002529 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 316058002530 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 316058002531 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 316058002532 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 316058002533 catalytic loop [active] 316058002534 iron binding site [ion binding]; other site 316058002535 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 316058002536 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 316058002537 [4Fe-4S] binding site [ion binding]; other site 316058002538 molybdopterin cofactor binding site; other site 316058002539 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 316058002540 molybdopterin cofactor binding site; other site 316058002541 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 316058002542 putative dimer interface [polypeptide binding]; other site 316058002543 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 316058002544 SLBB domain; Region: SLBB; pfam10531 316058002545 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 316058002546 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 316058002547 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 316058002548 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058002549 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058002550 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 316058002551 dimerization interface [polypeptide binding]; other site 316058002552 Protein of unknown function (DUF3419); Region: DUF3419; pfam11899 316058002553 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 316058002554 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 316058002555 S-adenosylmethionine binding site [chemical binding]; other site 316058002556 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 316058002557 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 316058002558 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 316058002559 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 316058002560 ABC-ATPase subunit interface; other site 316058002561 dimer interface [polypeptide binding]; other site 316058002562 putative PBP binding regions; other site 316058002563 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 316058002564 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316058002565 Walker A/P-loop; other site 316058002566 ATP binding site [chemical binding]; other site 316058002567 Q-loop/lid; other site 316058002568 ABC transporter signature motif; other site 316058002569 Walker B; other site 316058002570 D-loop; other site 316058002571 H-loop/switch region; other site 316058002572 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 316058002573 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 316058002574 intersubunit interface [polypeptide binding]; other site 316058002575 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 316058002576 cobyric acid synthase; Provisional; Region: PRK00784 316058002577 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 316058002578 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 316058002579 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 316058002580 catalytic triad [active] 316058002581 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 316058002582 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 316058002583 homodimer interface [polypeptide binding]; other site 316058002584 Walker A motif; other site 316058002585 ATP binding site [chemical binding]; other site 316058002586 hydroxycobalamin binding site [chemical binding]; other site 316058002587 Walker B motif; other site 316058002588 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 316058002589 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 316058002590 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 316058002591 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 316058002592 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 316058002593 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 316058002594 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 316058002595 homotrimer interface [polypeptide binding]; other site 316058002596 Walker A motif; other site 316058002597 GTP binding site [chemical binding]; other site 316058002598 Walker B motif; other site 316058002599 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 316058002600 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 316058002601 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 316058002602 putative dimer interface [polypeptide binding]; other site 316058002603 active site pocket [active] 316058002604 putative cataytic base [active] 316058002605 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 316058002606 putative FMN binding site [chemical binding]; other site 316058002607 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 316058002608 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 316058002609 GIY-YIG motif/motif A; other site 316058002610 putative active site [active] 316058002611 putative metal binding site [ion binding]; other site 316058002612 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 316058002613 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 316058002614 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316058002615 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316058002616 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316058002617 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316058002618 Surface antigen; Region: Bac_surface_Ag; pfam01103 316058002619 Surface antigen; Region: Bac_surface_Ag; pfam01103 316058002620 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 316058002621 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058002622 putative ligand binding site [chemical binding]; other site 316058002623 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 316058002624 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316058002625 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316058002626 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 316058002627 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 316058002628 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 316058002629 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 316058002630 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 316058002631 RNA polymerase sigma factor; Provisional; Region: PRK12538 316058002632 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058002633 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 316058002634 DNA binding residues [nucleotide binding] 316058002635 flagellin; Provisional; Region: PRK12804 316058002636 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 316058002637 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 316058002638 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 316058002639 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 316058002640 Flagellar protein FliS; Region: FliS; cl00654 316058002641 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 316058002642 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 316058002643 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 316058002644 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 316058002645 FlgN protein; Region: FlgN; pfam05130 316058002646 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 316058002647 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 316058002648 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08913 316058002649 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 316058002650 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 316058002651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058002652 NAD(P) binding site [chemical binding]; other site 316058002653 active site 316058002654 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 316058002655 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 316058002656 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 316058002657 putative active site [active] 316058002658 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 316058002659 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316058002660 ligand binding site [chemical binding]; other site 316058002661 Predicted integral membrane protein [Function unknown]; Region: COG0392 316058002662 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 316058002663 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 316058002664 dimer interface [polypeptide binding]; other site 316058002665 phosphorylation site [posttranslational modification] 316058002666 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 316058002667 ATP binding site [chemical binding]; other site 316058002668 Mg2+ binding site [ion binding]; other site 316058002669 G-X-G motif; other site 316058002670 PBP superfamily domain; Region: PBP_like_2; cl17296 316058002671 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 316058002672 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 316058002673 dimer interface [polypeptide binding]; other site 316058002674 conserved gate region; other site 316058002675 putative PBP binding loops; other site 316058002676 ABC-ATPase subunit interface; other site 316058002677 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 316058002678 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 316058002679 dimer interface [polypeptide binding]; other site 316058002680 conserved gate region; other site 316058002681 putative PBP binding loops; other site 316058002682 ABC-ATPase subunit interface; other site 316058002683 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 316058002684 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 316058002685 Walker A/P-loop; other site 316058002686 ATP binding site [chemical binding]; other site 316058002687 Q-loop/lid; other site 316058002688 ABC transporter signature motif; other site 316058002689 Walker B; other site 316058002690 D-loop; other site 316058002691 H-loop/switch region; other site 316058002692 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 316058002693 PhoU domain; Region: PhoU; pfam01895 316058002694 PhoU domain; Region: PhoU; pfam01895 316058002695 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 316058002696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058002697 active site 316058002698 phosphorylation site [posttranslational modification] 316058002699 intermolecular recognition site; other site 316058002700 dimerization interface [polypeptide binding]; other site 316058002701 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 316058002702 DNA binding site [nucleotide binding] 316058002703 GcrA cell cycle regulator; Region: GcrA; pfam07750 316058002704 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 316058002705 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 316058002706 inhibitor-cofactor binding pocket; inhibition site 316058002707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058002708 catalytic residue [active] 316058002709 ornithine carbamoyltransferase; Provisional; Region: PRK00779 316058002710 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 316058002711 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 316058002712 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 316058002713 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 316058002714 dimerization interface [polypeptide binding]; other site 316058002715 domain crossover interface; other site 316058002716 redox-dependent activation switch; other site 316058002717 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 316058002718 OpgC protein; Region: OpgC_C; pfam10129 316058002719 Acyltransferase family; Region: Acyl_transf_3; pfam01757 316058002720 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 316058002721 active site 316058002722 oxyanion hole [active] 316058002723 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 316058002724 active site 316058002725 oxyanion hole [active] 316058002726 catalytic triad [active] 316058002727 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 316058002728 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 316058002729 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058002730 catalytic residue [active] 316058002731 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 316058002732 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 316058002733 trimer interface [polypeptide binding]; other site 316058002734 active site 316058002735 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 316058002736 trimer interface [polypeptide binding]; other site 316058002737 active site 316058002738 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 316058002739 active site 316058002740 NTP binding site [chemical binding]; other site 316058002741 metal binding triad [ion binding]; metal-binding site 316058002742 antibiotic binding site [chemical binding]; other site 316058002743 metallophosphoesterase, RPA4764 family; Region: RPA4764; TIGR03768 316058002744 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 316058002745 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_3; cd13148 316058002746 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 316058002747 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 316058002748 putative hydrophobic ligand binding site [chemical binding]; other site 316058002749 protein interface [polypeptide binding]; other site 316058002750 gate; other site 316058002751 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 316058002752 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316058002753 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058002754 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058002755 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 316058002756 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 316058002757 DNA binding site [nucleotide binding] 316058002758 active site 316058002759 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 316058002760 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058002761 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058002762 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 316058002763 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316058002764 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 316058002765 Walker A/P-loop; other site 316058002766 ATP binding site [chemical binding]; other site 316058002767 Q-loop/lid; other site 316058002768 ABC transporter signature motif; other site 316058002769 Walker B; other site 316058002770 D-loop; other site 316058002771 H-loop/switch region; other site 316058002772 Calx-beta domain; Region: Calx-beta; cl02522 316058002773 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 316058002774 generic binding surface II; other site 316058002775 generic binding surface I; other site 316058002776 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 316058002777 putative catalytic site [active] 316058002778 putative metal binding site [ion binding]; other site 316058002779 putative phosphate binding site [ion binding]; other site 316058002780 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 316058002781 Synechococcus sp. strain PCC 7942 PhoA and related proteins, N-terminal metallophosphatase domain; Region: MPP_PhoA_N; cd08162 316058002782 putative active site [active] 316058002783 putative metal binding site [ion binding]; other site 316058002784 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 316058002785 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 316058002786 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 316058002787 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 316058002788 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 316058002789 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 316058002790 active site 316058002791 catalytic site [active] 316058002792 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 316058002793 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 316058002794 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 316058002795 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 316058002796 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 316058002797 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 316058002798 active site 316058002799 catalytic site [active] 316058002800 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 316058002801 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 316058002802 PRC-barrel domain; Region: PRC; pfam05239 316058002803 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 316058002804 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 316058002805 minor groove reading motif; other site 316058002806 helix-hairpin-helix signature motif; other site 316058002807 active site 316058002808 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 316058002809 active site 316058002810 HIGH motif; other site 316058002811 nucleotide binding site [chemical binding]; other site 316058002812 active site 316058002813 KMSKS motif; other site 316058002814 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 316058002815 dimer interface [polypeptide binding]; other site 316058002816 phosphorylation site [posttranslational modification] 316058002817 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 316058002818 ATP binding site [chemical binding]; other site 316058002819 Mg2+ binding site [ion binding]; other site 316058002820 G-X-G motif; other site 316058002821 Response regulator receiver domain; Region: Response_reg; pfam00072 316058002822 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058002823 active site 316058002824 phosphorylation site [posttranslational modification] 316058002825 intermolecular recognition site; other site 316058002826 dimerization interface [polypeptide binding]; other site 316058002827 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 316058002828 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 316058002829 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 316058002830 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 316058002831 Ligand binding site [chemical binding]; other site 316058002832 Electron transfer flavoprotein domain; Region: ETF; pfam01012 316058002833 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 316058002834 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 316058002835 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 316058002836 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 316058002837 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 316058002838 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316058002839 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058002840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058002841 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 316058002842 putative effector binding pocket; other site 316058002843 dimerization interface [polypeptide binding]; other site 316058002844 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 316058002845 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 316058002846 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 316058002847 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 316058002848 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 316058002849 catalytic residues [active] 316058002850 argininosuccinate lyase; Provisional; Region: PRK00855 316058002851 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 316058002852 active sites [active] 316058002853 tetramer interface [polypeptide binding]; other site 316058002854 diaminopimelate decarboxylase; Region: lysA; TIGR01048 316058002855 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 316058002856 active site 316058002857 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316058002858 substrate binding site [chemical binding]; other site 316058002859 catalytic residues [active] 316058002860 dimer interface [polypeptide binding]; other site 316058002861 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 316058002862 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 316058002863 Response regulator receiver domain; Region: Response_reg; pfam00072 316058002864 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058002865 active site 316058002866 phosphorylation site [posttranslational modification] 316058002867 intermolecular recognition site; other site 316058002868 dimerization interface [polypeptide binding]; other site 316058002869 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 316058002870 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 316058002871 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 316058002872 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 316058002873 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316058002874 Walker A/P-loop; other site 316058002875 ATP binding site [chemical binding]; other site 316058002876 Q-loop/lid; other site 316058002877 ABC transporter signature motif; other site 316058002878 Walker B; other site 316058002879 D-loop; other site 316058002880 H-loop/switch region; other site 316058002881 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 316058002882 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 316058002883 Uncharacterized conserved protein [Function unknown]; Region: COG1434 316058002884 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 316058002885 putative active site [active] 316058002886 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 316058002887 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 316058002888 putative acyl-acceptor binding pocket; other site 316058002889 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 316058002890 putative active site pocket [active] 316058002891 dimerization interface [polypeptide binding]; other site 316058002892 putative catalytic residue [active] 316058002893 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 316058002894 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 316058002895 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316058002896 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058002897 Walker A/P-loop; other site 316058002898 ATP binding site [chemical binding]; other site 316058002899 Q-loop/lid; other site 316058002900 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316058002901 ABC transporter signature motif; other site 316058002902 Walker B; other site 316058002903 D-loop; other site 316058002904 ABC transporter; Region: ABC_tran_2; pfam12848 316058002905 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316058002906 Transposase; Region: DEDD_Tnp_IS110; pfam01548 316058002907 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 316058002908 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 316058002909 agmatinase; Region: agmatinase; TIGR01230 316058002910 Arginase family; Region: Arginase; cd09989 316058002911 active site 316058002912 Mn binding site [ion binding]; other site 316058002913 oligomer interface [polypeptide binding]; other site 316058002914 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 316058002915 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 316058002916 homodimer interface [polypeptide binding]; other site 316058002917 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 316058002918 active site pocket [active] 316058002919 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 316058002920 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316058002921 active site 316058002922 5'-3' exonuclease; Region: 53EXOc; smart00475 316058002923 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 316058002924 active site 316058002925 metal binding site 1 [ion binding]; metal-binding site 316058002926 putative 5' ssDNA interaction site; other site 316058002927 metal binding site 3; metal-binding site 316058002928 metal binding site 2 [ion binding]; metal-binding site 316058002929 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 316058002930 putative DNA binding site [nucleotide binding]; other site 316058002931 putative metal binding site [ion binding]; other site 316058002932 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 316058002933 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 316058002934 active site 316058002935 catalytic site [active] 316058002936 substrate binding site [chemical binding]; other site 316058002937 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 316058002938 active site 316058002939 DNA binding site [nucleotide binding] 316058002940 catalytic site [active] 316058002941 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Provisional; Region: PRK12779 316058002942 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316058002943 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 316058002944 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 316058002945 FAD binding pocket [chemical binding]; other site 316058002946 FAD binding motif [chemical binding]; other site 316058002947 phosphate binding motif [ion binding]; other site 316058002948 beta-alpha-beta structure motif; other site 316058002949 NAD binding pocket [chemical binding]; other site 316058002950 Iron coordination center [ion binding]; other site 316058002951 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 316058002952 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 316058002953 dimer interface [polypeptide binding]; other site 316058002954 PYR/PP interface [polypeptide binding]; other site 316058002955 TPP binding site [chemical binding]; other site 316058002956 substrate binding site [chemical binding]; other site 316058002957 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 316058002958 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 316058002959 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 316058002960 4Fe-4S binding domain; Region: Fer4_6; pfam12837 316058002961 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 316058002962 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 316058002963 dimer interface [polypeptide binding]; other site 316058002964 TPP-binding site [chemical binding]; other site 316058002965 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 316058002966 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 316058002967 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 316058002968 dimerization interface [polypeptide binding]; other site 316058002969 DPS ferroxidase diiron center [ion binding]; other site 316058002970 ion pore; other site 316058002971 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 316058002972 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 316058002973 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 316058002974 molybdenum-pterin binding domain; Region: Mop; TIGR00638 316058002975 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 316058002976 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 316058002977 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316058002978 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 316058002979 putative PBP binding loops; other site 316058002980 dimer interface [polypeptide binding]; other site 316058002981 ABC-ATPase subunit interface; other site 316058002982 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 316058002983 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058002984 Walker A/P-loop; other site 316058002985 ATP binding site [chemical binding]; other site 316058002986 Q-loop/lid; other site 316058002987 ABC transporter signature motif; other site 316058002988 Walker B; other site 316058002989 D-loop; other site 316058002990 H-loop/switch region; other site 316058002991 TOBE domain; Region: TOBE; pfam03459 316058002992 Peptidase S8 family domain in Thiazoline oxidase/subtilisin-like proteases; Region: Peptidases_S8_thiazoline_oxidase_subtilisin-like_p; cd07476 316058002993 putative active site [active] 316058002994 putative catalytic triad [active] 316058002995 Predicted integral membrane protein [Function unknown]; Region: COG5616 316058002996 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 316058002997 TPR motif; other site 316058002998 binding surface 316058002999 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 316058003000 TPR motif; other site 316058003001 TPR repeat; Region: TPR_11; pfam13414 316058003002 binding surface 316058003003 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316058003004 Cytochrome P450; Region: p450; cl12078 316058003005 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 316058003006 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 316058003007 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 316058003008 active site 2 [active] 316058003009 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 316058003010 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 316058003011 FMN binding site [chemical binding]; other site 316058003012 substrate binding site [chemical binding]; other site 316058003013 putative catalytic residue [active] 316058003014 Predicted membrane protein [Function unknown]; Region: COG1238 316058003015 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 316058003016 metal binding site [ion binding]; metal-binding site 316058003017 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 316058003018 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316058003019 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 316058003020 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 316058003021 active site 316058003022 Fe(II) binding site [ion binding]; other site 316058003023 dimer interface [polypeptide binding]; other site 316058003024 tetramer interface [polypeptide binding]; other site 316058003025 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 316058003026 tetramer interface [polypeptide binding]; other site 316058003027 dimer interface [polypeptide binding]; other site 316058003028 active site 316058003029 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 316058003030 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 316058003031 active site 316058003032 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 316058003033 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 316058003034 NAD binding site [chemical binding]; other site 316058003035 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 316058003036 hypothetical protein; Provisional; Region: PRK09262 316058003037 Amidohydrolase; Region: Amidohydro_2; pfam04909 316058003038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 316058003039 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058003040 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058003041 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 316058003042 putative dimerization interface [polypeptide binding]; other site 316058003043 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 316058003044 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 316058003045 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 316058003046 active site 316058003047 FMN binding site [chemical binding]; other site 316058003048 substrate binding site [chemical binding]; other site 316058003049 homotetramer interface [polypeptide binding]; other site 316058003050 catalytic residue [active] 316058003051 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 316058003052 FAD binding domain; Region: FAD_binding_2; pfam00890 316058003053 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 316058003054 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 316058003055 Cu(I) binding site [ion binding]; other site 316058003056 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 316058003057 active site 316058003058 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 316058003059 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 316058003060 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 316058003061 substrate binding pocket [chemical binding]; other site 316058003062 membrane-bound complex binding site; other site 316058003063 hinge residues; other site 316058003064 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 316058003065 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316058003066 active site 316058003067 nucleotide binding site [chemical binding]; other site 316058003068 HIGH motif; other site 316058003069 KMSKS motif; other site 316058003070 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 316058003071 dimerization interface [polypeptide binding]; other site 316058003072 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058003073 dimer interface [polypeptide binding]; other site 316058003074 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316058003075 putative CheW interface [polypeptide binding]; other site 316058003076 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 316058003077 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058003078 HAMP domain; Region: HAMP; pfam00672 316058003079 dimerization interface [polypeptide binding]; other site 316058003080 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316058003081 GAF domain; Region: GAF; pfam01590 316058003082 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316058003083 cyclase homology domain; Region: CHD; cd07302 316058003084 nucleotidyl binding site; other site 316058003085 metal binding site [ion binding]; metal-binding site 316058003086 dimer interface [polypeptide binding]; other site 316058003087 AsmA family; Region: AsmA; pfam05170 316058003088 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316058003089 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058003090 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 316058003091 ligand binding site [chemical binding]; other site 316058003092 flexible hinge region; other site 316058003093 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316058003094 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 316058003095 Protein export membrane protein; Region: SecD_SecF; cl14618 316058003096 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 316058003097 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058003098 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316058003099 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 316058003100 ligand binding site [chemical binding]; other site 316058003101 Caspase domain; Region: Peptidase_C14; pfam00656 316058003102 TPR repeat; Region: TPR_11; pfam13414 316058003103 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 316058003104 binding surface 316058003105 TPR motif; other site 316058003106 Caspase domain; Region: Peptidase_C14; pfam00656 316058003107 active site 316058003108 proteolytic cleavage site; other site 316058003109 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 316058003110 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316058003111 ligand binding site [chemical binding]; other site 316058003112 Autotransporter beta-domain; Region: Autotransporter; smart00869 316058003113 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316058003114 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316058003115 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 316058003116 MarR family; Region: MarR_2; cl17246 316058003117 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 316058003118 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316058003119 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 316058003120 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316058003121 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 316058003122 maleylacetoacetate isomerase; Region: maiA; TIGR01262 316058003123 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 316058003124 C-terminal domain interface [polypeptide binding]; other site 316058003125 GSH binding site (G-site) [chemical binding]; other site 316058003126 putative dimer interface [polypeptide binding]; other site 316058003127 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 316058003128 dimer interface [polypeptide binding]; other site 316058003129 N-terminal domain interface [polypeptide binding]; other site 316058003130 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 316058003131 fumarylacetoacetase; Region: PLN02856 316058003132 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 316058003133 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 316058003134 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316058003135 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316058003136 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 316058003137 FAD binding domain; Region: FAD_binding_4; pfam01565 316058003138 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 316058003139 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316058003140 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316058003141 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058003142 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 316058003143 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 316058003144 catalytic loop [active] 316058003145 iron binding site [ion binding]; other site 316058003146 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 316058003147 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316058003148 HAMP domain; Region: HAMP; pfam00672 316058003149 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316058003150 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058003151 dimer interface [polypeptide binding]; other site 316058003152 putative CheW interface [polypeptide binding]; other site 316058003153 benzoate transport; Region: 2A0115; TIGR00895 316058003154 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 316058003155 putative substrate translocation pore; other site 316058003156 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 316058003157 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 316058003158 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 316058003159 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 316058003160 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 316058003161 active site 316058003162 homotetramer interface [polypeptide binding]; other site 316058003163 DEAD/DEAH box helicase; Region: DEAD; pfam00270 316058003164 RecO N terminal; Region: RecO_N_2; cl15812 316058003165 Phage Tail Collar Domain; Region: Collar; pfam07484 316058003166 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 316058003167 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 316058003168 T5orf172 domain; Region: T5orf172; pfam10544 316058003169 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 316058003170 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 316058003171 catalytic residues [active] 316058003172 catalytic nucleophile [active] 316058003173 Recombinase; Region: Recombinase; pfam07508 316058003174 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 316058003175 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 316058003176 active site 316058003177 DNA binding site [nucleotide binding] 316058003178 Int/Topo IB signature motif; other site 316058003179 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 316058003180 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 316058003181 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 316058003182 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 316058003183 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 316058003184 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 316058003185 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 316058003186 Walker A/P-loop; other site 316058003187 ATP binding site [chemical binding]; other site 316058003188 Q-loop/lid; other site 316058003189 ABC transporter signature motif; other site 316058003190 Walker B; other site 316058003191 D-loop; other site 316058003192 H-loop/switch region; other site 316058003193 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 316058003194 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 316058003195 Walker A/P-loop; other site 316058003196 ATP binding site [chemical binding]; other site 316058003197 Q-loop/lid; other site 316058003198 ABC transporter signature motif; other site 316058003199 Walker B; other site 316058003200 D-loop; other site 316058003201 H-loop/switch region; other site 316058003202 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058003203 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 316058003204 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 316058003205 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 316058003206 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316058003207 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 316058003208 Walker A/P-loop; other site 316058003209 ATP binding site [chemical binding]; other site 316058003210 Q-loop/lid; other site 316058003211 ABC transporter signature motif; other site 316058003212 Walker B; other site 316058003213 D-loop; other site 316058003214 H-loop/switch region; other site 316058003215 Predicted amidohydrolase [General function prediction only]; Region: COG0388 316058003216 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 316058003217 active site 316058003218 catalytic triad [active] 316058003219 dimer interface [polypeptide binding]; other site 316058003220 Predicted amidohydrolase [General function prediction only]; Region: COG0388 316058003221 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 316058003222 active site 316058003223 catalytic triad [active] 316058003224 dimer interface [polypeptide binding]; other site 316058003225 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058003226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058003227 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 316058003228 dimerization interface [polypeptide binding]; other site 316058003229 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316058003230 MarR family; Region: MarR_2; pfam12802 316058003231 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058003232 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 316058003233 putative ligand binding site [chemical binding]; other site 316058003234 amidase; Provisional; Region: PRK07235 316058003235 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 316058003236 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 316058003237 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058003238 TM-ABC transporter signature motif; other site 316058003239 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058003240 Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); Region: PBP1_AmiC_like; cd06331 316058003241 ligand binding site [chemical binding]; other site 316058003242 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058003243 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 316058003244 TM-ABC transporter signature motif; other site 316058003245 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 316058003246 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058003247 Walker A/P-loop; other site 316058003248 ATP binding site [chemical binding]; other site 316058003249 Q-loop/lid; other site 316058003250 ABC transporter signature motif; other site 316058003251 Walker B; other site 316058003252 D-loop; other site 316058003253 H-loop/switch region; other site 316058003254 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058003255 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058003256 Walker A/P-loop; other site 316058003257 ATP binding site [chemical binding]; other site 316058003258 Q-loop/lid; other site 316058003259 ABC transporter signature motif; other site 316058003260 Walker B; other site 316058003261 D-loop; other site 316058003262 H-loop/switch region; other site 316058003263 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 316058003264 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 316058003265 putative active site [active] 316058003266 metal binding site [ion binding]; metal-binding site 316058003267 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 316058003268 metal binding site [ion binding]; metal-binding site 316058003269 active site 316058003270 phosphoribulokinase; Provisional; Region: PRK15453 316058003271 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 316058003272 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 316058003273 TPP-binding site [chemical binding]; other site 316058003274 dimer interface [polypeptide binding]; other site 316058003275 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 316058003276 PYR/PP interface [polypeptide binding]; other site 316058003277 dimer interface [polypeptide binding]; other site 316058003278 TPP binding site [chemical binding]; other site 316058003279 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316058003280 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 316058003281 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 316058003282 intersubunit interface [polypeptide binding]; other site 316058003283 active site 316058003284 zinc binding site [ion binding]; other site 316058003285 Na+ binding site [ion binding]; other site 316058003286 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 316058003287 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 316058003288 dimer interface [polypeptide binding]; other site 316058003289 active site 316058003290 catalytic residue [active] 316058003291 metal binding site [ion binding]; metal-binding site 316058003292 FeoA domain; Region: FeoA; cl00838 316058003293 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 316058003294 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 316058003295 G1 box; other site 316058003296 GTP/Mg2+ binding site [chemical binding]; other site 316058003297 Switch I region; other site 316058003298 G2 box; other site 316058003299 G3 box; other site 316058003300 Switch II region; other site 316058003301 G4 box; other site 316058003302 G5 box; other site 316058003303 Nucleoside recognition; Region: Gate; pfam07670 316058003304 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 316058003305 Nucleoside recognition; Region: Gate; pfam07670 316058003306 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 316058003307 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316058003308 classical (c) SDRs; Region: SDR_c; cd05233 316058003309 NAD(P) binding site [chemical binding]; other site 316058003310 active site 316058003311 Nif-specific regulatory protein; Region: nifA; TIGR01817 316058003312 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316058003313 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 316058003314 Walker A motif; other site 316058003315 ATP binding site [chemical binding]; other site 316058003316 Walker B motif; other site 316058003317 arginine finger; other site 316058003318 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316058003319 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 316058003320 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 316058003321 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 316058003322 FeS/SAM binding site; other site 316058003323 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 316058003324 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 316058003325 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; pfam01521 316058003326 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 316058003327 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 316058003328 NifZ domain; Region: NifZ; pfam04319 316058003329 NifZ domain; Region: NifZ; pfam04319 316058003330 NifT/FixU protein; Region: NifT; pfam06988 316058003331 SIR2-like domain; Region: SIR2_2; pfam13289 316058003332 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 316058003333 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 316058003334 Nucleotide-binding sites [chemical binding]; other site 316058003335 Walker A motif; other site 316058003336 Switch I region of nucleotide binding site; other site 316058003337 Fe4S4 binding sites [ion binding]; other site 316058003338 Switch II region of nucleotide binding site; other site 316058003339 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 316058003340 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 316058003341 MoFe protein alpha/beta subunit interactions; other site 316058003342 Alpha subunit P cluster binding residues; other site 316058003343 FeMoco binding residues [chemical binding]; other site 316058003344 MoFe protein alpha subunit/Fe protein contacts; other site 316058003345 MoFe protein dimer/ dimer interactions; other site 316058003346 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 316058003347 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 316058003348 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 316058003349 MoFe protein beta/alpha subunit interactions; other site 316058003350 Beta subunit P cluster binding residues; other site 316058003351 MoFe protein beta subunit/Fe protein contacts; other site 316058003352 MoFe protein dimer/ dimer interactions; other site 316058003353 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 316058003354 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 316058003355 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 316058003356 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 316058003357 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 316058003358 probable nitrogen fixation protein; Region: TIGR02935 316058003359 Rop-like; Region: Rop-like; pfam05082 316058003360 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 316058003361 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 316058003362 NifQ; Region: NifQ; pfam04891 316058003363 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 316058003364 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 316058003365 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 316058003366 trimerization site [polypeptide binding]; other site 316058003367 active site 316058003368 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 316058003369 NifU-like domain; Region: NifU; pfam01106 316058003370 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 316058003371 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 316058003372 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058003373 catalytic residue [active] 316058003374 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 316058003375 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 316058003376 active site 316058003377 catalytic residues [active] 316058003378 metal binding site [ion binding]; metal-binding site 316058003379 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK00810 316058003380 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 316058003381 Ligand binding site [chemical binding]; other site 316058003382 Electron transfer flavoprotein domain; Region: ETF; pfam01012 316058003383 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 316058003384 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 316058003385 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 316058003386 oxidoreductase; Provisional; Region: PRK10015 316058003387 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 316058003388 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 316058003389 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 316058003390 acyl carrier protein; Provisional; Region: PRK07081 316058003391 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 316058003392 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058003393 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 316058003394 dimer interface [polypeptide binding]; other site 316058003395 motif 1; other site 316058003396 active site 316058003397 motif 2; other site 316058003398 motif 3; other site 316058003399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058003400 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 316058003401 NAD(P) binding site [chemical binding]; other site 316058003402 active site 316058003403 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058003404 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 316058003405 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058003406 acyl-activating enzyme (AAE) consensus motif; other site 316058003407 acyl-activating enzyme (AAE) consensus motif; other site 316058003408 AMP binding site [chemical binding]; other site 316058003409 active site 316058003410 CoA binding site [chemical binding]; other site 316058003411 thiamine pyrophosphate protein; Validated; Region: PRK08199 316058003412 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316058003413 PYR/PP interface [polypeptide binding]; other site 316058003414 dimer interface [polypeptide binding]; other site 316058003415 TPP binding site [chemical binding]; other site 316058003416 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316058003417 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 316058003418 TPP-binding site [chemical binding]; other site 316058003419 aminotransferase; Provisional; Region: PRK13356 316058003420 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 316058003421 homodimer interface [polypeptide binding]; other site 316058003422 substrate-cofactor binding pocket; other site 316058003423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058003424 catalytic residue [active] 316058003425 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 316058003426 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 316058003427 acyl-activating enzyme (AAE) consensus motif; other site 316058003428 putative AMP binding site [chemical binding]; other site 316058003429 putative active site [active] 316058003430 putative CoA binding site [chemical binding]; other site 316058003431 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 316058003432 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 316058003433 homodimer interface [polypeptide binding]; other site 316058003434 substrate-cofactor binding pocket; other site 316058003435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058003436 catalytic residue [active] 316058003437 homoserine O-succinyltransferase; Provisional; Region: PRK05368 316058003438 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 316058003439 conserved cys residue [active] 316058003440 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 316058003441 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 316058003442 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 316058003443 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 316058003444 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 316058003445 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316058003446 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 316058003447 Chain length determinant protein; Region: Wzz; pfam02706 316058003448 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 316058003449 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 316058003450 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 316058003451 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 316058003452 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 316058003453 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 316058003454 NAD binding site [chemical binding]; other site 316058003455 homodimer interface [polypeptide binding]; other site 316058003456 active site 316058003457 substrate binding site [chemical binding]; other site 316058003458 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 316058003459 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316058003460 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 316058003461 protein binding site [polypeptide binding]; other site 316058003462 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 316058003463 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 316058003464 putative ligand binding site [chemical binding]; other site 316058003465 Isochorismatase family; Region: Isochorismatase; pfam00857 316058003466 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 316058003467 catalytic triad [active] 316058003468 conserved cis-peptide bond; other site 316058003469 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 316058003470 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316058003471 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 316058003472 protein binding site [polypeptide binding]; other site 316058003473 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 316058003474 protein binding site [polypeptide binding]; other site 316058003475 Predicted membrane protein [Function unknown]; Region: COG4325 316058003476 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 316058003477 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 316058003478 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 316058003479 active site 316058003480 homotetramer interface [polypeptide binding]; other site 316058003481 BA14K-like protein; Region: BA14K; pfam07886 316058003482 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 316058003483 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 316058003484 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 316058003485 NAD binding site [chemical binding]; other site 316058003486 homotetramer interface [polypeptide binding]; other site 316058003487 homodimer interface [polypeptide binding]; other site 316058003488 substrate binding site [chemical binding]; other site 316058003489 active site 316058003490 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 316058003491 (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 316058003492 dimer interaction site [polypeptide binding]; other site 316058003493 substrate-binding tunnel; other site 316058003494 active site 316058003495 catalytic site [active] 316058003496 substrate binding site [chemical binding]; other site 316058003497 phosphate acetyltransferase; Provisional; Region: PRK11890 316058003498 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 316058003499 propionate/acetate kinase; Provisional; Region: PRK12379 316058003500 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058003501 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058003502 metal binding site [ion binding]; metal-binding site 316058003503 active site 316058003504 I-site; other site 316058003505 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 316058003506 CoenzymeA binding site [chemical binding]; other site 316058003507 subunit interaction site [polypeptide binding]; other site 316058003508 PHB binding site; other site 316058003509 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 316058003510 CoenzymeA binding site [chemical binding]; other site 316058003511 subunit interaction site [polypeptide binding]; other site 316058003512 PHB binding site; other site 316058003513 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 316058003514 dimerization interface [polypeptide binding]; other site 316058003515 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058003516 dimer interface [polypeptide binding]; other site 316058003517 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316058003518 putative CheW interface [polypeptide binding]; other site 316058003519 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 316058003520 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 316058003521 Catalytic site; other site 316058003522 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 316058003523 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 316058003524 putative ADP-binding pocket [chemical binding]; other site 316058003525 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 316058003526 Protein of unknown function, DUF608; Region: DUF608; pfam04685 316058003527 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 316058003528 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 316058003529 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 316058003530 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 316058003531 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058003532 Walker A/P-loop; other site 316058003533 ATP binding site [chemical binding]; other site 316058003534 Q-loop/lid; other site 316058003535 ABC transporter signature motif; other site 316058003536 Walker B; other site 316058003537 D-loop; other site 316058003538 H-loop/switch region; other site 316058003539 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058003540 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058003541 Walker A/P-loop; other site 316058003542 ATP binding site [chemical binding]; other site 316058003543 Q-loop/lid; other site 316058003544 ABC transporter signature motif; other site 316058003545 Walker B; other site 316058003546 D-loop; other site 316058003547 H-loop/switch region; other site 316058003548 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058003549 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 316058003550 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 316058003551 dimer interface [polypeptide binding]; other site 316058003552 conserved gate region; other site 316058003553 putative PBP binding loops; other site 316058003554 ABC-ATPase subunit interface; other site 316058003555 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316058003556 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 316058003557 dimer interface [polypeptide binding]; other site 316058003558 conserved gate region; other site 316058003559 putative PBP binding loops; other site 316058003560 ABC-ATPase subunit interface; other site 316058003561 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316058003562 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 316058003563 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 316058003564 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 316058003565 CysD dimerization site [polypeptide binding]; other site 316058003566 G1 box; other site 316058003567 putative GEF interaction site [polypeptide binding]; other site 316058003568 GTP/Mg2+ binding site [chemical binding]; other site 316058003569 Switch I region; other site 316058003570 G2 box; other site 316058003571 G3 box; other site 316058003572 Switch II region; other site 316058003573 G4 box; other site 316058003574 G5 box; other site 316058003575 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 316058003576 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 316058003577 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 316058003578 ligand-binding site [chemical binding]; other site 316058003579 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 316058003580 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 316058003581 Active Sites [active] 316058003582 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 316058003583 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 316058003584 Active Sites [active] 316058003585 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 316058003586 substrate binding pocket [chemical binding]; other site 316058003587 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 316058003588 membrane-bound complex binding site; other site 316058003589 hinge residues; other site 316058003590 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 316058003591 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 316058003592 dimer interface [polypeptide binding]; other site 316058003593 conserved gate region; other site 316058003594 putative PBP binding loops; other site 316058003595 ABC-ATPase subunit interface; other site 316058003596 sulfate transport protein; Provisional; Region: cysT; CHL00187 316058003597 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 316058003598 dimer interface [polypeptide binding]; other site 316058003599 conserved gate region; other site 316058003600 putative PBP binding loops; other site 316058003601 ABC-ATPase subunit interface; other site 316058003602 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 316058003603 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 316058003604 Walker A/P-loop; other site 316058003605 ATP binding site [chemical binding]; other site 316058003606 Q-loop/lid; other site 316058003607 ABC transporter signature motif; other site 316058003608 Walker B; other site 316058003609 D-loop; other site 316058003610 H-loop/switch region; other site 316058003611 TOBE-like domain; Region: TOBE_3; pfam12857 316058003612 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316058003613 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316058003614 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 316058003615 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 316058003616 dimerization interface [polypeptide binding]; other site 316058003617 putative DNA binding site [nucleotide binding]; other site 316058003618 putative Zn2+ binding site [ion binding]; other site 316058003619 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 316058003620 active site residue [active] 316058003621 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 316058003622 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 316058003623 S-adenosylmethionine binding site [chemical binding]; other site 316058003624 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 316058003625 putative catalytic residues [active] 316058003626 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 316058003627 putative molybdenum utilization protein ModD; Region: modD; TIGR01334 316058003628 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 316058003629 dimerization interface [polypeptide binding]; other site 316058003630 active site 316058003631 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 316058003632 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058003633 acyl-activating enzyme (AAE) consensus motif; other site 316058003634 AMP binding site [chemical binding]; other site 316058003635 active site 316058003636 CoA binding site [chemical binding]; other site 316058003637 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 316058003638 active site 316058003639 Ap6A binding site [chemical binding]; other site 316058003640 nudix motif; other site 316058003641 metal binding site [ion binding]; metal-binding site 316058003642 protocatechuate 4,5-dioxygenase subunit alpha; Provisional; Region: PRK13378 316058003643 dimer interface [polypeptide binding]; other site 316058003644 tetramer interface [polypeptide binding]; other site 316058003645 The B subunit of unknown Class III extradiol dioxygenases with similarity to Protocatechuate 4,5-dioxygenase; Region: PCA_45_Doxase_B_like_1; cd07949 316058003646 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 316058003647 putative active site [active] 316058003648 Fe(II) binding site [ion binding]; other site 316058003649 putative dimer interface [polypeptide binding]; other site 316058003650 putative tetramer interface [polypeptide binding]; other site 316058003651 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316058003652 Cytochrome P450; Region: p450; cl12078 316058003653 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 316058003654 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316058003655 SCP-2 sterol transfer family; Region: SCP2; pfam02036 316058003656 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 316058003657 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 316058003658 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 316058003659 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 316058003660 AAA domain; Region: AAA_23; pfam13476 316058003661 Walker A/P-loop; other site 316058003662 ATP binding site [chemical binding]; other site 316058003663 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 316058003664 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 316058003665 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 316058003666 ABC transporter signature motif; other site 316058003667 Walker B; other site 316058003668 D-loop; other site 316058003669 H-loop/switch region; other site 316058003670 Thioredoxin; Region: Thioredoxin_4; pfam13462 316058003671 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 316058003672 Protein of unknown function (DUF721); Region: DUF721; cl02324 316058003673 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 316058003674 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 316058003675 minor groove reading motif; other site 316058003676 helix-hairpin-helix signature motif; other site 316058003677 substrate binding pocket [chemical binding]; other site 316058003678 active site 316058003679 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 316058003680 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 316058003681 DNA binding and oxoG recognition site [nucleotide binding] 316058003682 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 316058003683 PAS fold; Region: PAS_3; pfam08447 316058003684 putative active site [active] 316058003685 heme pocket [chemical binding]; other site 316058003686 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316058003687 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058003688 dimer interface [polypeptide binding]; other site 316058003689 putative CheW interface [polypeptide binding]; other site 316058003690 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 316058003691 DNA methylase; Region: N6_N4_Mtase; pfam01555 316058003692 Predicted metalloprotease [General function prediction only]; Region: COG2321 316058003693 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 316058003694 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 316058003695 MPT binding site; other site 316058003696 trimer interface [polypeptide binding]; other site 316058003697 Coenzyme A transferase; Region: CoA_trans; smart00882 316058003698 Coenzyme A transferase; Region: CoA_trans; smart00882 316058003699 MarR family; Region: MarR_2; pfam12802 316058003700 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316058003701 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316058003702 Coenzyme A binding pocket [chemical binding]; other site 316058003703 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 316058003704 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 316058003705 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 316058003706 FeS/SAM binding site; other site 316058003707 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 316058003708 RNA/DNA hybrid binding site [nucleotide binding]; other site 316058003709 active site 316058003710 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 316058003711 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 316058003712 Fe-S cluster binding site [ion binding]; other site 316058003713 active site 316058003714 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 316058003715 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 316058003716 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 316058003717 binding surface 316058003718 TPR motif; other site 316058003719 TPR repeat; Region: TPR_11; pfam13414 316058003720 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 316058003721 binding surface 316058003722 TPR motif; other site 316058003723 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 316058003724 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 316058003725 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 316058003726 substrate binding pocket [chemical binding]; other site 316058003727 chain length determination region; other site 316058003728 substrate-Mg2+ binding site; other site 316058003729 catalytic residues [active] 316058003730 aspartate-rich region 1; other site 316058003731 active site lid residues [active] 316058003732 aspartate-rich region 2; other site 316058003733 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 316058003734 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 316058003735 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 316058003736 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 316058003737 tandem repeat interface [polypeptide binding]; other site 316058003738 oligomer interface [polypeptide binding]; other site 316058003739 active site residues [active] 316058003740 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 316058003741 dimer interface [polypeptide binding]; other site 316058003742 motif 1; other site 316058003743 active site 316058003744 motif 2; other site 316058003745 motif 3; other site 316058003746 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 316058003747 putative active site [active] 316058003748 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 316058003749 Predicted membrane protein [Function unknown]; Region: COG3174 316058003750 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 316058003751 pyruvate phosphate dikinase; Provisional; Region: PRK09279 316058003752 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 316058003753 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316058003754 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316058003755 YtkA-like; Region: YtkA; pfam13115 316058003756 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316058003757 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058003758 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 316058003759 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 316058003760 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 316058003761 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 316058003762 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 316058003763 dimerization interface [polypeptide binding]; other site 316058003764 active site 316058003765 L-aspartate oxidase; Provisional; Region: PRK07512 316058003766 L-aspartate oxidase; Provisional; Region: PRK06175 316058003767 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 316058003768 quinolinate synthetase; Provisional; Region: PRK09375 316058003769 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 316058003770 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 316058003771 NADP binding site [chemical binding]; other site 316058003772 dimer interface [polypeptide binding]; other site 316058003773 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 316058003774 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 316058003775 N-terminal plug; other site 316058003776 ligand-binding site [chemical binding]; other site 316058003777 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 316058003778 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 316058003779 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 316058003780 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 316058003781 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 316058003782 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 316058003783 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 316058003784 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 316058003785 dihydroorotase; Validated; Region: PRK09060 316058003786 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 316058003787 active site 316058003788 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 316058003789 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316058003790 DNA-binding site [nucleotide binding]; DNA binding site 316058003791 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 316058003792 NMT1-like family; Region: NMT1_2; pfam13379 316058003793 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 316058003794 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316058003795 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316058003796 Walker A/P-loop; other site 316058003797 ATP binding site [chemical binding]; other site 316058003798 Q-loop/lid; other site 316058003799 ABC transporter signature motif; other site 316058003800 Walker B; other site 316058003801 D-loop; other site 316058003802 H-loop/switch region; other site 316058003803 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058003804 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 316058003805 putative PBP binding loops; other site 316058003806 ABC-ATPase subunit interface; other site 316058003807 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 316058003808 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 316058003809 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 316058003810 hydroxyglutarate oxidase; Provisional; Region: PRK11728 316058003811 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 316058003812 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 316058003813 nudix motif; other site 316058003814 Uncharacterized conserved protein [Function unknown]; Region: COG2135 316058003815 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 316058003816 FAD binding domain; Region: FAD_binding_4; pfam01565 316058003817 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 316058003818 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 316058003819 tyramine oxidase; Provisional; Region: tynA; PRK11504 316058003820 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 316058003821 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 316058003822 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 316058003823 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 316058003824 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316058003825 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058003826 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 316058003827 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 316058003828 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 316058003829 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 316058003830 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 316058003831 active site 316058003832 FMN binding site [chemical binding]; other site 316058003833 substrate binding site [chemical binding]; other site 316058003834 3Fe-4S cluster binding site [ion binding]; other site 316058003835 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 316058003836 domain_subunit interface; other site 316058003837 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 316058003838 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 316058003839 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 316058003840 putative active site [active] 316058003841 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 316058003842 non-specific DNA binding site [nucleotide binding]; other site 316058003843 salt bridge; other site 316058003844 sequence-specific DNA binding site [nucleotide binding]; other site 316058003845 Cupin domain; Region: Cupin_2; pfam07883 316058003846 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 316058003847 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 316058003848 conserved cys residue [active] 316058003849 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058003850 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 316058003851 hydroxyglutarate oxidase; Provisional; Region: PRK11728 316058003852 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 316058003853 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 316058003854 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 316058003855 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 316058003856 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 316058003857 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 316058003858 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 316058003859 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 316058003860 putative active site [active] 316058003861 putative substrate binding site [chemical binding]; other site 316058003862 putative cosubstrate binding site; other site 316058003863 catalytic site [active] 316058003864 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058003865 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058003866 active site 316058003867 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 316058003868 aspartate racemase; Region: asp_race; TIGR00035 316058003869 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316058003870 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 316058003871 NAD(P) binding site [chemical binding]; other site 316058003872 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 316058003873 CoenzymeA binding site [chemical binding]; other site 316058003874 subunit interaction site [polypeptide binding]; other site 316058003875 PHB binding site; other site 316058003876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058003877 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 316058003878 NAD(P) binding site [chemical binding]; other site 316058003879 active site 316058003880 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316058003881 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 316058003882 putative DNA binding site [nucleotide binding]; other site 316058003883 putative Zn2+ binding site [ion binding]; other site 316058003884 AsnC family; Region: AsnC_trans_reg; pfam01037 316058003885 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058003886 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 316058003887 putative ligand binding site [chemical binding]; other site 316058003888 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 316058003889 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058003890 acyl-activating enzyme (AAE) consensus motif; other site 316058003891 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058003892 acyl-activating enzyme (AAE) consensus motif; other site 316058003893 AMP binding site [chemical binding]; other site 316058003894 active site 316058003895 CoA binding site [chemical binding]; other site 316058003896 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 316058003897 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 316058003898 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058003899 catalytic residue [active] 316058003900 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058003901 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 316058003902 ligand binding site [chemical binding]; other site 316058003903 flexible hinge region; other site 316058003904 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 316058003905 non-specific DNA interactions [nucleotide binding]; other site 316058003906 DNA binding site [nucleotide binding] 316058003907 sequence specific DNA binding site [nucleotide binding]; other site 316058003908 putative cAMP binding site [chemical binding]; other site 316058003909 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 316058003910 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 316058003911 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 316058003912 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 316058003913 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 316058003914 dimerization interface [polypeptide binding]; other site 316058003915 active site 316058003916 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 316058003917 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058003918 FAD binding site [chemical binding]; other site 316058003919 substrate binding pocket [chemical binding]; other site 316058003920 catalytic base [active] 316058003921 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316058003922 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 316058003923 putative acyl-CoA synthetase; Provisional; Region: PRK06018 316058003924 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 316058003925 dimer interface [polypeptide binding]; other site 316058003926 acyl-activating enzyme (AAE) consensus motif; other site 316058003927 putative active site [active] 316058003928 AMP binding site [chemical binding]; other site 316058003929 putative CoA binding site [chemical binding]; other site 316058003930 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 316058003931 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316058003932 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058003933 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 316058003934 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 316058003935 Cl binding site [ion binding]; other site 316058003936 oligomer interface [polypeptide binding]; other site 316058003937 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 316058003938 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 316058003939 nucleoside/Zn binding site; other site 316058003940 dimer interface [polypeptide binding]; other site 316058003941 catalytic motif [active] 316058003942 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 316058003943 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 316058003944 RNA binding surface [nucleotide binding]; other site 316058003945 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 316058003946 active site 316058003947 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 316058003948 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 316058003949 S-adenosylmethionine binding site [chemical binding]; other site 316058003950 HemK family putative methylases; Region: hemK_fam; TIGR00536 316058003951 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 316058003952 S-adenosylmethionine binding site [chemical binding]; other site 316058003953 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 316058003954 MoaE homodimer interface [polypeptide binding]; other site 316058003955 MoaD interaction [polypeptide binding]; other site 316058003956 active site residues [active] 316058003957 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 316058003958 MoaE interaction surface [polypeptide binding]; other site 316058003959 MoeB interaction surface [polypeptide binding]; other site 316058003960 thiocarboxylated glycine; other site 316058003961 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 316058003962 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 316058003963 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 316058003964 GIY-YIG motif/motif A; other site 316058003965 active site 316058003966 catalytic site [active] 316058003967 putative DNA binding site [nucleotide binding]; other site 316058003968 metal binding site [ion binding]; metal-binding site 316058003969 UvrB/uvrC motif; Region: UVR; pfam02151 316058003970 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 316058003971 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316058003972 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 316058003973 DNA-binding site [nucleotide binding]; DNA binding site 316058003974 RNA-binding motif; other site 316058003975 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 316058003976 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058003977 Response regulator receiver domain; Region: Response_reg; pfam00072 316058003978 active site 316058003979 phosphorylation site [posttranslational modification] 316058003980 intermolecular recognition site; other site 316058003981 dimerization interface [polypeptide binding]; other site 316058003982 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 316058003983 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 316058003984 active site 316058003985 motif I; other site 316058003986 motif II; other site 316058003987 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 316058003988 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 316058003989 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 316058003990 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 316058003991 inhibitor-cofactor binding pocket; inhibition site 316058003992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058003993 catalytic residue [active] 316058003994 histidyl-tRNA synthetase; Region: hisS; TIGR00442 316058003995 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 316058003996 dimer interface [polypeptide binding]; other site 316058003997 motif 1; other site 316058003998 motif 2; other site 316058003999 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 316058004000 active site 316058004001 motif 3; other site 316058004002 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 316058004003 anticodon binding site; other site 316058004004 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 316058004005 active site 1 [active] 316058004006 dimer interface [polypeptide binding]; other site 316058004007 hexamer interface [polypeptide binding]; other site 316058004008 active site 2 [active] 316058004009 Predicted thioesterase [General function prediction only]; Region: COG5496 316058004010 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 316058004011 Aerotolerance regulator N-terminal; Region: BatA; cl06567 316058004012 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 316058004013 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 316058004014 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 316058004015 Protein of unknown function DUF58; Region: DUF58; pfam01882 316058004016 MoxR-like ATPases [General function prediction only]; Region: COG0714 316058004017 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 316058004018 Walker A motif; other site 316058004019 ATP binding site [chemical binding]; other site 316058004020 Walker B motif; other site 316058004021 arginine finger; other site 316058004022 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 316058004023 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 316058004024 putative active site [active] 316058004025 putative CoA binding site [chemical binding]; other site 316058004026 nudix motif; other site 316058004027 metal binding site [ion binding]; metal-binding site 316058004028 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 316058004029 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 316058004030 active site 316058004031 NTP binding site [chemical binding]; other site 316058004032 metal binding triad [ion binding]; metal-binding site 316058004033 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 316058004034 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 316058004035 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 316058004036 FeS/SAM binding site; other site 316058004037 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 316058004038 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 316058004039 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 316058004040 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 316058004041 [2Fe-2S] cluster binding site [ion binding]; other site 316058004042 cytochrome b; Provisional; Region: CYTB; MTH00191 316058004043 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 316058004044 Qi binding site; other site 316058004045 intrachain domain interface; other site 316058004046 interchain domain interface [polypeptide binding]; other site 316058004047 heme bH binding site [chemical binding]; other site 316058004048 heme bL binding site [chemical binding]; other site 316058004049 Qo binding site; other site 316058004050 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 316058004051 interchain domain interface [polypeptide binding]; other site 316058004052 intrachain domain interface; other site 316058004053 Qi binding site; other site 316058004054 Qo binding site; other site 316058004055 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 316058004056 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 316058004057 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 316058004058 classical (c) SDRs; Region: SDR_c; cd05233 316058004059 NAD(P) binding site [chemical binding]; other site 316058004060 active site 316058004061 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 316058004062 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 316058004063 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 316058004064 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 316058004065 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 316058004066 HSP70 interaction site [polypeptide binding]; other site 316058004067 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 316058004068 substrate binding site [polypeptide binding]; other site 316058004069 dimer interface [polypeptide binding]; other site 316058004070 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316058004071 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 316058004072 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 316058004073 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058004074 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 316058004075 DNA binding residues [nucleotide binding] 316058004076 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 316058004077 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 316058004078 NAD binding site [chemical binding]; other site 316058004079 homotetramer interface [polypeptide binding]; other site 316058004080 homodimer interface [polypeptide binding]; other site 316058004081 substrate binding site [chemical binding]; other site 316058004082 active site 316058004083 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 316058004084 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 316058004085 Tetramer interface [polypeptide binding]; other site 316058004086 active site 316058004087 FMN-binding site [chemical binding]; other site 316058004088 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316058004089 cyclase homology domain; Region: CHD; cd07302 316058004090 nucleotidyl binding site; other site 316058004091 metal binding site [ion binding]; metal-binding site 316058004092 dimer interface [polypeptide binding]; other site 316058004093 ATP-dependent Clp protease adaptor; Reviewed; Region: clpS; PRK13019 316058004094 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 316058004095 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 316058004096 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 316058004097 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 316058004098 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 316058004099 MoxR-like ATPases [General function prediction only]; Region: COG0714 316058004100 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316058004101 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 316058004102 Uncharacterized conserved protein [Function unknown]; Region: COG5476 316058004103 MlrC C-terminus; Region: MlrC_C; pfam07171 316058004104 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 316058004105 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058004106 Walker A/P-loop; other site 316058004107 ATP binding site [chemical binding]; other site 316058004108 Q-loop/lid; other site 316058004109 ABC transporter signature motif; other site 316058004110 Walker B; other site 316058004111 D-loop; other site 316058004112 H-loop/switch region; other site 316058004113 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058004114 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058004115 Walker A/P-loop; other site 316058004116 ATP binding site [chemical binding]; other site 316058004117 Q-loop/lid; other site 316058004118 ABC transporter signature motif; other site 316058004119 Walker B; other site 316058004120 D-loop; other site 316058004121 H-loop/switch region; other site 316058004122 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058004123 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 316058004124 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 316058004125 dimer interface [polypeptide binding]; other site 316058004126 conserved gate region; other site 316058004127 putative PBP binding loops; other site 316058004128 ABC-ATPase subunit interface; other site 316058004129 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316058004130 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 316058004131 dimer interface [polypeptide binding]; other site 316058004132 conserved gate region; other site 316058004133 putative PBP binding loops; other site 316058004134 ABC-ATPase subunit interface; other site 316058004135 hypothetical protein; Provisional; Region: PRK07338 316058004136 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 316058004137 metal binding site [ion binding]; metal-binding site 316058004138 dimer interface [polypeptide binding]; other site 316058004139 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316058004140 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 316058004141 FOG: CBS domain [General function prediction only]; Region: COG0517 316058004142 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 316058004143 CHAD domain; Region: CHAD; pfam05235 316058004144 Immunoglobulin domain; Region: Ig; cl11960 316058004145 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 316058004146 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 316058004147 dimer interface [polypeptide binding]; other site 316058004148 PYR/PP interface [polypeptide binding]; other site 316058004149 TPP binding site [chemical binding]; other site 316058004150 substrate binding site [chemical binding]; other site 316058004151 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 316058004152 TPP-binding site; other site 316058004153 4Fe-4S binding domain; Region: Fer4; pfam00037 316058004154 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 316058004155 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 316058004156 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 316058004157 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 316058004158 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 316058004159 dimer interface [polypeptide binding]; other site 316058004160 PYR/PP interface [polypeptide binding]; other site 316058004161 TPP binding site [chemical binding]; other site 316058004162 substrate binding site [chemical binding]; other site 316058004163 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 316058004164 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 316058004165 TPP-binding site [chemical binding]; other site 316058004166 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 316058004167 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 316058004168 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058004169 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 316058004170 acyl-activating enzyme (AAE) consensus motif; other site 316058004171 AMP binding site [chemical binding]; other site 316058004172 active site 316058004173 CoA binding site [chemical binding]; other site 316058004174 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 316058004175 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058004176 active site 316058004177 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 316058004178 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316058004179 active site 316058004180 enoyl-CoA hydratase; Provisional; Region: PRK08290 316058004181 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 316058004182 substrate binding site [chemical binding]; other site 316058004183 oxyanion hole (OAH) forming residues; other site 316058004184 trimer interface [polypeptide binding]; other site 316058004185 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 316058004186 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 316058004187 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 316058004188 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 316058004189 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 316058004190 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 316058004191 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058004192 acyl-activating enzyme (AAE) consensus motif; other site 316058004193 AMP binding site [chemical binding]; other site 316058004194 active site 316058004195 CoA binding site [chemical binding]; other site 316058004196 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 316058004197 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 316058004198 Response regulator receiver domain; Region: Response_reg; pfam00072 316058004199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058004200 active site 316058004201 phosphorylation site [posttranslational modification] 316058004202 intermolecular recognition site; other site 316058004203 dimerization interface [polypeptide binding]; other site 316058004204 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 316058004205 DNA binding residues [nucleotide binding] 316058004206 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 316058004207 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058004208 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 316058004209 dimer interface [polypeptide binding]; other site 316058004210 phosphorylation site [posttranslational modification] 316058004211 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 316058004212 ATP binding site [chemical binding]; other site 316058004213 Mg2+ binding site [ion binding]; other site 316058004214 G-X-G motif; other site 316058004215 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058004216 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058004217 active site 316058004218 phosphorylation site [posttranslational modification] 316058004219 intermolecular recognition site; other site 316058004220 dimerization interface [polypeptide binding]; other site 316058004221 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058004222 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 316058004223 putative ligand binding site [chemical binding]; other site 316058004224 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058004225 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 316058004226 TM-ABC transporter signature motif; other site 316058004227 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058004228 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 316058004229 TM-ABC transporter signature motif; other site 316058004230 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 316058004231 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058004232 Walker A/P-loop; other site 316058004233 ATP binding site [chemical binding]; other site 316058004234 Q-loop/lid; other site 316058004235 ABC transporter signature motif; other site 316058004236 Walker B; other site 316058004237 D-loop; other site 316058004238 H-loop/switch region; other site 316058004239 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 316058004240 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058004241 Walker A/P-loop; other site 316058004242 ATP binding site [chemical binding]; other site 316058004243 Q-loop/lid; other site 316058004244 ABC transporter signature motif; other site 316058004245 Walker B; other site 316058004246 D-loop; other site 316058004247 H-loop/switch region; other site 316058004248 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 316058004249 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 316058004250 cobalamin synthase; Reviewed; Region: cobS; PRK00235 316058004251 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 316058004252 hydrogenase 4 subunit B; Validated; Region: PRK06521 316058004253 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316058004254 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 316058004255 NADH dehydrogenase; Region: NADHdh; cl00469 316058004256 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 316058004257 hydrogenase 4 subunit F; Validated; Region: PRK06458 316058004258 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316058004259 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 316058004260 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 316058004261 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 316058004262 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 316058004263 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 316058004264 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 316058004265 active site 316058004266 catalytic triad [active] 316058004267 oxyanion hole [active] 316058004268 Autotransporter beta-domain; Region: Autotransporter; smart00869 316058004269 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 316058004270 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 316058004271 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316058004272 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 316058004273 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 316058004274 motif II; other site 316058004275 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 316058004276 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 316058004277 Ligand Binding Site [chemical binding]; other site 316058004278 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 316058004279 Ligand Binding Site [chemical binding]; other site 316058004280 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 316058004281 FAD binding domain; Region: FAD_binding_4; pfam01565 316058004282 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 316058004283 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 316058004284 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 316058004285 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 316058004286 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 316058004287 MgtE intracellular N domain; Region: MgtE_N; cl15244 316058004288 FliG C-terminal domain; Region: FliG_C; pfam01706 316058004289 flagellar assembly protein H; Validated; Region: fliH; PRK06032 316058004290 flagellar motor switch protein; Reviewed; Region: PRK08916 316058004291 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 316058004292 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 316058004293 Walker A motif; other site 316058004294 ATP binding site [chemical binding]; other site 316058004295 Walker B motif; other site 316058004296 arginine finger; other site 316058004297 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316058004298 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 316058004299 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316058004300 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316058004301 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 316058004302 AAA domain; Region: AAA_30; pfam13604 316058004303 Family description; Region: UvrD_C_2; pfam13538 316058004304 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 316058004305 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 316058004306 dimerization interface [polypeptide binding]; other site 316058004307 DPS ferroxidase diiron center [ion binding]; other site 316058004308 ion pore; other site 316058004309 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 316058004310 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 316058004311 CoenzymeA binding site [chemical binding]; other site 316058004312 subunit interaction site [polypeptide binding]; other site 316058004313 PHB binding site; other site 316058004314 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 316058004315 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 316058004316 motif II; other site 316058004317 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 316058004318 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316058004319 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 316058004320 active site 316058004321 catalytic tetrad [active] 316058004322 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 316058004323 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 316058004324 putative acyl-acceptor binding pocket; other site 316058004325 Protein of unknown function, DUF486; Region: DUF486; cl01236 316058004326 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 316058004327 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 316058004328 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 316058004329 DctM-like transporters; Region: DctM; pfam06808 316058004330 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 316058004331 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 316058004332 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316058004333 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 316058004334 putative C-terminal domain interface [polypeptide binding]; other site 316058004335 putative GSH binding site (G-site) [chemical binding]; other site 316058004336 putative dimer interface [polypeptide binding]; other site 316058004337 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 316058004338 dimer interface [polypeptide binding]; other site 316058004339 N-terminal domain interface [polypeptide binding]; other site 316058004340 aspartate aminotransferase; Provisional; Region: PRK05764 316058004341 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 316058004342 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058004343 homodimer interface [polypeptide binding]; other site 316058004344 catalytic residue [active] 316058004345 Protein of unknown function (DUF992); Region: DUF992; pfam06186 316058004346 Protein of unknown function (DUF992); Region: DUF992; pfam06186 316058004347 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 316058004348 elongation factor G; Reviewed; Region: PRK12740 316058004349 G1 box; other site 316058004350 putative GEF interaction site [polypeptide binding]; other site 316058004351 GTP/Mg2+ binding site [chemical binding]; other site 316058004352 Switch I region; other site 316058004353 G2 box; other site 316058004354 G3 box; other site 316058004355 Switch II region; other site 316058004356 G4 box; other site 316058004357 G5 box; other site 316058004358 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 316058004359 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 316058004360 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 316058004361 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 316058004362 non-specific DNA binding site [nucleotide binding]; other site 316058004363 salt bridge; other site 316058004364 sequence-specific DNA binding site [nucleotide binding]; other site 316058004365 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 316058004366 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 316058004367 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 316058004368 shikimate binding site; other site 316058004369 NAD(P) binding site [chemical binding]; other site 316058004370 Predicted membrane protein [Function unknown]; Region: COG2860 316058004371 UPF0126 domain; Region: UPF0126; pfam03458 316058004372 UPF0126 domain; Region: UPF0126; pfam03458 316058004373 enoyl-CoA hydratase; Provisional; Region: PRK09245 316058004374 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 316058004375 substrate binding site [chemical binding]; other site 316058004376 oxyanion hole (OAH) forming residues; other site 316058004377 trimer interface [polypeptide binding]; other site 316058004378 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 316058004379 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 316058004380 active site 316058004381 substrate binding site [chemical binding]; other site 316058004382 FMN binding site [chemical binding]; other site 316058004383 putative catalytic residues [active] 316058004384 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 316058004385 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 316058004386 active site 316058004387 substrate binding site [chemical binding]; other site 316058004388 metal binding site [ion binding]; metal-binding site 316058004389 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 316058004390 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316058004391 putative substrate translocation pore; other site 316058004392 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316058004393 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316058004394 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316058004395 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 316058004396 putative C-terminal domain interface [polypeptide binding]; other site 316058004397 putative GSH binding site (G-site) [chemical binding]; other site 316058004398 putative dimer interface [polypeptide binding]; other site 316058004399 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 316058004400 N-terminal domain interface [polypeptide binding]; other site 316058004401 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 316058004402 PAS fold; Region: PAS_3; pfam08447 316058004403 putative active site [active] 316058004404 heme pocket [chemical binding]; other site 316058004405 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316058004406 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058004407 dimer interface [polypeptide binding]; other site 316058004408 putative CheW interface [polypeptide binding]; other site 316058004409 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 316058004410 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058004411 catalytic residue [active] 316058004412 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 316058004413 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 316058004414 ligand binding site [chemical binding]; other site 316058004415 NAD binding site [chemical binding]; other site 316058004416 dimerization interface [polypeptide binding]; other site 316058004417 catalytic site [active] 316058004418 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 316058004419 putative L-serine binding site [chemical binding]; other site 316058004420 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 316058004421 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 316058004422 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 316058004423 dimerization interface [polypeptide binding]; other site 316058004424 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058004425 dimer interface [polypeptide binding]; other site 316058004426 putative CheW interface [polypeptide binding]; other site 316058004427 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 316058004428 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 316058004429 dimerization interface [polypeptide binding]; other site 316058004430 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058004431 dimer interface [polypeptide binding]; other site 316058004432 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316058004433 putative CheW interface [polypeptide binding]; other site 316058004434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 316058004435 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 316058004436 diiron binding motif [ion binding]; other site 316058004437 Uncharacterized conserved protein [Function unknown]; Region: COG1633 316058004438 CCC1-related family of proteins; Region: CCC1_like; cl00278 316058004439 Cache domain; Region: Cache_1; pfam02743 316058004440 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 316058004441 dimerization interface [polypeptide binding]; other site 316058004442 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058004443 dimer interface [polypeptide binding]; other site 316058004444 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316058004445 putative CheW interface [polypeptide binding]; other site 316058004446 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316058004447 EamA-like transporter family; Region: EamA; pfam00892 316058004448 EamA-like transporter family; Region: EamA; pfam00892 316058004449 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 316058004450 EamA-like transporter family; Region: EamA; pfam00892 316058004451 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 316058004452 EamA-like transporter family; Region: EamA; pfam00892 316058004453 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 316058004454 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316058004455 Coenzyme A binding pocket [chemical binding]; other site 316058004456 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 316058004457 putative deacylase active site [active] 316058004458 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 316058004459 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316058004460 active site 316058004461 catalytic tetrad [active] 316058004462 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 316058004463 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 316058004464 GDP-binding site [chemical binding]; other site 316058004465 ACT binding site; other site 316058004466 IMP binding site; other site 316058004467 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316058004468 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316058004469 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 316058004470 S-adenosylmethionine binding site [chemical binding]; other site 316058004471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 316058004472 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 316058004473 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 316058004474 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 316058004475 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 316058004476 putative active site [active] 316058004477 putative substrate binding site [chemical binding]; other site 316058004478 ATP binding site [chemical binding]; other site 316058004479 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 316058004480 RNA/DNA hybrid binding site [nucleotide binding]; other site 316058004481 active site 316058004482 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 316058004483 catalytic triad [active] 316058004484 dimer interface [polypeptide binding]; other site 316058004485 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 316058004486 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 316058004487 acyl-activating enzyme (AAE) consensus motif; other site 316058004488 putative AMP binding site [chemical binding]; other site 316058004489 putative active site [active] 316058004490 putative CoA binding site [chemical binding]; other site 316058004491 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 316058004492 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 316058004493 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 316058004494 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316058004495 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058004496 Walker A/P-loop; other site 316058004497 ATP binding site [chemical binding]; other site 316058004498 Q-loop/lid; other site 316058004499 ABC transporter signature motif; other site 316058004500 Walker B; other site 316058004501 D-loop; other site 316058004502 H-loop/switch region; other site 316058004503 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 316058004504 NADH dehydrogenase subunit B; Validated; Region: PRK06411 316058004505 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 316058004506 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 316058004507 NADH dehydrogenase subunit D; Validated; Region: PRK06075 316058004508 NADH dehydrogenase subunit E; Validated; Region: PRK07539 316058004509 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 316058004510 putative dimer interface [polypeptide binding]; other site 316058004511 [2Fe-2S] cluster binding site [ion binding]; other site 316058004512 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 316058004513 SLBB domain; Region: SLBB; pfam10531 316058004514 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 316058004515 NADH dehydrogenase subunit G; Validated; Region: PRK08166 316058004516 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 316058004517 catalytic loop [active] 316058004518 iron binding site [ion binding]; other site 316058004519 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 316058004520 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 316058004521 [4Fe-4S] binding site [ion binding]; other site 316058004522 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 316058004523 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 316058004524 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 316058004525 4Fe-4S binding domain; Region: Fer4; cl02805 316058004526 4Fe-4S binding domain; Region: Fer4; pfam00037 316058004527 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 316058004528 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 316058004529 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 316058004530 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316058004531 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 316058004532 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316058004533 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 316058004534 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 316058004535 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 316058004536 homodimer interface [polypeptide binding]; other site 316058004537 substrate-cofactor binding pocket; other site 316058004538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058004539 catalytic residue [active] 316058004540 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 316058004541 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 316058004542 ligand binding site [chemical binding]; other site 316058004543 flexible hinge region; other site 316058004544 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 316058004545 putative switch regulator; other site 316058004546 non-specific DNA interactions [nucleotide binding]; other site 316058004547 DNA binding site [nucleotide binding] 316058004548 sequence specific DNA binding site [nucleotide binding]; other site 316058004549 putative cAMP binding site [chemical binding]; other site 316058004550 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058004551 active site 316058004552 phosphorylation site [posttranslational modification] 316058004553 intermolecular recognition site; other site 316058004554 dimerization interface [polypeptide binding]; other site 316058004555 response regulator FixJ; Provisional; Region: fixJ; PRK09390 316058004556 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058004557 active site 316058004558 phosphorylation site [posttranslational modification] 316058004559 intermolecular recognition site; other site 316058004560 dimerization interface [polypeptide binding]; other site 316058004561 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 316058004562 DNA binding residues [nucleotide binding] 316058004563 dimerization interface [polypeptide binding]; other site 316058004564 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 316058004565 PAS fold; Region: PAS_3; pfam08447 316058004566 putative active site [active] 316058004567 heme pocket [chemical binding]; other site 316058004568 PAS domain S-box; Region: sensory_box; TIGR00229 316058004569 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 316058004570 putative active site [active] 316058004571 heme pocket [chemical binding]; other site 316058004572 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 316058004573 dimer interface [polypeptide binding]; other site 316058004574 phosphorylation site [posttranslational modification] 316058004575 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 316058004576 ATP binding site [chemical binding]; other site 316058004577 Mg2+ binding site [ion binding]; other site 316058004578 G-X-G motif; other site 316058004579 FOG: CBS domain [General function prediction only]; Region: COG0517 316058004580 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 316058004581 FOG: CBS domain [General function prediction only]; Region: COG0517 316058004582 BON domain; Region: BON; pfam04972 316058004583 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 316058004584 Ligand Binding Site [chemical binding]; other site 316058004585 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 316058004586 Ligand Binding Site [chemical binding]; other site 316058004587 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 316058004588 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 316058004589 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 316058004590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 316058004591 Predicted kinase [General function prediction only]; Region: COG0645 316058004592 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 316058004593 active site 316058004594 FOG: CBS domain [General function prediction only]; Region: COG0517 316058004595 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 316058004596 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 316058004597 CoA binding domain; Region: CoA_binding_2; pfam13380 316058004598 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 316058004599 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 316058004600 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 316058004601 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316058004602 STAS domain; Region: STAS_2; pfam13466 316058004603 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 316058004604 Permease; Region: Permease; pfam02405 316058004605 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 316058004606 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 316058004607 Walker A/P-loop; other site 316058004608 ATP binding site [chemical binding]; other site 316058004609 Q-loop/lid; other site 316058004610 ABC transporter signature motif; other site 316058004611 Walker B; other site 316058004612 D-loop; other site 316058004613 H-loop/switch region; other site 316058004614 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 316058004615 mce related protein; Region: MCE; pfam02470 316058004616 Protein of unknown function (DUF330); Region: DUF330; cl01135 316058004617 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 316058004618 Cytochrome c; Region: Cytochrom_C; pfam00034 316058004619 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 316058004620 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058004621 ligand binding site [chemical binding]; other site 316058004622 flexible hinge region; other site 316058004623 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 316058004624 putative switch regulator; other site 316058004625 non-specific DNA interactions [nucleotide binding]; other site 316058004626 DNA binding site [nucleotide binding] 316058004627 sequence specific DNA binding site [nucleotide binding]; other site 316058004628 putative cAMP binding site [chemical binding]; other site 316058004629 Ion transport protein; Region: Ion_trans; pfam00520 316058004630 Ion channel; Region: Ion_trans_2; pfam07885 316058004631 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058004632 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 316058004633 ligand binding site [chemical binding]; other site 316058004634 flexible hinge region; other site 316058004635 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 316058004636 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 316058004637 putative [4Fe-4S] binding site [ion binding]; other site 316058004638 putative molybdopterin cofactor binding site [chemical binding]; other site 316058004639 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 316058004640 putative molybdopterin cofactor binding site; other site 316058004641 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 316058004642 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 316058004643 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 316058004644 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 316058004645 HWE histidine kinase; Region: HWE_HK; pfam07536 316058004646 RNA polymerase sigma factor; Provisional; Region: PRK12540 316058004647 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058004648 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 316058004649 DNA binding residues [nucleotide binding] 316058004650 two-component response regulator; Provisional; Region: PRK09191 316058004651 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058004652 active site 316058004653 phosphorylation site [posttranslational modification] 316058004654 intermolecular recognition site; other site 316058004655 dimerization interface [polypeptide binding]; other site 316058004656 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 316058004657 Domain of unknown function DUF20; Region: UPF0118; pfam01594 316058004658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316058004659 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058004660 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 316058004661 CsbD-like; Region: CsbD; cl17424 316058004662 malate synthase G; Provisional; Region: PRK02999 316058004663 active site 316058004664 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 316058004665 dimer interface [polypeptide binding]; other site 316058004666 conserved gate region; other site 316058004667 putative PBP binding loops; other site 316058004668 ABC-ATPase subunit interface; other site 316058004669 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 316058004670 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 316058004671 dimer interface [polypeptide binding]; other site 316058004672 conserved gate region; other site 316058004673 putative PBP binding loops; other site 316058004674 ABC-ATPase subunit interface; other site 316058004675 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316058004676 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 316058004677 siroheme synthase; Provisional; Region: cysG; PRK10637 316058004678 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 316058004679 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 316058004680 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 316058004681 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 316058004682 active site 316058004683 SAM binding site [chemical binding]; other site 316058004684 homodimer interface [polypeptide binding]; other site 316058004685 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 316058004686 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 316058004687 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 316058004688 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 316058004689 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 316058004690 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 316058004691 glutaminase; Provisional; Region: PRK00971 316058004692 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 316058004693 glutamine synthetase; Region: PLN02284 316058004694 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 316058004695 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 316058004696 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 316058004697 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 316058004698 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 316058004699 active site 316058004700 nucleophile elbow; other site 316058004701 Patatin phospholipase; Region: DUF3734; pfam12536 316058004702 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 316058004703 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 316058004704 NAD binding site [chemical binding]; other site 316058004705 homotetramer interface [polypeptide binding]; other site 316058004706 homodimer interface [polypeptide binding]; other site 316058004707 substrate binding site [chemical binding]; other site 316058004708 active site 316058004709 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 316058004710 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 316058004711 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 316058004712 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 316058004713 PAS fold; Region: PAS_3; pfam08447 316058004714 putative active site [active] 316058004715 heme pocket [chemical binding]; other site 316058004716 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316058004717 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058004718 dimer interface [polypeptide binding]; other site 316058004719 putative CheW interface [polypeptide binding]; other site 316058004720 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 316058004721 putative deacylase active site [active] 316058004722 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 316058004723 active site 316058004724 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 316058004725 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 316058004726 binding surface 316058004727 TPR motif; other site 316058004728 TPR repeat; Region: TPR_11; pfam13414 316058004729 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316058004730 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 316058004731 catalytic site [active] 316058004732 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 316058004733 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 316058004734 pyruvate kinase; Provisional; Region: PRK06247 316058004735 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 316058004736 domain interfaces; other site 316058004737 active site 316058004738 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 316058004739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 316058004740 hypothetical protein; Provisional; Region: PRK13694 316058004741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 316058004742 Peptidase M15; Region: Peptidase_M15_3; cl01194 316058004743 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 316058004744 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316058004745 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058004746 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058004747 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 316058004748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058004749 active site 316058004750 phosphorylation site [posttranslational modification] 316058004751 intermolecular recognition site; other site 316058004752 dimerization interface [polypeptide binding]; other site 316058004753 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 316058004754 Walker A motif; other site 316058004755 ATP binding site [chemical binding]; other site 316058004756 Walker B motif; other site 316058004757 arginine finger; other site 316058004758 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316058004759 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 316058004760 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 316058004761 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 316058004762 active site 316058004763 Zn binding site [ion binding]; other site 316058004764 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 316058004765 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 316058004766 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 316058004767 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 316058004768 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 316058004769 ligand binding site [chemical binding]; other site 316058004770 homodimer interface [polypeptide binding]; other site 316058004771 NAD(P) binding site [chemical binding]; other site 316058004772 trimer interface B [polypeptide binding]; other site 316058004773 trimer interface A [polypeptide binding]; other site 316058004774 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 316058004775 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 316058004776 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 316058004777 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 316058004778 putative catalytic site [active] 316058004779 putative phosphate binding site [ion binding]; other site 316058004780 putative metal binding site [ion binding]; other site 316058004781 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 316058004782 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316058004783 Cupin domain; Region: Cupin_2; pfam07883 316058004784 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058004785 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 316058004786 Walker A/P-loop; other site 316058004787 ATP binding site [chemical binding]; other site 316058004788 Q-loop/lid; other site 316058004789 ABC transporter signature motif; other site 316058004790 Walker B; other site 316058004791 D-loop; other site 316058004792 H-loop/switch region; other site 316058004793 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 316058004794 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316058004795 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 316058004796 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 316058004797 dimer interface [polypeptide binding]; other site 316058004798 conserved gate region; other site 316058004799 putative PBP binding loops; other site 316058004800 ABC-ATPase subunit interface; other site 316058004801 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 316058004802 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 316058004803 ATP-grasp domain; Region: ATP-grasp; pfam02222 316058004804 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 316058004805 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058004806 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058004807 metal binding site [ion binding]; metal-binding site 316058004808 active site 316058004809 I-site; other site 316058004810 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 316058004811 Uncharacterized small protein [Function unknown]; Region: COG5570 316058004812 Predicted dehydrogenase [General function prediction only]; Region: COG0579 316058004813 hydroxyglutarate oxidase; Provisional; Region: PRK11728 316058004814 PAS domain; Region: PAS; smart00091 316058004815 PAS fold; Region: PAS_7; pfam12860 316058004816 PAS fold; Region: PAS_4; pfam08448 316058004817 PAS domain S-box; Region: sensory_box; TIGR00229 316058004818 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 316058004819 putative active site [active] 316058004820 heme pocket [chemical binding]; other site 316058004821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058004822 metal binding site [ion binding]; metal-binding site 316058004823 active site 316058004824 I-site; other site 316058004825 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 316058004826 PAS fold; Region: PAS_4; pfam08448 316058004827 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 316058004828 putative active site [active] 316058004829 heme pocket [chemical binding]; other site 316058004830 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 316058004831 dimer interface [polypeptide binding]; other site 316058004832 phosphorylation site [posttranslational modification] 316058004833 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 316058004834 ATP binding site [chemical binding]; other site 316058004835 Mg2+ binding site [ion binding]; other site 316058004836 G-X-G motif; other site 316058004837 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 316058004838 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058004839 Walker A/P-loop; other site 316058004840 ATP binding site [chemical binding]; other site 316058004841 Q-loop/lid; other site 316058004842 ABC transporter signature motif; other site 316058004843 Walker B; other site 316058004844 D-loop; other site 316058004845 H-loop/switch region; other site 316058004846 TOBE domain; Region: TOBE_2; pfam08402 316058004847 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 316058004848 dimer interface [polypeptide binding]; other site 316058004849 conserved gate region; other site 316058004850 putative PBP binding loops; other site 316058004851 ABC-ATPase subunit interface; other site 316058004852 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316058004853 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 316058004854 dimer interface [polypeptide binding]; other site 316058004855 conserved gate region; other site 316058004856 putative PBP binding loops; other site 316058004857 ABC-ATPase subunit interface; other site 316058004858 AsmA family; Region: AsmA; pfam05170 316058004859 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 316058004860 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316058004861 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 316058004862 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 316058004863 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 316058004864 ABC-ATPase subunit interface; other site 316058004865 putative PBP binding loops; other site 316058004866 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 316058004867 putative PBP binding loops; other site 316058004868 ABC-ATPase subunit interface; other site 316058004869 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 316058004870 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 316058004871 Protein of unknown function (DUF877); Region: DUF877; pfam05943 316058004872 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058004873 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 316058004874 ligand binding site [chemical binding]; other site 316058004875 flexible hinge region; other site 316058004876 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 316058004877 putative switch regulator; other site 316058004878 non-specific DNA interactions [nucleotide binding]; other site 316058004879 DNA binding site [nucleotide binding] 316058004880 sequence specific DNA binding site [nucleotide binding]; other site 316058004881 putative cAMP binding site [chemical binding]; other site 316058004882 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 316058004883 PAS domain; Region: PAS_8; pfam13188 316058004884 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 316058004885 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 316058004886 putative active site [active] 316058004887 heme pocket [chemical binding]; other site 316058004888 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 316058004889 dimer interface [polypeptide binding]; other site 316058004890 phosphorylation site [posttranslational modification] 316058004891 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 316058004892 ATP binding site [chemical binding]; other site 316058004893 Mg2+ binding site [ion binding]; other site 316058004894 G-X-G motif; other site 316058004895 Phasin protein; Region: Phasin_2; cl11491 316058004896 phasin; Region: phasin_2; TIGR01985 316058004897 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316058004898 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316058004899 Walker A/P-loop; other site 316058004900 ATP binding site [chemical binding]; other site 316058004901 Q-loop/lid; other site 316058004902 ABC transporter signature motif; other site 316058004903 Walker B; other site 316058004904 D-loop; other site 316058004905 H-loop/switch region; other site 316058004906 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058004907 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 316058004908 dimer interface [polypeptide binding]; other site 316058004909 conserved gate region; other site 316058004910 putative PBP binding loops; other site 316058004911 ABC-ATPase subunit interface; other site 316058004912 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 316058004913 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 316058004914 NosL; Region: NosL; cl01769 316058004915 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058004916 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 316058004917 ligand binding site [chemical binding]; other site 316058004918 flexible hinge region; other site 316058004919 non-specific DNA interactions [nucleotide binding]; other site 316058004920 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316058004921 DNA binding site [nucleotide binding] 316058004922 sequence specific DNA binding site [nucleotide binding]; other site 316058004923 putative cAMP binding site [chemical binding]; other site 316058004924 Protein of unknown function (DUF971); Region: DUF971; pfam06155 316058004925 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 316058004926 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 316058004927 FAD binding pocket [chemical binding]; other site 316058004928 FAD binding motif [chemical binding]; other site 316058004929 phosphate binding motif [ion binding]; other site 316058004930 beta-alpha-beta structure motif; other site 316058004931 NAD binding pocket [chemical binding]; other site 316058004932 putative oxidoreductase; Provisional; Region: PRK08275 316058004933 L-aspartate oxidase; Provisional; Region: PRK06175 316058004934 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 316058004935 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 316058004936 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 316058004937 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316058004938 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316058004939 Walker A/P-loop; other site 316058004940 ATP binding site [chemical binding]; other site 316058004941 Q-loop/lid; other site 316058004942 ABC transporter signature motif; other site 316058004943 Walker B; other site 316058004944 D-loop; other site 316058004945 H-loop/switch region; other site 316058004946 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058004947 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 316058004948 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 316058004949 NMT1-like family; Region: NMT1_2; pfam13379 316058004950 membrane-bound complex binding site; other site 316058004951 hinge residues; other site 316058004952 Amidase; Region: Amidase; cl11426 316058004953 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 316058004954 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058004955 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 316058004956 ligand binding site [chemical binding]; other site 316058004957 flexible hinge region; other site 316058004958 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316058004959 non-specific DNA interactions [nucleotide binding]; other site 316058004960 DNA binding site [nucleotide binding] 316058004961 sequence specific DNA binding site [nucleotide binding]; other site 316058004962 putative cAMP binding site [chemical binding]; other site 316058004963 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 316058004964 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 316058004965 substrate binding pocket [chemical binding]; other site 316058004966 membrane-bound complex binding site; other site 316058004967 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058004968 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 316058004969 dimer interface [polypeptide binding]; other site 316058004970 conserved gate region; other site 316058004971 putative PBP binding loops; other site 316058004972 ABC-ATPase subunit interface; other site 316058004973 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 316058004974 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 316058004975 metal binding site [ion binding]; metal-binding site 316058004976 dimer interface [polypeptide binding]; other site 316058004977 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 316058004978 putative substrate translocation pore; other site 316058004979 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316058004980 aminotransferase; Provisional; Region: PRK06105 316058004981 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 316058004982 inhibitor-cofactor binding pocket; inhibition site 316058004983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058004984 catalytic residue [active] 316058004985 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 316058004986 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 316058004987 molybdopterin cofactor binding site [chemical binding]; other site 316058004988 substrate binding site [chemical binding]; other site 316058004989 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 316058004990 molybdopterin cofactor binding site; other site 316058004991 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 316058004992 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316058004993 DNA-binding site [nucleotide binding]; DNA binding site 316058004994 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 316058004995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058004996 homodimer interface [polypeptide binding]; other site 316058004997 catalytic residue [active] 316058004998 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316058004999 Beta-lactamase; Region: Beta-lactamase; pfam00144 316058005000 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 316058005001 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 316058005002 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058005003 Walker A/P-loop; other site 316058005004 ATP binding site [chemical binding]; other site 316058005005 Q-loop/lid; other site 316058005006 ABC transporter signature motif; other site 316058005007 Walker B; other site 316058005008 D-loop; other site 316058005009 H-loop/switch region; other site 316058005010 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058005011 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058005012 Walker A/P-loop; other site 316058005013 ATP binding site [chemical binding]; other site 316058005014 Q-loop/lid; other site 316058005015 ABC transporter signature motif; other site 316058005016 Walker B; other site 316058005017 D-loop; other site 316058005018 H-loop/switch region; other site 316058005019 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058005020 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 316058005021 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 316058005022 dimer interface [polypeptide binding]; other site 316058005023 conserved gate region; other site 316058005024 putative PBP binding loops; other site 316058005025 ABC-ATPase subunit interface; other site 316058005026 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316058005027 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 316058005028 dimer interface [polypeptide binding]; other site 316058005029 conserved gate region; other site 316058005030 putative PBP binding loops; other site 316058005031 ABC-ATPase subunit interface; other site 316058005032 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 316058005033 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 316058005034 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058005035 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058005036 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 316058005037 putative dimerization interface [polypeptide binding]; other site 316058005038 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316058005039 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 316058005040 putative DNA binding site [nucleotide binding]; other site 316058005041 putative Zn2+ binding site [ion binding]; other site 316058005042 AsnC family; Region: AsnC_trans_reg; pfam01037 316058005043 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 316058005044 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 316058005045 active site 316058005046 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316058005047 dimer interface [polypeptide binding]; other site 316058005048 substrate binding site [chemical binding]; other site 316058005049 catalytic residues [active] 316058005050 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 316058005051 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316058005052 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 316058005053 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 316058005054 short chain dehydrogenase; Provisional; Region: PRK06701 316058005055 NAD binding site [chemical binding]; other site 316058005056 metal binding site [ion binding]; metal-binding site 316058005057 active site 316058005058 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 316058005059 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 316058005060 P-loop; other site 316058005061 Magnesium ion binding site [ion binding]; other site 316058005062 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058005063 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058005064 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 316058005065 putative effector binding pocket; other site 316058005066 dimerization interface [polypeptide binding]; other site 316058005067 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 316058005068 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316058005069 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316058005070 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316058005071 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 316058005072 putative DNA binding site [nucleotide binding]; other site 316058005073 putative Zn2+ binding site [ion binding]; other site 316058005074 AsnC family; Region: AsnC_trans_reg; pfam01037 316058005075 Predicted membrane protein [Function unknown]; Region: COG2259 316058005076 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 316058005077 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 316058005078 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 316058005079 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 316058005080 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316058005081 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 316058005082 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 316058005083 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316058005084 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316058005085 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 316058005086 IMP binding site; other site 316058005087 dimer interface [polypeptide binding]; other site 316058005088 interdomain contacts; other site 316058005089 partial ornithine binding site; other site 316058005090 methionine sulfoxide reductase A; Provisional; Region: PRK13014 316058005091 methionine sulfoxide reductase B; Provisional; Region: PRK00222 316058005092 SelR domain; Region: SelR; pfam01641 316058005093 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 316058005094 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 316058005095 active site 316058005096 substrate binding site [chemical binding]; other site 316058005097 metal binding site [ion binding]; metal-binding site 316058005098 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 316058005099 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 316058005100 Substrate binding site; other site 316058005101 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 316058005102 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 316058005103 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 316058005104 NADP-binding site; other site 316058005105 homotetramer interface [polypeptide binding]; other site 316058005106 substrate binding site [chemical binding]; other site 316058005107 homodimer interface [polypeptide binding]; other site 316058005108 active site 316058005109 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 316058005110 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 316058005111 NADP binding site [chemical binding]; other site 316058005112 active site 316058005113 putative substrate binding site [chemical binding]; other site 316058005114 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 316058005115 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 316058005116 NADP binding site [chemical binding]; other site 316058005117 active site 316058005118 putative substrate binding site [chemical binding]; other site 316058005119 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 316058005120 Protein of unknown function, DUF288; Region: DUF288; pfam03385 316058005121 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 316058005122 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 316058005123 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 316058005124 NeuB family; Region: NeuB; pfam03102 316058005125 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 316058005126 NeuB binding interface [polypeptide binding]; other site 316058005127 putative substrate binding site [chemical binding]; other site 316058005128 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 316058005129 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 316058005130 active site 316058005131 homodimer interface [polypeptide binding]; other site 316058005132 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 316058005133 ligand binding site; other site 316058005134 tetramer interface; other site 316058005135 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 316058005136 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316058005137 Methyltransferase domain; Region: Methyltransf_12; pfam08242 316058005138 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 316058005139 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316058005140 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 316058005141 putative ADP-binding pocket [chemical binding]; other site 316058005142 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316058005143 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 316058005144 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 316058005145 active site 316058005146 dimer interface [polypeptide binding]; other site 316058005147 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 316058005148 Ligand Binding Site [chemical binding]; other site 316058005149 Molecular Tunnel; other site 316058005150 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 316058005151 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 316058005152 metal-binding site 316058005153 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316058005154 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 316058005155 S-adenosylmethionine binding site [chemical binding]; other site 316058005156 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316058005157 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 316058005158 S-adenosylmethionine binding site [chemical binding]; other site 316058005159 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316058005160 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 316058005161 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 316058005162 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 316058005163 dimer interface [polypeptide binding]; other site 316058005164 active site 316058005165 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 316058005166 Ligand Binding Site [chemical binding]; other site 316058005167 Molecular Tunnel; other site 316058005168 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 316058005169 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 316058005170 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316058005171 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 316058005172 putative ADP-binding pocket [chemical binding]; other site 316058005173 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316058005174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058005175 NAD(P) binding site [chemical binding]; other site 316058005176 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 316058005177 active site 316058005178 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 316058005179 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 316058005180 NADP-binding site; other site 316058005181 homotetramer interface [polypeptide binding]; other site 316058005182 substrate binding site [chemical binding]; other site 316058005183 homodimer interface [polypeptide binding]; other site 316058005184 active site 316058005185 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 316058005186 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 316058005187 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 316058005188 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 316058005189 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 316058005190 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 316058005191 putative NAD(P) binding site [chemical binding]; other site 316058005192 active site 316058005193 putative substrate binding site [chemical binding]; other site 316058005194 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058005195 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058005196 Walker A/P-loop; other site 316058005197 ATP binding site [chemical binding]; other site 316058005198 Q-loop/lid; other site 316058005199 ABC transporter signature motif; other site 316058005200 Walker B; other site 316058005201 D-loop; other site 316058005202 H-loop/switch region; other site 316058005203 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058005204 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 316058005205 putative ligand binding site [chemical binding]; other site 316058005206 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058005207 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 316058005208 TM-ABC transporter signature motif; other site 316058005209 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058005210 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 316058005211 TM-ABC transporter signature motif; other site 316058005212 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 316058005213 putative active site [active] 316058005214 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 316058005215 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058005216 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 316058005217 acyl-activating enzyme (AAE) consensus motif; other site 316058005218 putative AMP binding site [chemical binding]; other site 316058005219 putative active site [active] 316058005220 putative CoA binding site [chemical binding]; other site 316058005221 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058005222 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058005223 Walker A/P-loop; other site 316058005224 ATP binding site [chemical binding]; other site 316058005225 Q-loop/lid; other site 316058005226 ABC transporter signature motif; other site 316058005227 Walker B; other site 316058005228 D-loop; other site 316058005229 H-loop/switch region; other site 316058005230 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 316058005231 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 316058005232 NAD binding site [chemical binding]; other site 316058005233 substrate binding site [chemical binding]; other site 316058005234 homodimer interface [polypeptide binding]; other site 316058005235 active site 316058005236 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 316058005237 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 316058005238 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 316058005239 NADP binding site [chemical binding]; other site 316058005240 active site 316058005241 putative substrate binding site [chemical binding]; other site 316058005242 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 316058005243 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 316058005244 substrate binding site; other site 316058005245 tetramer interface; other site 316058005246 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 316058005247 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 316058005248 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 316058005249 DNA binding residues [nucleotide binding] 316058005250 putative dimer interface [polypeptide binding]; other site 316058005251 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058005252 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058005253 Walker A/P-loop; other site 316058005254 ATP binding site [chemical binding]; other site 316058005255 Q-loop/lid; other site 316058005256 ABC transporter signature motif; other site 316058005257 Walker B; other site 316058005258 D-loop; other site 316058005259 H-loop/switch region; other site 316058005260 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058005261 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058005262 Walker A/P-loop; other site 316058005263 ATP binding site [chemical binding]; other site 316058005264 Q-loop/lid; other site 316058005265 ABC transporter signature motif; other site 316058005266 Walker B; other site 316058005267 D-loop; other site 316058005268 H-loop/switch region; other site 316058005269 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058005270 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 316058005271 TM-ABC transporter signature motif; other site 316058005272 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 316058005273 TM-ABC transporter signature motif; other site 316058005274 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058005275 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 316058005276 putative ligand binding site [chemical binding]; other site 316058005277 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316058005278 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316058005279 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316058005280 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316058005281 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 316058005282 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 316058005283 active site 316058005284 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 316058005285 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 316058005286 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 316058005287 putative active site [active] 316058005288 putative substrate binding site [chemical binding]; other site 316058005289 putative cosubstrate binding site; other site 316058005290 catalytic site [active] 316058005291 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058005292 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 316058005293 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058005294 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 316058005295 TM-ABC transporter signature motif; other site 316058005296 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058005297 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 316058005298 TM-ABC transporter signature motif; other site 316058005299 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058005300 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058005301 Walker A/P-loop; other site 316058005302 ATP binding site [chemical binding]; other site 316058005303 Q-loop/lid; other site 316058005304 ABC transporter signature motif; other site 316058005305 Walker B; other site 316058005306 D-loop; other site 316058005307 H-loop/switch region; other site 316058005308 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058005309 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058005310 Walker A/P-loop; other site 316058005311 ATP binding site [chemical binding]; other site 316058005312 Q-loop/lid; other site 316058005313 ABC transporter signature motif; other site 316058005314 Walker B; other site 316058005315 D-loop; other site 316058005316 H-loop/switch region; other site 316058005317 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 316058005318 substrate binding site [chemical binding]; other site 316058005319 THF binding site; other site 316058005320 zinc-binding site [ion binding]; other site 316058005321 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 316058005322 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 316058005323 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 316058005324 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 316058005325 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 316058005326 S-adenosylmethionine synthetase; Validated; Region: PRK05250 316058005327 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 316058005328 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 316058005329 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 316058005330 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 316058005331 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 316058005332 homotetramer interface [polypeptide binding]; other site 316058005333 ligand binding site [chemical binding]; other site 316058005334 catalytic site [active] 316058005335 NAD binding site [chemical binding]; other site 316058005336 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 316058005337 Walker A motif; other site 316058005338 ATP binding site [chemical binding]; other site 316058005339 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 316058005340 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 316058005341 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 316058005342 putative active site [active] 316058005343 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 316058005344 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 316058005345 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 316058005346 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 316058005347 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316058005348 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 316058005349 Walker A/P-loop; other site 316058005350 ATP binding site [chemical binding]; other site 316058005351 Q-loop/lid; other site 316058005352 ABC transporter signature motif; other site 316058005353 Walker B; other site 316058005354 D-loop; other site 316058005355 H-loop/switch region; other site 316058005356 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 316058005357 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 316058005358 NAD binding site [chemical binding]; other site 316058005359 homodimer interface [polypeptide binding]; other site 316058005360 active site 316058005361 substrate binding site [chemical binding]; other site 316058005362 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 316058005363 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 316058005364 putative active site [active] 316058005365 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 316058005366 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 316058005367 active site 316058005368 motif I; other site 316058005369 motif II; other site 316058005370 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 316058005371 active site 316058005372 dimer interface [polypeptide binding]; other site 316058005373 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 316058005374 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 316058005375 putative active site [active] 316058005376 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 316058005377 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 316058005378 NADP binding site [chemical binding]; other site 316058005379 homopentamer interface [polypeptide binding]; other site 316058005380 substrate binding site [chemical binding]; other site 316058005381 active site 316058005382 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 316058005383 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 316058005384 putative ribose interaction site [chemical binding]; other site 316058005385 putative ADP binding site [chemical binding]; other site 316058005386 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 316058005387 active site 316058005388 nucleotide binding site [chemical binding]; other site 316058005389 HIGH motif; other site 316058005390 KMSKS motif; other site 316058005391 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 316058005392 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 316058005393 NAD(P) binding site [chemical binding]; other site 316058005394 homodimer interface [polypeptide binding]; other site 316058005395 substrate binding site [chemical binding]; other site 316058005396 active site 316058005397 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 316058005398 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 316058005399 Mg++ binding site [ion binding]; other site 316058005400 putative catalytic motif [active] 316058005401 putative substrate binding site [chemical binding]; other site 316058005402 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 316058005403 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 316058005404 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316058005405 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316058005406 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 316058005407 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 316058005408 inhibitor-cofactor binding pocket; inhibition site 316058005409 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058005410 catalytic residue [active] 316058005411 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 316058005412 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 316058005413 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 316058005414 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 316058005415 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316058005416 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316058005417 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058005418 Cytochrome C' Region: Cytochrom_C_2; pfam01322 316058005419 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 316058005420 Cytochrome c; Region: Cytochrom_C; pfam00034 316058005421 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316058005422 AsnC family; Region: AsnC_trans_reg; pfam01037 316058005423 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 316058005424 dimer interface [polypeptide binding]; other site 316058005425 substrate binding site [chemical binding]; other site 316058005426 ATP binding site [chemical binding]; other site 316058005427 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 316058005428 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 316058005429 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 316058005430 S-adenosylmethionine binding site [chemical binding]; other site 316058005431 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316058005432 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 316058005433 putative active site [active] 316058005434 putative metal binding site [ion binding]; other site 316058005435 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316058005436 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 316058005437 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 316058005438 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 316058005439 tetramer interface [polypeptide binding]; other site 316058005440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058005441 catalytic residue [active] 316058005442 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 316058005443 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 316058005444 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 316058005445 active site 316058005446 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 316058005447 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 316058005448 Permease; Region: Permease; pfam02405 316058005449 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 316058005450 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 316058005451 Walker A/P-loop; other site 316058005452 ATP binding site [chemical binding]; other site 316058005453 Q-loop/lid; other site 316058005454 ABC transporter signature motif; other site 316058005455 Walker B; other site 316058005456 D-loop; other site 316058005457 H-loop/switch region; other site 316058005458 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 316058005459 mce related protein; Region: MCE; pfam02470 316058005460 putative transposase OrfB; Reviewed; Region: PHA02517 316058005461 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 316058005462 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 316058005463 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 316058005464 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 316058005465 putative active site [active] 316058005466 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316058005467 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 316058005468 Walker A/P-loop; other site 316058005469 ATP binding site [chemical binding]; other site 316058005470 Q-loop/lid; other site 316058005471 ABC transporter signature motif; other site 316058005472 Walker B; other site 316058005473 D-loop; other site 316058005474 H-loop/switch region; other site 316058005475 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 316058005476 DNA-binding interface [nucleotide binding]; DNA binding site 316058005477 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005478 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005479 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005480 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005481 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005482 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005483 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005484 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 316058005485 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 316058005486 Cadherin repeat-like domain; Region: CA_like; cl15786 316058005487 Ca2+ binding site [ion binding]; other site 316058005488 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005489 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005490 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 316058005491 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005492 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005493 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 316058005494 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005495 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005496 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 316058005497 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005498 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005499 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005500 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005501 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 316058005502 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005503 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005504 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005505 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005506 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005507 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005508 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005509 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005510 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005511 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005512 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005513 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058005514 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316058005515 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 316058005516 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 316058005517 Walker A/P-loop; other site 316058005518 ATP binding site [chemical binding]; other site 316058005519 Q-loop/lid; other site 316058005520 ABC transporter signature motif; other site 316058005521 Walker B; other site 316058005522 D-loop; other site 316058005523 H-loop/switch region; other site 316058005524 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 316058005525 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058005526 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058005527 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 316058005528 putative DNA binding site [nucleotide binding]; other site 316058005529 putative Zn2+ binding site [ion binding]; other site 316058005530 Low molecular weight phosphatase family; Region: LMWPc; cl00105 316058005531 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 316058005532 active site 316058005533 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 316058005534 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 316058005535 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 316058005536 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 316058005537 putative Zn2+ binding site [ion binding]; other site 316058005538 putative DNA binding site [nucleotide binding]; other site 316058005539 Predicted permeases [General function prediction only]; Region: COG0701 316058005540 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 316058005541 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 316058005542 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 316058005543 putative ligand binding site [chemical binding]; other site 316058005544 NAD binding site [chemical binding]; other site 316058005545 dimerization interface [polypeptide binding]; other site 316058005546 catalytic site [active] 316058005547 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 316058005548 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058005549 Walker A/P-loop; other site 316058005550 ATP binding site [chemical binding]; other site 316058005551 Q-loop/lid; other site 316058005552 ABC transporter signature motif; other site 316058005553 Walker B; other site 316058005554 D-loop; other site 316058005555 H-loop/switch region; other site 316058005556 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 316058005557 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058005558 Walker A/P-loop; other site 316058005559 ATP binding site [chemical binding]; other site 316058005560 Q-loop/lid; other site 316058005561 ABC transporter signature motif; other site 316058005562 Walker B; other site 316058005563 D-loop; other site 316058005564 H-loop/switch region; other site 316058005565 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058005566 dipeptide transporter; Provisional; Region: PRK10913 316058005567 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 316058005568 dimer interface [polypeptide binding]; other site 316058005569 conserved gate region; other site 316058005570 putative PBP binding loops; other site 316058005571 ABC-ATPase subunit interface; other site 316058005572 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316058005573 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 316058005574 dimer interface [polypeptide binding]; other site 316058005575 conserved gate region; other site 316058005576 putative PBP binding loops; other site 316058005577 ABC-ATPase subunit interface; other site 316058005578 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316058005579 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 316058005580 aldolase II superfamily protein; Provisional; Region: PRK07044 316058005581 intersubunit interface [polypeptide binding]; other site 316058005582 active site 316058005583 Zn2+ binding site [ion binding]; other site 316058005584 Transcriptional regulators [Transcription]; Region: GntR; COG1802 316058005585 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316058005586 DNA-binding site [nucleotide binding]; DNA binding site 316058005587 FCD domain; Region: FCD; pfam07729 316058005588 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 316058005589 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 316058005590 active site 316058005591 Zn binding site [ion binding]; other site 316058005592 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 316058005593 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 316058005594 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 316058005595 Gram-negative bacterial tonB protein; Region: TonB; cl10048 316058005596 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 316058005597 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316058005598 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316058005599 MarR family; Region: MarR; pfam01047 316058005600 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058005601 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058005602 Walker A/P-loop; other site 316058005603 ATP binding site [chemical binding]; other site 316058005604 Q-loop/lid; other site 316058005605 ABC transporter signature motif; other site 316058005606 Walker B; other site 316058005607 D-loop; other site 316058005608 H-loop/switch region; other site 316058005609 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058005610 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058005611 Walker A/P-loop; other site 316058005612 ATP binding site [chemical binding]; other site 316058005613 Q-loop/lid; other site 316058005614 ABC transporter signature motif; other site 316058005615 Walker B; other site 316058005616 D-loop; other site 316058005617 H-loop/switch region; other site 316058005618 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 316058005619 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058005620 TM-ABC transporter signature motif; other site 316058005621 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 316058005622 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058005623 TM-ABC transporter signature motif; other site 316058005624 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058005625 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 316058005626 putative ligand binding site [chemical binding]; other site 316058005627 Amino acid synthesis; Region: AA_synth; pfam06684 316058005628 Amino acid synthesis; Region: AA_synth; pfam06684 316058005629 hypothetical protein; Provisional; Region: PRK04334 316058005630 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 316058005631 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 316058005632 catalytic loop [active] 316058005633 iron binding site [ion binding]; other site 316058005634 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316058005635 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058005636 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316058005637 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316058005638 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058005639 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 316058005640 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 316058005641 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 316058005642 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 316058005643 FAD binding pocket [chemical binding]; other site 316058005644 FAD binding motif [chemical binding]; other site 316058005645 phosphate binding motif [ion binding]; other site 316058005646 beta-alpha-beta structure motif; other site 316058005647 NAD binding pocket [chemical binding]; other site 316058005648 Amidohydrolase; Region: Amidohydro_5; pfam13594 316058005649 Amidohydrolase; Region: Amidohydro_4; pfam13147 316058005650 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 316058005651 active site 316058005652 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 316058005653 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 316058005654 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 316058005655 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_3; cd13148 316058005656 putative efflux protein, MATE family; Region: matE; TIGR00797 316058005657 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 316058005658 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 316058005659 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 316058005660 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 316058005661 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 316058005662 Competence-damaged protein; Region: CinA; pfam02464 316058005663 amidase; Provisional; Region: PRK06170 316058005664 Amidase; Region: Amidase; cl11426 316058005665 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058005666 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 316058005667 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316058005668 acyl-activating enzyme (AAE) consensus motif; other site 316058005669 acyl-activating enzyme (AAE) consensus motif; other site 316058005670 putative AMP binding site [chemical binding]; other site 316058005671 putative active site [active] 316058005672 putative CoA binding site [chemical binding]; other site 316058005673 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 316058005674 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 316058005675 dimer interface [polypeptide binding]; other site 316058005676 active site 316058005677 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058005678 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058005679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058005680 NAD(P) binding site [chemical binding]; other site 316058005681 active site 316058005682 enoyl-CoA hydratase; Provisional; Region: PRK06688 316058005683 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 316058005684 substrate binding site [chemical binding]; other site 316058005685 oxyanion hole (OAH) forming residues; other site 316058005686 trimer interface [polypeptide binding]; other site 316058005687 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 316058005688 acyl-CoA synthetase; Provisional; Region: PRK12582 316058005689 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 316058005690 acyl-activating enzyme (AAE) consensus motif; other site 316058005691 putative AMP binding site [chemical binding]; other site 316058005692 putative active site [active] 316058005693 putative CoA binding site [chemical binding]; other site 316058005694 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058005695 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058005696 active site 316058005697 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058005698 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 316058005699 FAD binding site [chemical binding]; other site 316058005700 substrate binding site [chemical binding]; other site 316058005701 catalytic base [active] 316058005702 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058005703 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 316058005704 FAD binding site [chemical binding]; other site 316058005705 substrate binding site [chemical binding]; other site 316058005706 catalytic base [active] 316058005707 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 316058005708 putative FMN binding site [chemical binding]; other site 316058005709 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 316058005710 enoyl-CoA hydratase; Provisional; Region: PRK05995 316058005711 substrate binding site [chemical binding]; other site 316058005712 oxyanion hole (OAH) forming residues; other site 316058005713 trimer interface [polypeptide binding]; other site 316058005714 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 316058005715 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058005716 ligand binding site [chemical binding]; other site 316058005717 flexible hinge region; other site 316058005718 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 316058005719 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 316058005720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058005721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058005722 metal binding site [ion binding]; metal-binding site 316058005723 active site 316058005724 I-site; other site 316058005725 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 316058005726 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 316058005727 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058005728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058005729 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 316058005730 putative effector binding pocket; other site 316058005731 putative dimerization interface [polypeptide binding]; other site 316058005732 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 316058005733 hypothetical protein; Provisional; Region: PRK08266 316058005734 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316058005735 PYR/PP interface [polypeptide binding]; other site 316058005736 dimer interface [polypeptide binding]; other site 316058005737 TPP binding site [chemical binding]; other site 316058005738 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316058005739 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 316058005740 TPP-binding site [chemical binding]; other site 316058005741 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 316058005742 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 316058005743 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 316058005744 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 316058005745 tetramer interface [polypeptide binding]; other site 316058005746 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 316058005747 tetramer interface [polypeptide binding]; other site 316058005748 active site 316058005749 metal binding site [ion binding]; metal-binding site 316058005750 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 316058005751 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 316058005752 NAD binding site [chemical binding]; other site 316058005753 catalytic residues [active] 316058005754 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 316058005755 putative substrate binding pocket [chemical binding]; other site 316058005756 trimer interface [polypeptide binding]; other site 316058005757 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 316058005758 MarR family; Region: MarR_2; cl17246 316058005759 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316058005760 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 316058005761 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 316058005762 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 316058005763 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316058005764 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316058005765 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 316058005766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 316058005767 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 316058005768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 316058005769 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 316058005770 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316058005771 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 316058005772 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316058005773 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 316058005774 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 316058005775 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 316058005776 dimerization interface [polypeptide binding]; other site 316058005777 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058005778 dimer interface [polypeptide binding]; other site 316058005779 putative CheW interface [polypeptide binding]; other site 316058005780 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 316058005781 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 316058005782 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 316058005783 B12 binding site [chemical binding]; other site 316058005784 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 316058005785 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 316058005786 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 316058005787 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 316058005788 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 316058005789 active site lid residues [active] 316058005790 substrate binding pocket [chemical binding]; other site 316058005791 catalytic residues [active] 316058005792 substrate-Mg2+ binding site; other site 316058005793 aspartate-rich region 1; other site 316058005794 aspartate-rich region 2; other site 316058005795 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 316058005796 active site lid residues [active] 316058005797 substrate binding pocket [chemical binding]; other site 316058005798 catalytic residues [active] 316058005799 substrate-Mg2+ binding site; other site 316058005800 aspartate-rich region 1; other site 316058005801 aspartate-rich region 2; other site 316058005802 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 316058005803 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 316058005804 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 316058005805 Active site cavity [active] 316058005806 catalytic acid [active] 316058005807 hypothetical protein; Provisional; Region: PRK07077 316058005808 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 316058005809 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 316058005810 FeS/SAM binding site; other site 316058005811 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 316058005812 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 316058005813 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 316058005814 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 316058005815 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 316058005816 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 316058005817 inhibitor-cofactor binding pocket; inhibition site 316058005818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058005819 catalytic residue [active] 316058005820 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 316058005821 Ligand Binding Site [chemical binding]; other site 316058005822 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 316058005823 Ligand Binding Site [chemical binding]; other site 316058005824 choline dehydrogenase; Validated; Region: PRK02106 316058005825 lycopene cyclase; Region: lycopene_cycl; TIGR01789 316058005826 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 316058005827 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 316058005828 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 316058005829 metal binding site [ion binding]; metal-binding site 316058005830 putative dimer interface [polypeptide binding]; other site 316058005831 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 316058005832 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 316058005833 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 316058005834 Cl binding site [ion binding]; other site 316058005835 oligomer interface [polypeptide binding]; other site 316058005836 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 316058005837 dimerization interface [polypeptide binding]; other site 316058005838 metal binding site [ion binding]; metal-binding site 316058005839 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 316058005840 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058005841 putative ligand binding site [chemical binding]; other site 316058005842 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 316058005843 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058005844 putative ligand binding site [chemical binding]; other site 316058005845 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 316058005846 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058005847 putative ligand binding site [chemical binding]; other site 316058005848 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058005849 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 316058005850 TM-ABC transporter signature motif; other site 316058005851 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058005852 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 316058005853 TM-ABC transporter signature motif; other site 316058005854 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058005855 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058005856 Walker A/P-loop; other site 316058005857 ATP binding site [chemical binding]; other site 316058005858 Q-loop/lid; other site 316058005859 ABC transporter signature motif; other site 316058005860 Walker B; other site 316058005861 D-loop; other site 316058005862 H-loop/switch region; other site 316058005863 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058005864 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058005865 Walker A/P-loop; other site 316058005866 ATP binding site [chemical binding]; other site 316058005867 Q-loop/lid; other site 316058005868 ABC transporter signature motif; other site 316058005869 Walker B; other site 316058005870 D-loop; other site 316058005871 H-loop/switch region; other site 316058005872 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316058005873 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 316058005874 Bacterial transcriptional regulator; Region: IclR; pfam01614 316058005875 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 316058005876 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 316058005877 substrate binding site [chemical binding]; other site 316058005878 oxyanion hole (OAH) forming residues; other site 316058005879 trimer interface [polypeptide binding]; other site 316058005880 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 316058005881 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316058005882 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316058005883 dicarboxylate--CoA ligase PimA; Region: pimA; TIGR03205 316058005884 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 316058005885 acyl-activating enzyme (AAE) consensus motif; other site 316058005886 putative AMP binding site [chemical binding]; other site 316058005887 putative active site [active] 316058005888 putative CoA binding site [chemical binding]; other site 316058005889 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 316058005890 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 316058005891 dimer interface [polypeptide binding]; other site 316058005892 active site 316058005893 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 316058005894 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058005895 active site 316058005896 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 316058005897 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316058005898 active site 316058005899 short chain dehydrogenase; Provisional; Region: PRK07035 316058005900 classical (c) SDRs; Region: SDR_c; cd05233 316058005901 NAD(P) binding site [chemical binding]; other site 316058005902 active site 316058005903 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 316058005904 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 316058005905 [4Fe-4S] binding site [ion binding]; other site 316058005906 molybdopterin cofactor binding site; other site 316058005907 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 316058005908 molybdopterin cofactor binding site; other site 316058005909 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 316058005910 sulfite reductase; Provisional; Region: PRK06214 316058005911 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 316058005912 FAD binding pocket [chemical binding]; other site 316058005913 FAD binding motif [chemical binding]; other site 316058005914 catalytic residues [active] 316058005915 NAD binding pocket [chemical binding]; other site 316058005916 phosphate binding motif [ion binding]; other site 316058005917 beta-alpha-beta structure motif; other site 316058005918 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09567 316058005919 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 316058005920 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 316058005921 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 316058005922 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316058005923 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 316058005924 heme-binding site [chemical binding]; other site 316058005925 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 316058005926 heme-binding site [chemical binding]; other site 316058005927 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316058005928 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316058005929 Walker A/P-loop; other site 316058005930 ATP binding site [chemical binding]; other site 316058005931 Q-loop/lid; other site 316058005932 ABC transporter signature motif; other site 316058005933 Walker B; other site 316058005934 D-loop; other site 316058005935 H-loop/switch region; other site 316058005936 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058005937 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 316058005938 dimer interface [polypeptide binding]; other site 316058005939 conserved gate region; other site 316058005940 putative PBP binding loops; other site 316058005941 ABC-ATPase subunit interface; other site 316058005942 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 316058005943 NMT1-like family; Region: NMT1_2; pfam13379 316058005944 NMT1-like family; Region: NMT1_2; pfam13379 316058005945 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 316058005946 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 316058005947 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058005948 active site 316058005949 phosphorylation site [posttranslational modification] 316058005950 intermolecular recognition site; other site 316058005951 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 316058005952 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 316058005953 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 316058005954 N- and C-terminal domain interface [polypeptide binding]; other site 316058005955 active site 316058005956 MgATP binding site [chemical binding]; other site 316058005957 catalytic site [active] 316058005958 metal binding site [ion binding]; metal-binding site 316058005959 glycerol binding site [chemical binding]; other site 316058005960 homotetramer interface [polypeptide binding]; other site 316058005961 homodimer interface [polypeptide binding]; other site 316058005962 FBP binding site [chemical binding]; other site 316058005963 protein IIAGlc interface [polypeptide binding]; other site 316058005964 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 316058005965 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 316058005966 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 316058005967 substrate binding pocket [chemical binding]; other site 316058005968 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 316058005969 B12 binding site [chemical binding]; other site 316058005970 cobalt ligand [ion binding]; other site 316058005971 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 316058005972 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 316058005973 FAD binding site [chemical binding]; other site 316058005974 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 316058005975 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 316058005976 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 316058005977 prephenate dehydratase; Provisional; Region: PRK11899 316058005978 Prephenate dehydratase; Region: PDT; pfam00800 316058005979 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 316058005980 putative L-Phe binding site [chemical binding]; other site 316058005981 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 316058005982 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 316058005983 Ligand binding site; other site 316058005984 oligomer interface; other site 316058005985 Cytochrome c2 [Energy production and conversion]; Region: COG3474 316058005986 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 316058005987 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 316058005988 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 316058005989 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 316058005990 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 316058005991 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 316058005992 dimer interface [polypeptide binding]; other site 316058005993 conserved gate region; other site 316058005994 ABC-ATPase subunit interface; other site 316058005995 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 316058005996 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 316058005997 dimer interface [polypeptide binding]; other site 316058005998 conserved gate region; other site 316058005999 ABC-ATPase subunit interface; other site 316058006000 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 316058006001 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058006002 Walker A/P-loop; other site 316058006003 ATP binding site [chemical binding]; other site 316058006004 Q-loop/lid; other site 316058006005 ABC transporter signature motif; other site 316058006006 Walker B; other site 316058006007 D-loop; other site 316058006008 H-loop/switch region; other site 316058006009 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058006010 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058006011 Walker A/P-loop; other site 316058006012 ATP binding site [chemical binding]; other site 316058006013 Q-loop/lid; other site 316058006014 ABC transporter signature motif; other site 316058006015 Walker B; other site 316058006016 D-loop; other site 316058006017 H-loop/switch region; other site 316058006018 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058006019 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 316058006020 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 316058006021 dimer interface [polypeptide binding]; other site 316058006022 active site 316058006023 ADP-ribose binding site [chemical binding]; other site 316058006024 nudix motif; other site 316058006025 metal binding site [ion binding]; metal-binding site 316058006026 Src Homology 3 domain superfamily; Region: SH3; cl17036 316058006027 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 316058006028 NlpC/P60 family; Region: NLPC_P60; pfam00877 316058006029 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 316058006030 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 316058006031 interface (dimer of trimers) [polypeptide binding]; other site 316058006032 Substrate-binding/catalytic site; other site 316058006033 Zn-binding sites [ion binding]; other site 316058006034 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 316058006035 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 316058006036 TPR motif; other site 316058006037 binding surface 316058006038 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 316058006039 binding surface 316058006040 TPR motif; other site 316058006041 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 316058006042 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 316058006043 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 316058006044 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 316058006045 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 316058006046 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 316058006047 ATP binding site [chemical binding]; other site 316058006048 Walker A motif; other site 316058006049 hexamer interface [polypeptide binding]; other site 316058006050 Walker B motif; other site 316058006051 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 316058006052 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 316058006053 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 316058006054 Type IV pili component [Cell motility and secretion]; Region: COG5461 316058006055 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 316058006056 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 316058006057 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 316058006058 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 316058006059 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 316058006060 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 316058006061 Flp/Fap pilin component; Region: Flp_Fap; cl01585 316058006062 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 316058006063 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 316058006064 TadE-like protein; Region: TadE; pfam07811 316058006065 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 316058006066 DNA-binding site [nucleotide binding]; DNA binding site 316058006067 RNA-binding motif; other site 316058006068 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 316058006069 rRNA binding site [nucleotide binding]; other site 316058006070 predicted 30S ribosome binding site; other site 316058006071 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 316058006072 DEAD-like helicases superfamily; Region: DEXDc; smart00487 316058006073 ATP binding site [chemical binding]; other site 316058006074 Mg++ binding site [ion binding]; other site 316058006075 motif III; other site 316058006076 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 316058006077 nucleotide binding region [chemical binding]; other site 316058006078 ATP-binding site [chemical binding]; other site 316058006079 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058006080 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 316058006081 putative ligand binding site [chemical binding]; other site 316058006082 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 316058006083 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058006084 TM-ABC transporter signature motif; other site 316058006085 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058006086 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 316058006087 TM-ABC transporter signature motif; other site 316058006088 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 316058006089 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058006090 Walker A/P-loop; other site 316058006091 ATP binding site [chemical binding]; other site 316058006092 Q-loop/lid; other site 316058006093 ABC transporter signature motif; other site 316058006094 Walker B; other site 316058006095 D-loop; other site 316058006096 H-loop/switch region; other site 316058006097 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 316058006098 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058006099 Walker A/P-loop; other site 316058006100 ATP binding site [chemical binding]; other site 316058006101 Q-loop/lid; other site 316058006102 ABC transporter signature motif; other site 316058006103 Walker B; other site 316058006104 D-loop; other site 316058006105 H-loop/switch region; other site 316058006106 UreD urease accessory protein; Region: UreD; pfam01774 316058006107 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 316058006108 alpha-gamma subunit interface [polypeptide binding]; other site 316058006109 beta-gamma subunit interface [polypeptide binding]; other site 316058006110 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 316058006111 gamma-beta subunit interface [polypeptide binding]; other site 316058006112 alpha-beta subunit interface [polypeptide binding]; other site 316058006113 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 316058006114 HD domain; Region: HD_4; pfam13328 316058006115 urease subunit alpha; Reviewed; Region: ureC; PRK13207 316058006116 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 316058006117 subunit interactions [polypeptide binding]; other site 316058006118 active site 316058006119 flap region; other site 316058006120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 316058006121 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058006122 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058006123 WHG domain; Region: WHG; pfam13305 316058006124 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 316058006125 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 316058006126 Uncharacterized conserved protein [Function unknown]; Region: COG2128 316058006127 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 316058006128 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058006129 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 316058006130 TolQ protein; Region: tolQ; TIGR02796 316058006131 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 316058006132 TolR protein; Region: tolR; TIGR02801 316058006133 translocation protein TolB; Provisional; Region: tolB; PRK05137 316058006134 TolB amino-terminal domain; Region: TolB_N; pfam04052 316058006135 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316058006136 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316058006137 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316058006138 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316058006139 PAS fold; Region: PAS_7; pfam12860 316058006140 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058006141 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058006142 metal binding site [ion binding]; metal-binding site 316058006143 active site 316058006144 I-site; other site 316058006145 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 316058006146 Autoinducer synthetase; Region: Autoind_synth; cl17404 316058006147 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 316058006148 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316058006149 ligand binding site [chemical binding]; other site 316058006150 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 316058006151 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 316058006152 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 316058006153 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 316058006154 Ligand Binding Site [chemical binding]; other site 316058006155 FtsH Extracellular; Region: FtsH_ext; pfam06480 316058006156 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 316058006157 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 316058006158 Walker A motif; other site 316058006159 ATP binding site [chemical binding]; other site 316058006160 Walker B motif; other site 316058006161 arginine finger; other site 316058006162 Peptidase family M41; Region: Peptidase_M41; pfam01434 316058006163 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316058006164 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 316058006165 DNA binding residues [nucleotide binding] 316058006166 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 316058006167 Amidase; Region: Amidase; cl11426 316058006168 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 316058006169 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 316058006170 P-loop; other site 316058006171 Magnesium ion binding site [ion binding]; other site 316058006172 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 316058006173 Magnesium ion binding site [ion binding]; other site 316058006174 AzlC protein; Region: AzlC; cl00570 316058006175 Predicted membrane protein [Function unknown]; Region: COG4541 316058006176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058006177 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058006178 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 316058006179 FAD binding domain; Region: FAD_binding_4; pfam01565 316058006180 FAD binding domain; Region: FAD_binding_4; pfam01565 316058006181 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 316058006182 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 316058006183 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 316058006184 Cysteine-rich domain; Region: CCG; pfam02754 316058006185 Cysteine-rich domain; Region: CCG; pfam02754 316058006186 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 316058006187 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 316058006188 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 316058006189 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 316058006190 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 316058006191 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316058006192 chaperonin GroEL; Reviewed; Region: groEL; PRK12852 316058006193 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 316058006194 ring oligomerisation interface [polypeptide binding]; other site 316058006195 ATP/Mg binding site [chemical binding]; other site 316058006196 stacking interactions; other site 316058006197 hinge regions; other site 316058006198 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 316058006199 oligomerisation interface [polypeptide binding]; other site 316058006200 mobile loop; other site 316058006201 roof hairpin; other site 316058006202 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316058006203 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 316058006204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316058006205 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058006206 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 316058006207 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 316058006208 putative active site [active] 316058006209 YdjC motif; other site 316058006210 Mg binding site [ion binding]; other site 316058006211 putative homodimer interface [polypeptide binding]; other site 316058006212 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 316058006213 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 316058006214 Ligand binding site; other site 316058006215 Putative Catalytic site; other site 316058006216 DXD motif; other site 316058006217 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 316058006218 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 316058006219 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 316058006220 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 316058006221 dimer interface [polypeptide binding]; other site 316058006222 motif 1; other site 316058006223 motif 2; other site 316058006224 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 316058006225 motif 3; other site 316058006226 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 316058006227 RNA methyltransferase, RsmE family; Region: TIGR00046 316058006228 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 316058006229 UbiA prenyltransferase family; Region: UbiA; pfam01040 316058006230 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 316058006231 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 316058006232 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 316058006233 active site 316058006234 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 316058006235 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 316058006236 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 316058006237 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 316058006238 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 316058006239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 316058006240 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 316058006241 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 316058006242 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 316058006243 generic binding surface II; other site 316058006244 generic binding surface I; other site 316058006245 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316058006246 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316058006247 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 316058006248 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 316058006249 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 316058006250 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 316058006251 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 316058006252 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316058006253 Uncharacterized conserved protein [Function unknown]; Region: COG1359 316058006254 Uncharacterized conserved protein [Function unknown]; Region: COG1359 316058006255 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 316058006256 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 316058006257 dimer interface [polypeptide binding]; other site 316058006258 catalytic residues [active] 316058006259 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 316058006260 UreF; Region: UreF; pfam01730 316058006261 acyl-CoA synthetase; Validated; Region: PRK06188 316058006262 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058006263 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316058006264 acyl-activating enzyme (AAE) consensus motif; other site 316058006265 putative AMP binding site [chemical binding]; other site 316058006266 putative active site [active] 316058006267 putative CoA binding site [chemical binding]; other site 316058006268 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 316058006269 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 316058006270 FMN binding site [chemical binding]; other site 316058006271 substrate binding site [chemical binding]; other site 316058006272 putative catalytic residue [active] 316058006273 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 316058006274 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 316058006275 putative NAD(P) binding site [chemical binding]; other site 316058006276 catalytic Zn binding site [ion binding]; other site 316058006277 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 316058006278 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 316058006279 GTP binding site; other site 316058006280 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 316058006281 CPxP motif; other site 316058006282 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 316058006283 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 316058006284 putative DNA binding site [nucleotide binding]; other site 316058006285 putative homodimer interface [polypeptide binding]; other site 316058006286 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 316058006287 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 316058006288 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 316058006289 active site 316058006290 DNA binding site [nucleotide binding] 316058006291 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 316058006292 DNA binding site [nucleotide binding] 316058006293 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 316058006294 nucleotide binding site [chemical binding]; other site 316058006295 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 316058006296 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 316058006297 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 316058006298 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 316058006299 active site 316058006300 catalytic site [active] 316058006301 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 316058006302 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 316058006303 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 316058006304 catalytic site [active] 316058006305 active site 316058006306 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 316058006307 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 316058006308 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 316058006309 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 316058006310 active site 316058006311 catalytic site [active] 316058006312 glycogen branching enzyme; Provisional; Region: PRK05402 316058006313 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 316058006314 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 316058006315 active site 316058006316 catalytic site [active] 316058006317 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 316058006318 trehalose synthase; Region: treS_nterm; TIGR02456 316058006319 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 316058006320 active site 316058006321 catalytic site [active] 316058006322 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 316058006323 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 316058006324 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 316058006325 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 316058006326 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 316058006327 active site 316058006328 homodimer interface [polypeptide binding]; other site 316058006329 catalytic site [active] 316058006330 acceptor binding site [chemical binding]; other site 316058006331 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 316058006332 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 316058006333 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 316058006334 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 316058006335 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 316058006336 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 316058006337 active site 316058006338 motif I; other site 316058006339 motif II; other site 316058006340 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 316058006341 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 316058006342 AAA domain; Region: AAA_33; pfam13671 316058006343 ATP-binding site [chemical binding]; other site 316058006344 Gluconate-6-phosphate binding site [chemical binding]; other site 316058006345 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 316058006346 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 316058006347 putative active site [active] 316058006348 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 316058006349 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 316058006350 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 316058006351 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 316058006352 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 316058006353 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 316058006354 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 316058006355 putative active site [active] 316058006356 catalytic residue [active] 316058006357 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 316058006358 active site 316058006359 dimer interface [polypeptide binding]; other site 316058006360 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 316058006361 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 316058006362 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 316058006363 amidase; Provisional; Region: PRK07487 316058006364 Amidase; Region: Amidase; cl11426 316058006365 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 316058006366 catalytic residues [active] 316058006367 dimer interface [polypeptide binding]; other site 316058006368 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 316058006369 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 316058006370 Radical SAM superfamily; Region: Radical_SAM; pfam04055 316058006371 FeS/SAM binding site; other site 316058006372 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 316058006373 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316058006374 putative C-terminal domain interface [polypeptide binding]; other site 316058006375 putative GSH binding site (G-site) [chemical binding]; other site 316058006376 putative dimer interface [polypeptide binding]; other site 316058006377 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 316058006378 putative N-terminal domain interface [polypeptide binding]; other site 316058006379 putative dimer interface [polypeptide binding]; other site 316058006380 putative substrate binding pocket (H-site) [chemical binding]; other site 316058006381 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 316058006382 GIY-YIG motif/motif A; other site 316058006383 putative active site [active] 316058006384 putative metal binding site [ion binding]; other site 316058006385 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 316058006386 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 316058006387 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316058006388 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 316058006389 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 316058006390 FMN-binding pocket [chemical binding]; other site 316058006391 flavin binding motif; other site 316058006392 phosphate binding motif [ion binding]; other site 316058006393 beta-alpha-beta structure motif; other site 316058006394 NAD binding pocket [chemical binding]; other site 316058006395 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 316058006396 catalytic loop [active] 316058006397 iron binding site [ion binding]; other site 316058006398 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 316058006399 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316058006400 DNA-binding site [nucleotide binding]; DNA binding site 316058006401 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316058006402 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 316058006403 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 316058006404 iron-sulfur cluster [ion binding]; other site 316058006405 [2Fe-2S] cluster binding site [ion binding]; other site 316058006406 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 316058006407 alpha subunit interface [polypeptide binding]; other site 316058006408 active site 316058006409 substrate binding site [chemical binding]; other site 316058006410 Fe binding site [ion binding]; other site 316058006411 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 316058006412 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 316058006413 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 316058006414 Walker A motif; other site 316058006415 ATP binding site [chemical binding]; other site 316058006416 Walker B motif; other site 316058006417 arginine finger; other site 316058006418 PAS domain S-box; Region: sensory_box; TIGR00229 316058006419 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 316058006420 putative active site [active] 316058006421 heme pocket [chemical binding]; other site 316058006422 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058006423 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058006424 metal binding site [ion binding]; metal-binding site 316058006425 active site 316058006426 I-site; other site 316058006427 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 316058006428 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 316058006429 active site 316058006430 catalytic residue [active] 316058006431 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 316058006432 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 316058006433 active site residue [active] 316058006434 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 316058006435 active site residue [active] 316058006436 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 316058006437 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316058006438 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058006439 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 316058006440 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316058006441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058006442 Walker A/P-loop; other site 316058006443 ATP binding site [chemical binding]; other site 316058006444 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316058006445 ABC transporter signature motif; other site 316058006446 ABC transporter; Region: ABC_tran_2; pfam12848 316058006447 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316058006448 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: VapC; COG1487 316058006449 putative active site [active] 316058006450 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 316058006451 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 316058006452 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 316058006453 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 316058006454 S-adenosylmethionine binding site [chemical binding]; other site 316058006455 hypothetical protein; Provisional; Region: PRK05208 316058006456 lytic murein transglycosylase; Region: MltB_2; TIGR02283 316058006457 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 316058006458 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316058006459 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316058006460 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 316058006461 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 316058006462 dimer interface [polypeptide binding]; other site 316058006463 conserved gate region; other site 316058006464 ABC-ATPase subunit interface; other site 316058006465 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 316058006466 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 316058006467 dimer interface [polypeptide binding]; other site 316058006468 conserved gate region; other site 316058006469 ABC-ATPase subunit interface; other site 316058006470 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 316058006471 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 316058006472 Walker A/P-loop; other site 316058006473 ATP binding site [chemical binding]; other site 316058006474 Q-loop/lid; other site 316058006475 ABC transporter signature motif; other site 316058006476 Walker B; other site 316058006477 D-loop; other site 316058006478 H-loop/switch region; other site 316058006479 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 316058006480 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 316058006481 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 316058006482 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 316058006483 heme binding site [chemical binding]; other site 316058006484 ferroxidase pore; other site 316058006485 ferroxidase diiron center [ion binding]; other site 316058006486 Predicted membrane protein [Function unknown]; Region: COG4270 316058006487 SOUL heme-binding protein; Region: SOUL; pfam04832 316058006488 Uncharacterized conserved protein (DUF2277); Region: DUF2277; pfam10041 316058006489 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316058006490 Cytochrome P450; Region: p450; cl12078 316058006491 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316058006492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 316058006493 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 316058006494 hypothetical protein; Provisional; Region: PRK07538 316058006495 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316058006496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 316058006497 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 316058006498 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 316058006499 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 316058006500 ThiC-associated domain; Region: ThiC-associated; pfam13667 316058006501 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 316058006502 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 316058006503 thiamine phosphate binding site [chemical binding]; other site 316058006504 active site 316058006505 pyrophosphate binding site [ion binding]; other site 316058006506 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 316058006507 ThiS interaction site; other site 316058006508 putative active site [active] 316058006509 tetramer interface [polypeptide binding]; other site 316058006510 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 316058006511 thiS-thiF/thiG interaction site; other site 316058006512 hydroxyglutarate oxidase; Provisional; Region: PRK11728 316058006513 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 316058006514 HAMP domain; Region: HAMP; pfam00672 316058006515 dimerization interface [polypeptide binding]; other site 316058006516 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 316058006517 dimer interface [polypeptide binding]; other site 316058006518 phosphorylation site [posttranslational modification] 316058006519 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 316058006520 ATP binding site [chemical binding]; other site 316058006521 Mg2+ binding site [ion binding]; other site 316058006522 G-X-G motif; other site 316058006523 osmolarity response regulator; Provisional; Region: ompR; PRK09468 316058006524 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058006525 active site 316058006526 phosphorylation site [posttranslational modification] 316058006527 intermolecular recognition site; other site 316058006528 dimerization interface [polypeptide binding]; other site 316058006529 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 316058006530 DNA binding site [nucleotide binding] 316058006531 PRC-barrel domain; Region: PRC; pfam05239 316058006532 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 316058006533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316058006534 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058006535 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 316058006536 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 316058006537 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058006538 catalytic residue [active] 316058006539 Methyltransferase domain; Region: Methyltransf_31; pfam13847 316058006540 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 316058006541 S-adenosylmethionine binding site [chemical binding]; other site 316058006542 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 316058006543 dimerization interface [polypeptide binding]; other site 316058006544 putative DNA binding site [nucleotide binding]; other site 316058006545 putative Zn2+ binding site [ion binding]; other site 316058006546 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 316058006547 putative DNA binding site [nucleotide binding]; other site 316058006548 putative Zn2+ binding site [ion binding]; other site 316058006549 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 316058006550 ArsC family; Region: ArsC; pfam03960 316058006551 catalytic residues [active] 316058006552 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 316058006553 Sodium Bile acid symporter family; Region: SBF; cl17470 316058006554 epoxide hydrolase N-terminal domain-like phosphatase; Region: HAD-1A3-hyp; TIGR02247 316058006555 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 316058006556 motif II; other site 316058006557 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 316058006558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058006559 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 316058006560 substrate binding pocket [chemical binding]; other site 316058006561 dimerization interface [polypeptide binding]; other site 316058006562 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 316058006563 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 316058006564 Autotransporter beta-domain; Region: Autotransporter; smart00869 316058006565 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 316058006566 dimerization interface [polypeptide binding]; other site 316058006567 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316058006568 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058006569 dimer interface [polypeptide binding]; other site 316058006570 putative CheW interface [polypeptide binding]; other site 316058006571 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 316058006572 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058006573 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058006574 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 316058006575 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 316058006576 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058006577 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058006578 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 316058006579 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 316058006580 putative substrate translocation pore; other site 316058006581 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 316058006582 Fic/DOC family; Region: Fic; cl00960 316058006583 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 316058006584 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 316058006585 amidase catalytic site [active] 316058006586 Zn binding residues [ion binding]; other site 316058006587 substrate binding site [chemical binding]; other site 316058006588 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316058006589 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 316058006590 MraW methylase family; Region: Methyltransf_5; cl17771 316058006591 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 316058006592 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 316058006593 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 316058006594 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 316058006595 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 316058006596 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316058006597 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316058006598 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 316058006599 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 316058006600 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316058006601 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316058006602 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 316058006603 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 316058006604 Mg++ binding site [ion binding]; other site 316058006605 putative catalytic motif [active] 316058006606 putative substrate binding site [chemical binding]; other site 316058006607 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 316058006608 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316058006609 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316058006610 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316058006611 cell division protein FtsW; Region: ftsW; TIGR02614 316058006612 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 316058006613 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 316058006614 active site 316058006615 homodimer interface [polypeptide binding]; other site 316058006616 Methyltransferase domain; Region: Methyltransf_24; pfam13578 316058006617 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 316058006618 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 316058006619 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316058006620 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316058006621 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 316058006622 FAD binding domain; Region: FAD_binding_4; pfam01565 316058006623 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 316058006624 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 316058006625 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 316058006626 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 316058006627 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 316058006628 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316058006629 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 316058006630 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 316058006631 Cell division protein FtsQ; Region: FtsQ; pfam03799 316058006632 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 316058006633 Cell division protein FtsA; Region: FtsA; smart00842 316058006634 Cell division protein FtsA; Region: FtsA; pfam14450 316058006635 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 316058006636 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 316058006637 nucleotide binding site [chemical binding]; other site 316058006638 SulA interaction site; other site 316058006639 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 316058006640 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 316058006641 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 316058006642 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 316058006643 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 316058006644 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 316058006645 Walker A/P-loop; other site 316058006646 ATP binding site [chemical binding]; other site 316058006647 Q-loop/lid; other site 316058006648 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 316058006649 ABC transporter signature motif; other site 316058006650 Walker B; other site 316058006651 D-loop; other site 316058006652 H-loop/switch region; other site 316058006653 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 316058006654 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 316058006655 nucleotide binding pocket [chemical binding]; other site 316058006656 K-X-D-G motif; other site 316058006657 catalytic site [active] 316058006658 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 316058006659 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 316058006660 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 316058006661 Dimer interface [polypeptide binding]; other site 316058006662 BRCT sequence motif; other site 316058006663 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 316058006664 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316058006665 putative substrate translocation pore; other site 316058006666 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 316058006667 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 316058006668 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 316058006669 active site 316058006670 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 316058006671 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 316058006672 S-adenosylmethionine binding site [chemical binding]; other site 316058006673 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 316058006674 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316058006675 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 316058006676 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058006677 ABC-2 type transporter; Region: ABC2_membrane; cl17235 316058006678 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316058006679 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 316058006680 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316058006681 Walker A/P-loop; other site 316058006682 ATP binding site [chemical binding]; other site 316058006683 Q-loop/lid; other site 316058006684 ABC transporter signature motif; other site 316058006685 Walker B; other site 316058006686 D-loop; other site 316058006687 H-loop/switch region; other site 316058006688 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 316058006689 YcfA-like protein; Region: YcfA; pfam07927 316058006690 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 316058006691 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 316058006692 Part of AAA domain; Region: AAA_19; pfam13245 316058006693 Family description; Region: UvrD_C_2; pfam13538 316058006694 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 316058006695 active site 316058006696 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 316058006697 FAD binding domain; Region: FAD_binding_4; pfam01565 316058006698 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316058006699 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 316058006700 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 316058006701 fumarate hydratase; Reviewed; Region: fumC; PRK00485 316058006702 Class II fumarases; Region: Fumarase_classII; cd01362 316058006703 active site 316058006704 tetramer interface [polypeptide binding]; other site 316058006705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 316058006706 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 316058006707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 316058006708 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 316058006709 thymidylate synthase; Reviewed; Region: thyA; PRK01827 316058006710 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 316058006711 dimerization interface [polypeptide binding]; other site 316058006712 active site 316058006713 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 316058006714 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 316058006715 folate binding site [chemical binding]; other site 316058006716 NADP+ binding site [chemical binding]; other site 316058006717 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 316058006718 HflK protein; Region: hflK; TIGR01933 316058006719 HflC protein; Region: hflC; TIGR01932 316058006720 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 316058006721 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 316058006722 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 316058006723 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316058006724 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 316058006725 protein binding site [polypeptide binding]; other site 316058006726 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 316058006727 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 316058006728 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 316058006729 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316058006730 Coenzyme A binding pocket [chemical binding]; other site 316058006731 Predicted methyltransferases [General function prediction only]; Region: COG1568 316058006732 MarR family; Region: MarR_2; cl17246 316058006733 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 316058006734 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 316058006735 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 316058006736 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058006737 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316058006738 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 316058006739 ligand binding site [chemical binding]; other site 316058006740 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058006741 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058006742 Walker A/P-loop; other site 316058006743 ATP binding site [chemical binding]; other site 316058006744 Q-loop/lid; other site 316058006745 ABC transporter signature motif; other site 316058006746 Walker B; other site 316058006747 D-loop; other site 316058006748 H-loop/switch region; other site 316058006749 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 316058006750 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058006751 Walker A/P-loop; other site 316058006752 ATP binding site [chemical binding]; other site 316058006753 Q-loop/lid; other site 316058006754 ABC transporter signature motif; other site 316058006755 Walker B; other site 316058006756 D-loop; other site 316058006757 H-loop/switch region; other site 316058006758 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058006759 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 316058006760 TM-ABC transporter signature motif; other site 316058006761 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058006762 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 316058006763 TM-ABC transporter signature motif; other site 316058006764 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 316058006765 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 316058006766 PAS domain; Region: PAS_9; pfam13426 316058006767 putative active site [active] 316058006768 heme pocket [chemical binding]; other site 316058006769 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 316058006770 PAS domain; Region: PAS_9; pfam13426 316058006771 putative active site [active] 316058006772 heme pocket [chemical binding]; other site 316058006773 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 316058006774 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 316058006775 Walker A motif; other site 316058006776 ATP binding site [chemical binding]; other site 316058006777 Walker B motif; other site 316058006778 arginine finger; other site 316058006779 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 316058006780 NMT1-like family; Region: NMT1_2; pfam13379 316058006781 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058006782 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 316058006783 dimer interface [polypeptide binding]; other site 316058006784 conserved gate region; other site 316058006785 putative PBP binding loops; other site 316058006786 ABC-ATPase subunit interface; other site 316058006787 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316058006788 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316058006789 Walker A/P-loop; other site 316058006790 ATP binding site [chemical binding]; other site 316058006791 Q-loop/lid; other site 316058006792 ABC transporter signature motif; other site 316058006793 Walker B; other site 316058006794 D-loop; other site 316058006795 H-loop/switch region; other site 316058006796 cyanate hydratase; Validated; Region: PRK02866 316058006797 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 316058006798 oligomer interface [polypeptide binding]; other site 316058006799 active site 316058006800 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316058006801 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316058006802 Fatty acid desaturase; Region: FA_desaturase; pfam00487 316058006803 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cd01060 316058006804 putative di-iron ligands [ion binding]; other site 316058006805 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 316058006806 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 316058006807 active site 316058006808 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 316058006809 dimer interface [polypeptide binding]; other site 316058006810 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 316058006811 Ligand Binding Site [chemical binding]; other site 316058006812 Molecular Tunnel; other site 316058006813 3-amino-5-hydroxybenoic acid synthesis related protein; Region: AHBA_synth_RP; TIGR01454 316058006814 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 316058006815 motif II; other site 316058006816 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 316058006817 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316058006818 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 316058006819 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 316058006820 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 316058006821 inhibitor-cofactor binding pocket; inhibition site 316058006822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058006823 catalytic residue [active] 316058006824 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058006825 AMP-binding enzyme; Region: AMP-binding; pfam00501 316058006826 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058006827 acyl-activating enzyme (AAE) consensus motif; other site 316058006828 acyl-activating enzyme (AAE) consensus motif; other site 316058006829 AMP binding site [chemical binding]; other site 316058006830 active site 316058006831 CoA binding site [chemical binding]; other site 316058006832 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 316058006833 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 316058006834 FeS/SAM binding site; other site 316058006835 Phosphopantetheine attachment site; Region: PP-binding; cl09936 316058006836 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 316058006837 B12 binding site [chemical binding]; other site 316058006838 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 316058006839 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 316058006840 active site 316058006841 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 316058006842 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 316058006843 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058006844 catalytic residue [active] 316058006845 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 316058006846 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 316058006847 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316058006848 catalytic residue [active] 316058006849 Transcriptional regulators [Transcription]; Region: GntR; COG1802 316058006850 FCD domain; Region: FCD; pfam07729 316058006851 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 316058006852 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316058006853 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_2; cd06335 316058006854 putative ligand binding site [chemical binding]; other site 316058006855 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058006856 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 316058006857 TM-ABC transporter signature motif; other site 316058006858 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058006859 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 316058006860 TM-ABC transporter signature motif; other site 316058006861 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058006862 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058006863 Walker A/P-loop; other site 316058006864 ATP binding site [chemical binding]; other site 316058006865 Q-loop/lid; other site 316058006866 ABC transporter signature motif; other site 316058006867 Walker B; other site 316058006868 D-loop; other site 316058006869 H-loop/switch region; other site 316058006870 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058006871 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058006872 Walker A/P-loop; other site 316058006873 ATP binding site [chemical binding]; other site 316058006874 Q-loop/lid; other site 316058006875 ABC transporter signature motif; other site 316058006876 Walker B; other site 316058006877 D-loop; other site 316058006878 H-loop/switch region; other site 316058006879 cytosine deaminase; Provisional; Region: PRK05985 316058006880 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 316058006881 active site 316058006882 amidase; Provisional; Region: PRK08310 316058006883 indole-3-acetamide amidohydrolase; Region: PLN02722 316058006884 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 316058006885 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 316058006886 N-terminal plug; other site 316058006887 ligand-binding site [chemical binding]; other site 316058006888 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 316058006889 tonB-system energizer ExbB; Region: exbB; TIGR02797 316058006890 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 316058006891 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 316058006892 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 316058006893 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316058006894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058006895 NAD(P) binding site [chemical binding]; other site 316058006896 active site 316058006897 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 316058006898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058006899 NAD(P) binding site [chemical binding]; other site 316058006900 active site 316058006901 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 316058006902 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 316058006903 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 316058006904 Walker A/P-loop; other site 316058006905 ATP binding site [chemical binding]; other site 316058006906 Q-loop/lid; other site 316058006907 ABC transporter signature motif; other site 316058006908 Walker B; other site 316058006909 D-loop; other site 316058006910 H-loop/switch region; other site 316058006911 TOBE domain; Region: TOBE_2; pfam08402 316058006912 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 316058006913 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 316058006914 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316058006915 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 316058006916 dimer interface [polypeptide binding]; other site 316058006917 conserved gate region; other site 316058006918 putative PBP binding loops; other site 316058006919 ABC-ATPase subunit interface; other site 316058006920 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316058006921 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 316058006922 dimer interface [polypeptide binding]; other site 316058006923 conserved gate region; other site 316058006924 putative PBP binding loops; other site 316058006925 ABC-ATPase subunit interface; other site 316058006926 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 316058006927 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 316058006928 putative NAD(P) binding site [chemical binding]; other site 316058006929 active site 316058006930 putative substrate binding site [chemical binding]; other site 316058006931 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 316058006932 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 316058006933 active site 316058006934 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 316058006935 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058006936 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316058006937 acyl-activating enzyme (AAE) consensus motif; other site 316058006938 acyl-activating enzyme (AAE) consensus motif; other site 316058006939 putative AMP binding site [chemical binding]; other site 316058006940 putative active site [active] 316058006941 putative CoA binding site [chemical binding]; other site 316058006942 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316058006943 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316058006944 thiolase; Provisional; Region: PRK06158 316058006945 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 316058006946 active site 316058006947 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 316058006948 DUF35 OB-fold domain; Region: DUF35; pfam01796 316058006949 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 316058006950 CoA binding domain; Region: CoA_binding_2; pfam13380 316058006951 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 316058006952 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 316058006953 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 316058006954 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 316058006955 DctM-like transporters; Region: DctM; pfam06808 316058006956 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 316058006957 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 316058006958 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316058006959 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316058006960 Bacterial transcriptional regulator; Region: IclR; pfam01614 316058006961 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 316058006962 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316058006963 putative substrate translocation pore; other site 316058006964 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 316058006965 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 316058006966 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 316058006967 substrate binding site [chemical binding]; other site 316058006968 oxyanion hole (OAH) forming residues; other site 316058006969 trimer interface [polypeptide binding]; other site 316058006970 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058006971 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058006972 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 316058006973 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 316058006974 tetrameric interface [polypeptide binding]; other site 316058006975 NAD binding site [chemical binding]; other site 316058006976 catalytic residues [active] 316058006977 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 316058006978 putative active site [active] 316058006979 homotetrameric interface [polypeptide binding]; other site 316058006980 metal binding site [ion binding]; metal-binding site 316058006981 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058006982 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 316058006983 substrate binding pocket [chemical binding]; other site 316058006984 FAD binding site [chemical binding]; other site 316058006985 catalytic base [active] 316058006986 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 316058006987 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 316058006988 substrate binding site [chemical binding]; other site 316058006989 oxyanion hole (OAH) forming residues; other site 316058006990 trimer interface [polypeptide binding]; other site 316058006991 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 316058006992 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 316058006993 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 316058006994 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 316058006995 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 316058006996 active site 316058006997 acyl-activating enzyme (AAE) consensus motif; other site 316058006998 putative CoA binding site [chemical binding]; other site 316058006999 AMP binding site [chemical binding]; other site 316058007000 enoyl-CoA hydratase; Provisional; Region: PRK08260 316058007001 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 316058007002 substrate binding site [chemical binding]; other site 316058007003 oxyanion hole (OAH) forming residues; other site 316058007004 trimer interface [polypeptide binding]; other site 316058007005 amidase; Provisional; Region: PRK07042 316058007006 Amidase; Region: Amidase; pfam01425 316058007007 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 316058007008 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 316058007009 metal binding site [ion binding]; metal-binding site 316058007010 putative dimer interface [polypeptide binding]; other site 316058007011 Fic family protein [Function unknown]; Region: COG3177 316058007012 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 316058007013 Fic/DOC family; Region: Fic; pfam02661 316058007014 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 316058007015 salicylate hydroxylase; Provisional; Region: PRK08163 316058007016 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316058007017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 316058007018 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316058007019 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 316058007020 serine acetyltransferase; Provisional; Region: cysE; PRK11132 316058007021 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 316058007022 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 316058007023 trimer interface [polypeptide binding]; other site 316058007024 active site 316058007025 substrate binding site [chemical binding]; other site 316058007026 CoA binding site [chemical binding]; other site 316058007027 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 316058007028 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 316058007029 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 316058007030 trimer interface [polypeptide binding]; other site 316058007031 putative metal binding site [ion binding]; other site 316058007032 Porin subfamily; Region: Porin_2; pfam02530 316058007033 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316058007034 MarR family; Region: MarR_2; pfam12802 316058007035 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316058007036 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 316058007037 PilZ domain; Region: PilZ; pfam07238 316058007038 PilZ domain; Region: PilZ; pfam07238 316058007039 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 316058007040 putative active site [active] 316058007041 heme pocket [chemical binding]; other site 316058007042 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 316058007043 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 316058007044 putative active site [active] 316058007045 heme pocket [chemical binding]; other site 316058007046 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 316058007047 dimer interface [polypeptide binding]; other site 316058007048 phosphorylation site [posttranslational modification] 316058007049 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 316058007050 ATP binding site [chemical binding]; other site 316058007051 Mg2+ binding site [ion binding]; other site 316058007052 G-X-G motif; other site 316058007053 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058007054 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058007055 active site 316058007056 phosphorylation site [posttranslational modification] 316058007057 intermolecular recognition site; other site 316058007058 dimerization interface [polypeptide binding]; other site 316058007059 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058007060 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 316058007061 ligand binding site [chemical binding]; other site 316058007062 flexible hinge region; other site 316058007063 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316058007064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 316058007065 PAS domain; Region: PAS_5; pfam07310 316058007066 Rhomboid family; Region: Rhomboid; cl11446 316058007067 FOG: CBS domain [General function prediction only]; Region: COG0517 316058007068 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 316058007069 Transposase; Region: DEDD_Tnp_IS110; pfam01548 316058007070 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 316058007071 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 316058007072 hypothetical protein; Provisional; Region: PRK10279 316058007073 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 316058007074 nucleophile elbow; other site 316058007075 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058007076 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 316058007077 ligand binding site [chemical binding]; other site 316058007078 flexible hinge region; other site 316058007079 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 316058007080 putative switch regulator; other site 316058007081 non-specific DNA interactions [nucleotide binding]; other site 316058007082 DNA binding site [nucleotide binding] 316058007083 sequence specific DNA binding site [nucleotide binding]; other site 316058007084 putative cAMP binding site [chemical binding]; other site 316058007085 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 316058007086 HWE histidine kinase; Region: HWE_HK; smart00911 316058007087 PAS domain S-box; Region: sensory_box; TIGR00229 316058007088 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 316058007089 putative active site [active] 316058007090 heme pocket [chemical binding]; other site 316058007091 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058007092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058007093 metal binding site [ion binding]; metal-binding site 316058007094 active site 316058007095 I-site; other site 316058007096 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 316058007097 Caspase domain; Region: Peptidase_C14; pfam00656 316058007098 Bacterial SH3 domain; Region: SH3_3; pfam08239 316058007099 Bacterial SH3 domain; Region: SH3_3; pfam08239 316058007100 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 316058007101 putative FMN binding site [chemical binding]; other site 316058007102 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 316058007103 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 316058007104 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 316058007105 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 316058007106 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 316058007107 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 316058007108 active site 316058007109 dimer interface [polypeptide binding]; other site 316058007110 motif 1; other site 316058007111 motif 2; other site 316058007112 motif 3; other site 316058007113 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 316058007114 anticodon binding site; other site 316058007115 PAS fold; Region: PAS_2; pfam08446 316058007116 GAF domain; Region: GAF; pfam01590 316058007117 Phytochrome region; Region: PHY; pfam00360 316058007118 PAS fold; Region: PAS_7; pfam12860 316058007119 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058007120 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058007121 metal binding site [ion binding]; metal-binding site 316058007122 active site 316058007123 I-site; other site 316058007124 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 316058007125 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 316058007126 putative substrate translocation pore; other site 316058007127 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 316058007128 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 316058007129 cell division protein FtsZ; Validated; Region: PRK09330 316058007130 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 316058007131 nucleotide binding site [chemical binding]; other site 316058007132 SulA interaction site; other site 316058007133 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 316058007134 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 316058007135 DNA-binding site [nucleotide binding]; DNA binding site 316058007136 RNA-binding motif; other site 316058007137 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316058007138 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 316058007139 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 316058007140 Chromate transporter; Region: Chromate_transp; pfam02417 316058007141 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 316058007142 hypothetical protein; Validated; Region: PRK00041 316058007143 Predicted periplasmic protein [Function unknown]; Region: COG3904 316058007144 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 316058007145 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 316058007146 trimerization site [polypeptide binding]; other site 316058007147 active site 316058007148 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 316058007149 GTP cyclohydrolase I; Provisional; Region: PLN03044 316058007150 active site 316058007151 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 316058007152 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 316058007153 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316058007154 catalytic residue [active] 316058007155 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 316058007156 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 316058007157 putative binding surface; other site 316058007158 active site 316058007159 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058007160 Response regulator receiver domain; Region: Response_reg; pfam00072 316058007161 active site 316058007162 phosphorylation site [posttranslational modification] 316058007163 intermolecular recognition site; other site 316058007164 dimerization interface [polypeptide binding]; other site 316058007165 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 316058007166 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 316058007167 cofactor binding site; other site 316058007168 DNA binding site [nucleotide binding] 316058007169 substrate interaction site [chemical binding]; other site 316058007170 Protein of unknown function DUF262; Region: DUF262; pfam03235 316058007171 Uncharacterized conserved protein [Function unknown]; Region: COG1479 316058007172 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 316058007173 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 316058007174 TPR motif; other site 316058007175 TPR repeat; Region: TPR_11; pfam13414 316058007176 binding surface 316058007177 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316058007178 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 316058007179 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 316058007180 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 316058007181 Secretin and TonB N terminus short domain; Region: STN; smart00965 316058007182 TonB C terminal; Region: TonB_2; pfam13103 316058007183 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 316058007184 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 316058007185 DNA binding residues [nucleotide binding] 316058007186 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 316058007187 FecR protein; Region: FecR; pfam04773 316058007188 haemagglutination activity domain; Region: Haemagg_act; cl05436 316058007189 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 316058007190 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 316058007191 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316058007192 Secretin and TonB N terminus short domain; Region: STN; smart00965 316058007193 Gram-negative bacterial tonB protein; Region: TonB; cl10048 316058007194 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 316058007195 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058007196 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 316058007197 DNA binding residues [nucleotide binding] 316058007198 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 316058007199 FecR protein; Region: FecR; pfam04773 316058007200 haemagglutination activity domain; Region: Haemagg_act; smart00912 316058007201 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 316058007202 Secretin and TonB N terminus short domain; Region: STN; smart00965 316058007203 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 316058007204 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 316058007205 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 316058007206 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 316058007207 DNA binding residues [nucleotide binding] 316058007208 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 316058007209 FecR protein; Region: FecR; pfam04773 316058007210 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 316058007211 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 316058007212 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 316058007213 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 316058007214 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 316058007215 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 316058007216 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 316058007217 TonB C terminal; Region: TonB_2; pfam13103 316058007218 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 316058007219 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 316058007220 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 316058007221 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 316058007222 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316058007223 catalytic residue [active] 316058007224 Secretin and TonB N terminus short domain; Region: STN; smart00965 316058007225 Gram-negative bacterial tonB protein; Region: TonB; cl10048 316058007226 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 316058007227 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 316058007228 DNA binding residues [nucleotide binding] 316058007229 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 316058007230 FecR protein; Region: FecR; pfam04773 316058007231 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 316058007232 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 316058007233 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 316058007234 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316058007235 Walker A/P-loop; other site 316058007236 ATP binding site [chemical binding]; other site 316058007237 Q-loop/lid; other site 316058007238 ABC transporter signature motif; other site 316058007239 Walker B; other site 316058007240 D-loop; other site 316058007241 H-loop/switch region; other site 316058007242 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 316058007243 FtsX-like permease family; Region: FtsX; pfam02687 316058007244 macrolide transporter subunit MacA; Provisional; Region: PRK11578 316058007245 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058007246 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058007247 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058007248 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058007249 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 316058007250 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058007251 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058007252 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 316058007253 Protein export membrane protein; Region: SecD_SecF; cl14618 316058007254 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 316058007255 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 316058007256 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 316058007257 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 316058007258 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316058007259 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 316058007260 Walker A/P-loop; other site 316058007261 ATP binding site [chemical binding]; other site 316058007262 Q-loop/lid; other site 316058007263 ABC transporter signature motif; other site 316058007264 Walker B; other site 316058007265 D-loop; other site 316058007266 H-loop/switch region; other site 316058007267 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 316058007268 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058007269 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058007270 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 316058007271 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 316058007272 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 316058007273 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 316058007274 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 316058007275 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 316058007276 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 316058007277 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 316058007278 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 316058007279 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 316058007280 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 316058007281 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 316058007282 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 316058007283 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 316058007284 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058007285 Cadherin repeat-like domain; Region: CA_like; cl15786 316058007286 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 316058007287 Ca2+ binding site [ion binding]; other site 316058007288 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 316058007289 ligand binding surface [chemical binding]; other site 316058007290 VCBS repeat; Region: VCBS_repeat; TIGR01965 316058007291 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 316058007292 Peptidase family M50; Region: Peptidase_M50; pfam02163 316058007293 active site 316058007294 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 316058007295 putative substrate binding region [chemical binding]; other site 316058007296 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 316058007297 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316058007298 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 316058007299 protein binding site [polypeptide binding]; other site 316058007300 HAMP domain; Region: HAMP; pfam00672 316058007301 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316058007302 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058007303 dimer interface [polypeptide binding]; other site 316058007304 putative CheW interface [polypeptide binding]; other site 316058007305 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 316058007306 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316058007307 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316058007308 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 316058007309 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 316058007310 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 316058007311 active site 316058007312 catalytic site [active] 316058007313 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 316058007314 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 316058007315 dimerization interface [polypeptide binding]; other site 316058007316 metal binding site [ion binding]; metal-binding site 316058007317 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 316058007318 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 316058007319 putative ligand binding site [chemical binding]; other site 316058007320 putative NAD binding site [chemical binding]; other site 316058007321 catalytic site [active] 316058007322 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 316058007323 L-lactate permease; Region: Lactate_perm; cl00701 316058007324 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058007325 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058007326 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058007327 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058007328 active site 316058007329 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 316058007330 Phosphotransferase enzyme family; Region: APH; pfam01636 316058007331 putative active site [active] 316058007332 putative substrate binding site [chemical binding]; other site 316058007333 ATP binding site [chemical binding]; other site 316058007334 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316058007335 classical (c) SDRs; Region: SDR_c; cd05233 316058007336 NAD(P) binding site [chemical binding]; other site 316058007337 active site 316058007338 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 316058007339 catalytic core [active] 316058007340 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 316058007341 classical (c) SDRs; Region: SDR_c; cd05233 316058007342 NAD(P) binding site [chemical binding]; other site 316058007343 active site 316058007344 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316058007345 Beta-lactamase; Region: Beta-lactamase; pfam00144 316058007346 elongation factor Tu; Reviewed; Region: PRK00049 316058007347 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 316058007348 G1 box; other site 316058007349 GEF interaction site [polypeptide binding]; other site 316058007350 GTP/Mg2+ binding site [chemical binding]; other site 316058007351 Switch I region; other site 316058007352 G2 box; other site 316058007353 G3 box; other site 316058007354 Switch II region; other site 316058007355 G4 box; other site 316058007356 G5 box; other site 316058007357 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 316058007358 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 316058007359 Antibiotic Binding Site [chemical binding]; other site 316058007360 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 316058007361 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316058007362 Bacterial transcriptional regulator; Region: IclR; pfam01614 316058007363 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 316058007364 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 316058007365 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 316058007366 alpha subunit interface [polypeptide binding]; other site 316058007367 active site 316058007368 substrate binding site [chemical binding]; other site 316058007369 Fe binding site [ion binding]; other site 316058007370 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 316058007371 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 316058007372 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 316058007373 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058007374 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 316058007375 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058007376 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 316058007377 TM-ABC transporter signature motif; other site 316058007378 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058007379 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 316058007380 TM-ABC transporter signature motif; other site 316058007381 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058007382 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058007383 Walker A/P-loop; other site 316058007384 ATP binding site [chemical binding]; other site 316058007385 Q-loop/lid; other site 316058007386 ABC transporter signature motif; other site 316058007387 Walker B; other site 316058007388 D-loop; other site 316058007389 H-loop/switch region; other site 316058007390 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058007391 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058007392 Walker A/P-loop; other site 316058007393 ATP binding site [chemical binding]; other site 316058007394 Q-loop/lid; other site 316058007395 ABC transporter signature motif; other site 316058007396 Walker B; other site 316058007397 D-loop; other site 316058007398 H-loop/switch region; other site 316058007399 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 316058007400 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 316058007401 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 316058007402 putative homodimer interface [polypeptide binding]; other site 316058007403 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 316058007404 heterodimer interface [polypeptide binding]; other site 316058007405 homodimer interface [polypeptide binding]; other site 316058007406 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 316058007407 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 316058007408 23S rRNA interface [nucleotide binding]; other site 316058007409 L7/L12 interface [polypeptide binding]; other site 316058007410 putative thiostrepton binding site; other site 316058007411 L25 interface [polypeptide binding]; other site 316058007412 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 316058007413 mRNA/rRNA interface [nucleotide binding]; other site 316058007414 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 316058007415 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 316058007416 putative ligand binding site [chemical binding]; other site 316058007417 NAD binding site [chemical binding]; other site 316058007418 catalytic site [active] 316058007419 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 316058007420 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 316058007421 catalytic loop [active] 316058007422 iron binding site [ion binding]; other site 316058007423 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316058007424 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316058007425 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058007426 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316058007427 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058007428 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058007429 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 316058007430 23S rRNA interface [nucleotide binding]; other site 316058007431 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 316058007432 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 316058007433 L11 interface [polypeptide binding]; other site 316058007434 putative EF-Tu interaction site [polypeptide binding]; other site 316058007435 putative EF-G interaction site [polypeptide binding]; other site 316058007436 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 316058007437 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 316058007438 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 316058007439 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 316058007440 RPB11 interaction site [polypeptide binding]; other site 316058007441 RPB12 interaction site [polypeptide binding]; other site 316058007442 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 316058007443 RPB3 interaction site [polypeptide binding]; other site 316058007444 RPB1 interaction site [polypeptide binding]; other site 316058007445 RPB11 interaction site [polypeptide binding]; other site 316058007446 RPB10 interaction site [polypeptide binding]; other site 316058007447 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 316058007448 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 316058007449 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 316058007450 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 316058007451 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 316058007452 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 316058007453 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 316058007454 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 316058007455 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 316058007456 DNA binding site [nucleotide binding] 316058007457 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 316058007458 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316058007459 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 316058007460 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 316058007461 S-adenosylmethionine binding site [chemical binding]; other site 316058007462 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 316058007463 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316058007464 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058007465 Walker A/P-loop; other site 316058007466 ATP binding site [chemical binding]; other site 316058007467 Q-loop/lid; other site 316058007468 ABC transporter signature motif; other site 316058007469 Walker B; other site 316058007470 D-loop; other site 316058007471 H-loop/switch region; other site 316058007472 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 316058007473 S17 interaction site [polypeptide binding]; other site 316058007474 S8 interaction site; other site 316058007475 16S rRNA interaction site [nucleotide binding]; other site 316058007476 streptomycin interaction site [chemical binding]; other site 316058007477 23S rRNA interaction site [nucleotide binding]; other site 316058007478 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 316058007479 30S ribosomal protein S7; Validated; Region: PRK05302 316058007480 elongation factor G; Reviewed; Region: PRK00007 316058007481 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 316058007482 G1 box; other site 316058007483 putative GEF interaction site [polypeptide binding]; other site 316058007484 GTP/Mg2+ binding site [chemical binding]; other site 316058007485 Switch I region; other site 316058007486 G2 box; other site 316058007487 G3 box; other site 316058007488 Switch II region; other site 316058007489 G4 box; other site 316058007490 G5 box; other site 316058007491 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 316058007492 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 316058007493 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 316058007494 elongation factor Tu; Reviewed; Region: PRK00049 316058007495 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 316058007496 G1 box; other site 316058007497 GEF interaction site [polypeptide binding]; other site 316058007498 GTP/Mg2+ binding site [chemical binding]; other site 316058007499 Switch I region; other site 316058007500 G2 box; other site 316058007501 G3 box; other site 316058007502 Switch II region; other site 316058007503 G4 box; other site 316058007504 G5 box; other site 316058007505 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 316058007506 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 316058007507 Antibiotic Binding Site [chemical binding]; other site 316058007508 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 316058007509 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 316058007510 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 316058007511 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 316058007512 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 316058007513 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 316058007514 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 316058007515 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 316058007516 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 316058007517 putative translocon binding site; other site 316058007518 protein-rRNA interface [nucleotide binding]; other site 316058007519 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 316058007520 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 316058007521 G-X-X-G motif; other site 316058007522 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 316058007523 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 316058007524 23S rRNA interface [nucleotide binding]; other site 316058007525 5S rRNA interface [nucleotide binding]; other site 316058007526 putative antibiotic binding site [chemical binding]; other site 316058007527 L25 interface [polypeptide binding]; other site 316058007528 L27 interface [polypeptide binding]; other site 316058007529 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 316058007530 putative translocon interaction site; other site 316058007531 23S rRNA interface [nucleotide binding]; other site 316058007532 signal recognition particle (SRP54) interaction site; other site 316058007533 L23 interface [polypeptide binding]; other site 316058007534 trigger factor interaction site; other site 316058007535 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 316058007536 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 316058007537 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 316058007538 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 316058007539 RNA binding site [nucleotide binding]; other site 316058007540 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 316058007541 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 316058007542 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 316058007543 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 316058007544 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 316058007545 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 316058007546 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 316058007547 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 316058007548 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 316058007549 5S rRNA interface [nucleotide binding]; other site 316058007550 23S rRNA interface [nucleotide binding]; other site 316058007551 L5 interface [polypeptide binding]; other site 316058007552 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 316058007553 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 316058007554 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 316058007555 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 316058007556 23S rRNA binding site [nucleotide binding]; other site 316058007557 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 316058007558 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 316058007559 SecY translocase; Region: SecY; pfam00344 316058007560 adenylate kinase; Reviewed; Region: adk; PRK00279 316058007561 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 316058007562 AMP-binding site [chemical binding]; other site 316058007563 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 316058007564 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 316058007565 30S ribosomal protein S13; Region: bact_S13; TIGR03631 316058007566 30S ribosomal protein S11; Validated; Region: PRK05309 316058007567 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 316058007568 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 316058007569 alphaNTD - beta interaction site [polypeptide binding]; other site 316058007570 alphaNTD homodimer interface [polypeptide binding]; other site 316058007571 alphaNTD - beta' interaction site [polypeptide binding]; other site 316058007572 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 316058007573 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 316058007574 short chain dehydrogenase; Provisional; Region: PRK06523 316058007575 classical (c) SDRs; Region: SDR_c; cd05233 316058007576 NAD(P) binding site [chemical binding]; other site 316058007577 active site 316058007578 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 316058007579 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 316058007580 putative NAD(P) binding site [chemical binding]; other site 316058007581 dimer interface [polypeptide binding]; other site 316058007582 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 316058007583 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316058007584 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 316058007585 protein binding site [polypeptide binding]; other site 316058007586 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 316058007587 protein binding site [polypeptide binding]; other site 316058007588 recombination factor protein RarA; Reviewed; Region: PRK13342 316058007589 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 316058007590 Walker A motif; other site 316058007591 ATP binding site [chemical binding]; other site 316058007592 Walker B motif; other site 316058007593 arginine finger; other site 316058007594 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 316058007595 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 316058007596 putative FMN binding site [chemical binding]; other site 316058007597 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 316058007598 TPR motif; other site 316058007599 binding surface 316058007600 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 316058007601 Uncharacterized conserved protein [Function unknown]; Region: COG0432 316058007602 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316058007603 Zn2+ binding site [ion binding]; other site 316058007604 Mg2+ binding site [ion binding]; other site 316058007605 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 316058007606 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 316058007607 oligomeric interface; other site 316058007608 putative active site [active] 316058007609 homodimer interface [polypeptide binding]; other site 316058007610 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 316058007611 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 316058007612 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 316058007613 RNA binding surface [nucleotide binding]; other site 316058007614 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316058007615 active site 316058007616 ATP12 chaperone protein; Region: ATP12; cl02228 316058007617 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 316058007618 RNA binding site [nucleotide binding]; other site 316058007619 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 316058007620 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 316058007621 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 316058007622 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 316058007623 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 316058007624 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 316058007625 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 316058007626 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 316058007627 Lipase (class 3). 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...; Region: Lipase_3; cd00519 316058007628 active site flap/lid [active] 316058007629 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 316058007630 nucleophilic elbow; other site 316058007631 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 316058007632 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 316058007633 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 316058007634 dimer interface [polypeptide binding]; other site 316058007635 PYR/PP interface [polypeptide binding]; other site 316058007636 TPP binding site [chemical binding]; other site 316058007637 substrate binding site [chemical binding]; other site 316058007638 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 316058007639 TPP-binding site [chemical binding]; other site 316058007640 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 316058007641 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 316058007642 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 316058007643 active site 316058007644 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 316058007645 DUF35 OB-fold domain; Region: DUF35; pfam01796 316058007646 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 316058007647 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 316058007648 dimer interaction site [polypeptide binding]; other site 316058007649 substrate-binding tunnel; other site 316058007650 active site 316058007651 catalytic site [active] 316058007652 substrate binding site [chemical binding]; other site 316058007653 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 316058007654 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 316058007655 inhibitor site; inhibition site 316058007656 active site 316058007657 dimer interface [polypeptide binding]; other site 316058007658 catalytic residue [active] 316058007659 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 316058007660 nudix motif; other site 316058007661 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 316058007662 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 316058007663 Trp docking motif [polypeptide binding]; other site 316058007664 cytochrome domain interface [polypeptide binding]; other site 316058007665 active site 316058007666 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 316058007667 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 316058007668 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 316058007669 putative active site [active] 316058007670 heme pocket [chemical binding]; other site 316058007671 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 316058007672 putative active site [active] 316058007673 heme pocket [chemical binding]; other site 316058007674 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058007675 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 316058007676 ATP binding site [chemical binding]; other site 316058007677 Mg2+ binding site [ion binding]; other site 316058007678 G-X-G motif; other site 316058007679 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316058007680 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058007681 dimer interface [polypeptide binding]; other site 316058007682 putative CheW interface [polypeptide binding]; other site 316058007683 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 316058007684 catalytic triad [active] 316058007685 conserved cis-peptide bond; other site 316058007686 PAS domain; Region: PAS_9; pfam13426 316058007687 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 316058007688 G4 box; other site 316058007689 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058007690 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058007691 metal binding site [ion binding]; metal-binding site 316058007692 active site 316058007693 I-site; other site 316058007694 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316058007695 EamA-like transporter family; Region: EamA; pfam00892 316058007696 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 316058007697 DNA photolyase; Region: DNA_photolyase; pfam00875 316058007698 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 316058007699 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 316058007700 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316058007701 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 316058007702 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 316058007703 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 316058007704 carboxyltransferase (CT) interaction site; other site 316058007705 biotinylation site [posttranslational modification]; other site 316058007706 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 316058007707 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 316058007708 tetramer interface [polypeptide binding]; other site 316058007709 active site 316058007710 Mg2+/Mn2+ binding site [ion binding]; other site 316058007711 acylphosphatase; Provisional; Region: PRK14421 316058007712 hypothetical protein; Provisional; Region: PRK02237 316058007713 lipoate-protein ligase B; Provisional; Region: PRK14341 316058007714 hypothetical protein; Validated; Region: PRK06033 316058007715 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 316058007716 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 316058007717 dimer interface [polypeptide binding]; other site 316058007718 phosphorylation site [posttranslational modification] 316058007719 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 316058007720 ATP binding site [chemical binding]; other site 316058007721 Mg2+ binding site [ion binding]; other site 316058007722 G-X-G motif; other site 316058007723 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316058007724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058007725 active site 316058007726 phosphorylation site [posttranslational modification] 316058007727 intermolecular recognition site; other site 316058007728 dimerization interface [polypeptide binding]; other site 316058007729 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 316058007730 DNA binding site [nucleotide binding] 316058007731 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 316058007732 Ca2+ binding site [ion binding]; other site 316058007733 EF-hand domain pair; Region: EF_hand_5; pfam13499 316058007734 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 316058007735 Ca2+ binding site [ion binding]; other site 316058007736 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 316058007737 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 316058007738 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 316058007739 NodB motif; other site 316058007740 active site 316058007741 catalytic site [active] 316058007742 metal binding site [ion binding]; metal-binding site 316058007743 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 316058007744 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 316058007745 NodB motif; other site 316058007746 active site 316058007747 catalytic site [active] 316058007748 metal binding site [ion binding]; metal-binding site 316058007749 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 316058007750 MgtE intracellular N domain; Region: MgtE_N; pfam03448 316058007751 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 316058007752 Divalent cation transporter; Region: MgtE; cl00786 316058007753 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 316058007754 non-specific DNA binding site [nucleotide binding]; other site 316058007755 salt bridge; other site 316058007756 sequence-specific DNA binding site [nucleotide binding]; other site 316058007757 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 316058007758 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316058007759 active site 316058007760 catalytic tetrad [active] 316058007761 Uncharacterized conserved protein [Function unknown]; Region: COG1434 316058007762 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 316058007763 putative active site [active] 316058007764 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 316058007765 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 316058007766 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316058007767 putative C-terminal domain interface [polypeptide binding]; other site 316058007768 putative GSH binding site (G-site) [chemical binding]; other site 316058007769 putative dimer interface [polypeptide binding]; other site 316058007770 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 316058007771 putative substrate binding pocket (H-site) [chemical binding]; other site 316058007772 putative N-terminal domain interface [polypeptide binding]; other site 316058007773 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 316058007774 pantoate--beta-alanine ligase; Region: panC; TIGR00018 316058007775 Pantoate-beta-alanine ligase; Region: PanC; cd00560 316058007776 active site 316058007777 ATP-binding site [chemical binding]; other site 316058007778 pantoate-binding site; other site 316058007779 HXXH motif; other site 316058007780 ATPase MipZ; Region: MipZ; pfam09140 316058007781 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 316058007782 P-loop; other site 316058007783 Magnesium ion binding site [ion binding]; other site 316058007784 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 316058007785 Magnesium ion binding site [ion binding]; other site 316058007786 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 316058007787 von Willebrand factor type A domain; Region: VWA_2; pfam13519 316058007788 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 316058007789 HSP70 interaction site [polypeptide binding]; other site 316058007790 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 316058007791 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 316058007792 Sporulation related domain; Region: SPOR; pfam05036 316058007793 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 316058007794 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 316058007795 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 316058007796 von Willebrand factor type A domain; Region: VWA_2; pfam13519 316058007797 Uncharacterized conserved protein [Function unknown]; Region: COG2127 316058007798 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 316058007799 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 316058007800 Walker A motif; other site 316058007801 ATP binding site [chemical binding]; other site 316058007802 Walker B motif; other site 316058007803 arginine finger; other site 316058007804 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 316058007805 Walker A motif; other site 316058007806 ATP binding site [chemical binding]; other site 316058007807 Walker B motif; other site 316058007808 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 316058007809 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 316058007810 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 316058007811 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316058007812 catalytic residue [active] 316058007813 Sporulation related domain; Region: SPOR; pfam05036 316058007814 PilZ domain; Region: PilZ; pfam07238 316058007815 AzlC protein; Region: AzlC; pfam03591 316058007816 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 316058007817 homodimer interaction site [polypeptide binding]; other site 316058007818 cofactor binding site; other site 316058007819 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 316058007820 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 316058007821 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 316058007822 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 316058007823 HIT family signature motif; other site 316058007824 catalytic residue [active] 316058007825 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 316058007826 Protein of unknown function, DUF482; Region: DUF482; pfam04339 316058007827 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 316058007828 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 316058007829 active site 316058007830 catalytic site [active] 316058007831 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 316058007832 homotrimer interaction site [polypeptide binding]; other site 316058007833 putative active site [active] 316058007834 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 316058007835 DNA polymerase IV; Provisional; Region: PRK02794 316058007836 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 316058007837 active site 316058007838 DNA binding site [nucleotide binding] 316058007839 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 316058007840 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058007841 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058007842 active site 316058007843 phosphorylation site [posttranslational modification] 316058007844 intermolecular recognition site; other site 316058007845 dimerization interface [polypeptide binding]; other site 316058007846 response regulator PleD; Reviewed; Region: pleD; PRK09581 316058007847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058007848 active site 316058007849 phosphorylation site [posttranslational modification] 316058007850 intermolecular recognition site; other site 316058007851 dimerization interface [polypeptide binding]; other site 316058007852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058007853 active site 316058007854 phosphorylation site [posttranslational modification] 316058007855 intermolecular recognition site; other site 316058007856 dimerization interface [polypeptide binding]; other site 316058007857 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058007858 metal binding site [ion binding]; metal-binding site 316058007859 active site 316058007860 I-site; other site 316058007861 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 316058007862 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 316058007863 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 316058007864 putative substrate translocation pore; other site 316058007865 hypothetical protein; Provisional; Region: PRK05978 316058007866 ribonuclease R; Region: RNase_R; TIGR02063 316058007867 RNB domain; Region: RNB; pfam00773 316058007868 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 316058007869 RNA binding site [nucleotide binding]; other site 316058007870 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 316058007871 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 316058007872 active site 316058007873 interdomain interaction site; other site 316058007874 putative metal-binding site [ion binding]; other site 316058007875 nucleotide binding site [chemical binding]; other site 316058007876 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 316058007877 domain I; other site 316058007878 DNA binding groove [nucleotide binding] 316058007879 phosphate binding site [ion binding]; other site 316058007880 domain II; other site 316058007881 domain III; other site 316058007882 nucleotide binding site [chemical binding]; other site 316058007883 catalytic site [active] 316058007884 domain IV; other site 316058007885 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 316058007886 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 316058007887 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 316058007888 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 316058007889 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 316058007890 DNA protecting protein DprA; Region: dprA; TIGR00732 316058007891 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 316058007892 dihydroorotase; Validated; Region: PRK09059 316058007893 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 316058007894 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 316058007895 active site 316058007896 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 316058007897 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 316058007898 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 316058007899 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 316058007900 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 316058007901 dimer interface [polypeptide binding]; other site 316058007902 PYR/PP interface [polypeptide binding]; other site 316058007903 TPP binding site [chemical binding]; other site 316058007904 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316058007905 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 316058007906 TPP-binding site [chemical binding]; other site 316058007907 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 316058007908 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058007909 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058007910 active site 316058007911 SEC-C motif; Region: SEC-C; pfam02810 316058007912 hypothetical protein; Provisional; Region: PRK04233 316058007913 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 316058007914 myosin-cross-reactive antigen; Provisional; Region: PRK13977 316058007915 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058007916 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058007917 Putative cyclase; Region: Cyclase; pfam04199 316058007918 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 316058007919 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 316058007920 FMN binding site [chemical binding]; other site 316058007921 substrate binding site [chemical binding]; other site 316058007922 putative catalytic residue [active] 316058007923 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 316058007924 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 316058007925 Protein of unknown function (DUF497); Region: DUF497; pfam04365 316058007926 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 316058007927 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 316058007928 PAS domain S-box; Region: sensory_box; TIGR00229 316058007929 PAS domain; Region: PAS_8; pfam13188 316058007930 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 316058007931 putative active site [active] 316058007932 heme pocket [chemical binding]; other site 316058007933 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 316058007934 Histidine kinase; Region: HisKA_2; pfam07568 316058007935 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 316058007936 ATP binding site [chemical binding]; other site 316058007937 Mg2+ binding site [ion binding]; other site 316058007938 G-X-G motif; other site 316058007939 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 316058007940 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 316058007941 GatB domain; Region: GatB_Yqey; smart00845 316058007942 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316058007943 Sel1 repeat; Region: Sel1; cl02723 316058007944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 316058007945 NnrU protein; Region: NnrU; pfam07298 316058007946 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 316058007947 oligomerization interface [polypeptide binding]; other site 316058007948 active site 316058007949 metal binding site [ion binding]; metal-binding site 316058007950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 316058007951 GTP-binding protein Der; Reviewed; Region: PRK00093 316058007952 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 316058007953 G1 box; other site 316058007954 GTP/Mg2+ binding site [chemical binding]; other site 316058007955 Switch I region; other site 316058007956 G2 box; other site 316058007957 Switch II region; other site 316058007958 G3 box; other site 316058007959 G4 box; other site 316058007960 G5 box; other site 316058007961 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 316058007962 G1 box; other site 316058007963 GTP/Mg2+ binding site [chemical binding]; other site 316058007964 Switch I region; other site 316058007965 G2 box; other site 316058007966 G3 box; other site 316058007967 Switch II region; other site 316058007968 G4 box; other site 316058007969 G5 box; other site 316058007970 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 316058007971 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316058007972 putative substrate translocation pore; other site 316058007973 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058007974 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 316058007975 putative ligand binding site [chemical binding]; other site 316058007976 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 316058007977 classical (c) SDRs; Region: SDR_c; cd05233 316058007978 NAD(P) binding site [chemical binding]; other site 316058007979 active site 316058007980 amidophosphoribosyltransferase; Provisional; Region: PRK09123 316058007981 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 316058007982 active site 316058007983 tetramer interface [polypeptide binding]; other site 316058007984 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316058007985 active site 316058007986 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 316058007987 Colicin V production protein; Region: Colicin_V; pfam02674 316058007988 DNA repair protein RadA; Provisional; Region: PRK11823 316058007989 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 316058007990 Walker A motif; other site 316058007991 ATP binding site [chemical binding]; other site 316058007992 Walker B motif; other site 316058007993 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 316058007994 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 316058007995 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 316058007996 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 316058007997 active site 316058007998 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316058007999 dimer interface [polypeptide binding]; other site 316058008000 substrate binding site [chemical binding]; other site 316058008001 catalytic residues [active] 316058008002 replicative DNA helicase; Provisional; Region: PRK09165 316058008003 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 316058008004 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 316058008005 Walker A motif; other site 316058008006 ATP binding site [chemical binding]; other site 316058008007 Walker B motif; other site 316058008008 DNA binding loops [nucleotide binding] 316058008009 Cytochrome c; Region: Cytochrom_C; cl11414 316058008010 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 316058008011 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 316058008012 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 316058008013 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 316058008014 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 316058008015 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058008016 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058008017 metal binding site [ion binding]; metal-binding site 316058008018 active site 316058008019 I-site; other site 316058008020 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 316058008021 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 316058008022 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 316058008023 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058008024 NAD(P) binding site [chemical binding]; other site 316058008025 active site 316058008026 acyl carrier protein; Provisional; Region: acpP; PRK00982 316058008027 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 316058008028 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 316058008029 dimer interface [polypeptide binding]; other site 316058008030 active site 316058008031 YceG-like family; Region: YceG; pfam02618 316058008032 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 316058008033 dimerization interface [polypeptide binding]; other site 316058008034 hypothetical protein; Provisional; Region: PRK11820 316058008035 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 316058008036 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 316058008037 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 316058008038 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 316058008039 catalytic site [active] 316058008040 G-X2-G-X-G-K; other site 316058008041 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 316058008042 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 316058008043 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 316058008044 putative NAD(P) binding site [chemical binding]; other site 316058008045 catalytic Zn binding site [ion binding]; other site 316058008046 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 316058008047 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 316058008048 S-adenosylmethionine binding site [chemical binding]; other site 316058008049 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 316058008050 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 316058008051 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 316058008052 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 316058008053 Organic solvent tolerance protein; Region: OstA_C; pfam04453 316058008054 Predicted permeases [General function prediction only]; Region: COG0795 316058008055 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 316058008056 Predicted permeases [General function prediction only]; Region: COG0795 316058008057 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 316058008058 multifunctional aminopeptidase A; Provisional; Region: PRK00913 316058008059 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 316058008060 interface (dimer of trimers) [polypeptide binding]; other site 316058008061 Substrate-binding/catalytic site; other site 316058008062 Zn-binding sites [ion binding]; other site 316058008063 DNA polymerase III subunit chi; Validated; Region: PRK05728 316058008064 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 316058008065 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316058008066 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316058008067 ABC transporter; Region: ABC_tran_2; pfam12848 316058008068 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316058008069 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 316058008070 active site 316058008071 multimer interface [polypeptide binding]; other site 316058008072 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058008073 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 316058008074 ligand binding site [chemical binding]; other site 316058008075 flexible hinge region; other site 316058008076 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316058008077 putative switch regulator; other site 316058008078 non-specific DNA interactions [nucleotide binding]; other site 316058008079 DNA binding site [nucleotide binding] 316058008080 sequence specific DNA binding site [nucleotide binding]; other site 316058008081 putative cAMP binding site [chemical binding]; other site 316058008082 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 316058008083 DNA-binding site [nucleotide binding]; DNA binding site 316058008084 RNA-binding motif; other site 316058008085 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 316058008086 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 316058008087 active site 316058008088 substrate binding site [chemical binding]; other site 316058008089 cosubstrate binding site; other site 316058008090 catalytic site [active] 316058008091 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 316058008092 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 316058008093 dimerization interface [polypeptide binding]; other site 316058008094 putative ATP binding site [chemical binding]; other site 316058008095 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 316058008096 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 316058008097 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 316058008098 polyphosphate kinase; Provisional; Region: PRK05443 316058008099 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 316058008100 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 316058008101 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 316058008102 putative domain interface [polypeptide binding]; other site 316058008103 putative active site [active] 316058008104 catalytic site [active] 316058008105 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 316058008106 putative domain interface [polypeptide binding]; other site 316058008107 putative active site [active] 316058008108 catalytic site [active] 316058008109 exopolyphosphatase; Region: exo_poly_only; TIGR03706 316058008110 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 316058008111 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 316058008112 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 316058008113 catalytic site [active] 316058008114 putative active site [active] 316058008115 putative substrate binding site [chemical binding]; other site 316058008116 HRDC domain; Region: HRDC; pfam00570 316058008117 hypothetical protein; Validated; Region: PRK00029 316058008118 Uncharacterized conserved protein [Function unknown]; Region: COG0397 316058008119 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 316058008120 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 316058008121 dimer interface [polypeptide binding]; other site 316058008122 anticodon binding site; other site 316058008123 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 316058008124 homodimer interface [polypeptide binding]; other site 316058008125 motif 1; other site 316058008126 active site 316058008127 motif 2; other site 316058008128 GAD domain; Region: GAD; pfam02938 316058008129 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 316058008130 active site 316058008131 motif 3; other site 316058008132 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 316058008133 Malic enzyme, N-terminal domain; Region: malic; pfam00390 316058008134 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 316058008135 putative NAD(P) binding site [chemical binding]; other site 316058008136 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 316058008137 Predicted membrane protein [Function unknown]; Region: COG2259 316058008138 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 316058008139 folate binding site [chemical binding]; other site 316058008140 NADP+ binding site [chemical binding]; other site 316058008141 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 316058008142 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 316058008143 NodB motif; other site 316058008144 active site 316058008145 catalytic site [active] 316058008146 metal binding site [ion binding]; metal-binding site 316058008147 hypothetical protein; Provisional; Region: PRK06132 316058008148 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058008149 CreA protein; Region: CreA; pfam05981 316058008150 acetylornithine deacetylase; Provisional; Region: PRK06837 316058008151 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 316058008152 metal binding site [ion binding]; metal-binding site 316058008153 dimer interface [polypeptide binding]; other site 316058008154 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 316058008155 CoenzymeA binding site [chemical binding]; other site 316058008156 subunit interaction site [polypeptide binding]; other site 316058008157 PHB binding site; other site 316058008158 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316058008159 Coenzyme A binding pocket [chemical binding]; other site 316058008160 Small integral membrane protein [Function unknown]; Region: COG5487; cl17674 316058008161 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316058008162 Sel1-like repeats; Region: SEL1; smart00671 316058008163 Sel1-like repeats; Region: SEL1; smart00671 316058008164 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 316058008165 potassium uptake protein; Region: kup; TIGR00794 316058008166 CAAX protease self-immunity; Region: Abi; pfam02517 316058008167 MOSC domain; Region: MOSC; pfam03473 316058008168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 316058008169 Predicted flavoprotein [General function prediction only]; Region: COG0431 316058008170 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 316058008171 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 316058008172 apolar tunnel; other site 316058008173 heme binding site [chemical binding]; other site 316058008174 dimerization interface [polypeptide binding]; other site 316058008175 putative S-transferase; Provisional; Region: PRK11752 316058008176 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 316058008177 C-terminal domain interface [polypeptide binding]; other site 316058008178 GSH binding site (G-site) [chemical binding]; other site 316058008179 dimer interface [polypeptide binding]; other site 316058008180 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 316058008181 dimer interface [polypeptide binding]; other site 316058008182 N-terminal domain interface [polypeptide binding]; other site 316058008183 active site 316058008184 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058008185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058008186 metal binding site [ion binding]; metal-binding site 316058008187 active site 316058008188 I-site; other site 316058008189 PAS fold; Region: PAS_7; pfam12860 316058008190 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058008191 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058008192 metal binding site [ion binding]; metal-binding site 316058008193 active site 316058008194 I-site; other site 316058008195 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 316058008196 putative substrate binding pocket [chemical binding]; other site 316058008197 trimer interface [polypeptide binding]; other site 316058008198 AIPR protein; Region: AIPR; pfam10592 316058008199 YcfA-like protein; Region: YcfA; pfam07927 316058008200 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 316058008201 Restriction endonuclease; Region: Mrr_cat; pfam04471 316058008202 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 316058008203 putative active site [active] 316058008204 catalytic site [active] 316058008205 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 316058008206 ATP-binding site [chemical binding]; other site 316058008207 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 316058008208 Methyltransferase domain; Region: Methyltransf_26; pfam13659 316058008209 TniQ; Region: TniQ; pfam06527 316058008210 Helix-turn-helix domain; Region: HTH_17; pfam12728 316058008211 AAA domain; Region: AAA_22; pfam13401 316058008212 AAA ATPase domain; Region: AAA_16; pfam13191 316058008213 Integrase core domain; Region: rve; pfam00665 316058008214 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 316058008215 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 316058008216 tellurite resistance protein terB; Region: terB; cd07176 316058008217 putative metal binding site [ion binding]; other site 316058008218 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 316058008219 AAA ATPase domain; Region: AAA_16; pfam13191 316058008220 DEAD-like helicases superfamily; Region: DEXDc; smart00487 316058008221 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 316058008222 ATP binding site [chemical binding]; other site 316058008223 putative Mg++ binding site [ion binding]; other site 316058008224 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 316058008225 nucleotide binding region [chemical binding]; other site 316058008226 ATP-binding site [chemical binding]; other site 316058008227 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 316058008228 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 316058008229 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 316058008230 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 316058008231 active site 316058008232 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 316058008233 TSCPD domain; Region: TSCPD; pfam12637 316058008234 EamA-like transporter family; Region: EamA; pfam00892 316058008235 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 316058008236 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 316058008237 dimer interface [polypeptide binding]; other site 316058008238 conserved gate region; other site 316058008239 putative PBP binding loops; other site 316058008240 ABC-ATPase subunit interface; other site 316058008241 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316058008242 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 316058008243 dimer interface [polypeptide binding]; other site 316058008244 conserved gate region; other site 316058008245 putative PBP binding loops; other site 316058008246 ABC-ATPase subunit interface; other site 316058008247 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 316058008248 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 316058008249 Walker A/P-loop; other site 316058008250 ATP binding site [chemical binding]; other site 316058008251 Q-loop/lid; other site 316058008252 ABC transporter signature motif; other site 316058008253 Walker B; other site 316058008254 D-loop; other site 316058008255 H-loop/switch region; other site 316058008256 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 316058008257 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 316058008258 ligand binding site [chemical binding]; other site 316058008259 NAD binding site [chemical binding]; other site 316058008260 dimerization interface [polypeptide binding]; other site 316058008261 catalytic site [active] 316058008262 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 316058008263 Amidase; Region: Amidase; pfam01425 316058008264 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 316058008265 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 316058008266 N-terminal plug; other site 316058008267 ligand-binding site [chemical binding]; other site 316058008268 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 316058008269 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 316058008270 conserved cys residue [active] 316058008271 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058008272 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 316058008273 glutamine synthetase; Provisional; Region: glnA; PRK09469 316058008274 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 316058008275 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 316058008276 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 316058008277 Nitrogen regulatory protein P-II; Region: P-II; smart00938 316058008278 Uncharacterized conserved protein [Function unknown]; Region: COG0062 316058008279 putative carbohydrate kinase; Provisional; Region: PRK10565 316058008280 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 316058008281 putative substrate binding site [chemical binding]; other site 316058008282 putative ATP binding site [chemical binding]; other site 316058008283 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 316058008284 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 316058008285 Multicopper oxidase; Region: Cu-oxidase; pfam00394 316058008286 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 316058008287 trigger factor; Provisional; Region: tig; PRK01490 316058008288 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 316058008289 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 316058008290 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 316058008291 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 316058008292 oligomer interface [polypeptide binding]; other site 316058008293 active site residues [active] 316058008294 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 316058008295 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 316058008296 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 316058008297 Walker A motif; other site 316058008298 ATP binding site [chemical binding]; other site 316058008299 Walker B motif; other site 316058008300 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 316058008301 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 316058008302 Found in ATP-dependent protease La (LON); Region: LON; smart00464 316058008303 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 316058008304 Walker A motif; other site 316058008305 ATP binding site [chemical binding]; other site 316058008306 Walker B motif; other site 316058008307 arginine finger; other site 316058008308 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 316058008309 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 316058008310 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316058008311 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058008312 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 316058008313 peptidase T; Region: peptidase-T; TIGR01882 316058008314 metal binding site [ion binding]; metal-binding site 316058008315 dimer interface [polypeptide binding]; other site 316058008316 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 316058008317 IHF - DNA interface [nucleotide binding]; other site 316058008318 IHF dimer interface [polypeptide binding]; other site 316058008319 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 316058008320 NADH dehydrogenase subunit B; Validated; Region: PRK06411 316058008321 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 316058008322 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 316058008323 NADH dehydrogenase subunit D; Validated; Region: PRK06075 316058008324 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 316058008325 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 316058008326 NADH dehydrogenase subunit E; Validated; Region: PRK07539 316058008327 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 316058008328 putative dimer interface [polypeptide binding]; other site 316058008329 [2Fe-2S] cluster binding site [ion binding]; other site 316058008330 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 316058008331 SLBB domain; Region: SLBB; pfam10531 316058008332 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 316058008333 NADH dehydrogenase subunit G; Validated; Region: PRK09130 316058008334 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 316058008335 catalytic loop [active] 316058008336 iron binding site [ion binding]; other site 316058008337 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 316058008338 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 316058008339 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 316058008340 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 316058008341 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 316058008342 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 316058008343 4Fe-4S binding domain; Region: Fer4; pfam00037 316058008344 4Fe-4S binding domain; Region: Fer4; pfam00037 316058008345 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 316058008346 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 316058008347 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 316058008348 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 316058008349 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 316058008350 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 316058008351 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316058008352 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 316058008353 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316058008354 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 316058008355 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316058008356 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 316058008357 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 316058008358 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 316058008359 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316058008360 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 316058008361 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316058008362 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 316058008363 dimer interface [polypeptide binding]; other site 316058008364 substrate binding site [chemical binding]; other site 316058008365 metal binding site [ion binding]; metal-binding site 316058008366 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 316058008367 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 316058008368 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 316058008369 active site 316058008370 Protein of unknown function (DUF461); Region: DUF461; pfam04314 316058008371 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 316058008372 CopC domain; Region: CopC; pfam04234 316058008373 Copper resistance protein D; Region: CopD; cl00563 316058008374 prolyl-tRNA synthetase; Provisional; Region: PRK12325 316058008375 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 316058008376 dimer interface [polypeptide binding]; other site 316058008377 motif 1; other site 316058008378 active site 316058008379 motif 2; other site 316058008380 motif 3; other site 316058008381 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 316058008382 anticodon binding site; other site 316058008383 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 316058008384 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 316058008385 FtsX-like permease family; Region: FtsX; pfam02687 316058008386 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 316058008387 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316058008388 Walker A/P-loop; other site 316058008389 ATP binding site [chemical binding]; other site 316058008390 Q-loop/lid; other site 316058008391 ABC transporter signature motif; other site 316058008392 Walker B; other site 316058008393 D-loop; other site 316058008394 H-loop/switch region; other site 316058008395 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 316058008396 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 316058008397 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 316058008398 putative active site [active] 316058008399 putative PHP Thumb interface [polypeptide binding]; other site 316058008400 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 316058008401 generic binding surface I; other site 316058008402 generic binding surface II; other site 316058008403 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 316058008404 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 316058008405 dimer interface [polypeptide binding]; other site 316058008406 active site 316058008407 catalytic residue [active] 316058008408 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 316058008409 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 316058008410 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 316058008411 SmpB-tmRNA interface; other site 316058008412 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 316058008413 Fe-S cluster binding site [ion binding]; other site 316058008414 DNA binding site [nucleotide binding] 316058008415 active site 316058008416 LabA_like proteins; Region: LabA; cd10911 316058008417 Uncharacterized conserved protein [Function unknown]; Region: COG1432 316058008418 putative metal binding site [ion binding]; other site 316058008419 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 316058008420 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 316058008421 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316058008422 Zn2+ binding site [ion binding]; other site 316058008423 Mg2+ binding site [ion binding]; other site 316058008424 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 316058008425 synthetase active site [active] 316058008426 NTP binding site [chemical binding]; other site 316058008427 metal binding site [ion binding]; metal-binding site 316058008428 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 316058008429 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 316058008430 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 316058008431 active site 316058008432 hydrophilic channel; other site 316058008433 dimerization interface [polypeptide binding]; other site 316058008434 catalytic residues [active] 316058008435 active site lid [active] 316058008436 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 316058008437 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 316058008438 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 316058008439 Catalytic site [active] 316058008440 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 316058008441 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 316058008442 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 316058008443 dimerization interface [polypeptide binding]; other site 316058008444 active site 316058008445 metal binding site [ion binding]; metal-binding site 316058008446 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 316058008447 dsRNA binding site [nucleotide binding]; other site 316058008448 GTPase Era; Reviewed; Region: era; PRK00089 316058008449 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 316058008450 G1 box; other site 316058008451 GTP/Mg2+ binding site [chemical binding]; other site 316058008452 Switch I region; other site 316058008453 G2 box; other site 316058008454 Switch II region; other site 316058008455 G3 box; other site 316058008456 G4 box; other site 316058008457 G5 box; other site 316058008458 KH domain; Region: KH_2; pfam07650 316058008459 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 316058008460 Recombination protein O N terminal; Region: RecO_N; pfam11967 316058008461 Recombination protein O C terminal; Region: RecO_C; pfam02565 316058008462 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058008463 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 316058008464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058008465 NAD(P) binding site [chemical binding]; other site 316058008466 active site 316058008467 Predicted transcriptional regulators [Transcription]; Region: COG1733 316058008468 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 316058008469 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 316058008470 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 316058008471 CAP-like domain; other site 316058008472 active site 316058008473 primary dimer interface [polypeptide binding]; other site 316058008474 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 316058008475 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 316058008476 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 316058008477 RDD family; Region: RDD; pfam06271 316058008478 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 316058008479 dimer interface [polypeptide binding]; other site 316058008480 allosteric magnesium binding site [ion binding]; other site 316058008481 active site 316058008482 aspartate-rich active site metal binding site; other site 316058008483 Schiff base residues; other site 316058008484 acyl-CoA synthetase; Validated; Region: PRK06188 316058008485 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058008486 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316058008487 acyl-activating enzyme (AAE) consensus motif; other site 316058008488 acyl-activating enzyme (AAE) consensus motif; other site 316058008489 putative AMP binding site [chemical binding]; other site 316058008490 putative active site [active] 316058008491 putative CoA binding site [chemical binding]; other site 316058008492 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316058008493 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316058008494 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 316058008495 putative C-terminal domain interface [polypeptide binding]; other site 316058008496 putative GSH binding site (G-site) [chemical binding]; other site 316058008497 putative dimer interface [polypeptide binding]; other site 316058008498 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 316058008499 putative N-terminal domain interface [polypeptide binding]; other site 316058008500 putative dimer interface [polypeptide binding]; other site 316058008501 putative substrate binding pocket (H-site) [chemical binding]; other site 316058008502 TIR domain; Region: TIR_2; pfam13676 316058008503 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 316058008504 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 316058008505 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 316058008506 dimer interface [polypeptide binding]; other site 316058008507 active site 316058008508 glycine-pyridoxal phosphate binding site [chemical binding]; other site 316058008509 folate binding site [chemical binding]; other site 316058008510 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 316058008511 ATP cone domain; Region: ATP-cone; pfam03477 316058008512 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 316058008513 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 316058008514 catalytic motif [active] 316058008515 Zn binding site [ion binding]; other site 316058008516 RibD C-terminal domain; Region: RibD_C; cl17279 316058008517 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 316058008518 Lumazine binding domain; Region: Lum_binding; pfam00677 316058008519 Lumazine binding domain; Region: Lum_binding; pfam00677 316058008520 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 316058008521 homopentamer interface [polypeptide binding]; other site 316058008522 active site 316058008523 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 316058008524 putative RNA binding site [nucleotide binding]; other site 316058008525 thiamine monophosphate kinase; Provisional; Region: PRK05731 316058008526 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 316058008527 ATP binding site [chemical binding]; other site 316058008528 dimerization interface [polypeptide binding]; other site 316058008529 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 316058008530 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 316058008531 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 316058008532 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 316058008533 motif II; other site 316058008534 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 316058008535 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; pfam09939 316058008536 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316058008537 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316058008538 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 316058008539 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 316058008540 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; pfam03981 316058008541 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 316058008542 putative phosphate acyltransferase; Provisional; Region: PRK05331 316058008543 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 316058008544 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 316058008545 dimer interface [polypeptide binding]; other site 316058008546 active site 316058008547 CoA binding pocket [chemical binding]; other site 316058008548 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 316058008549 IHF dimer interface [polypeptide binding]; other site 316058008550 IHF - DNA interface [nucleotide binding]; other site 316058008551 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 316058008552 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 316058008553 DNA binding residues [nucleotide binding] 316058008554 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 316058008555 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316058008556 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058008557 dimer interface [polypeptide binding]; other site 316058008558 putative CheW interface [polypeptide binding]; other site 316058008559 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 316058008560 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 316058008561 N-terminal plug; other site 316058008562 ligand-binding site [chemical binding]; other site 316058008563 short chain dehydrogenase; Provisional; Region: PRK07825 316058008564 classical (c) SDRs; Region: SDR_c; cd05233 316058008565 NAD(P) binding site [chemical binding]; other site 316058008566 active site 316058008567 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 316058008568 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 316058008569 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 316058008570 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316058008571 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 316058008572 Chain length determinant protein; Region: Wzz; pfam02706 316058008573 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 316058008574 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 316058008575 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 316058008576 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 316058008577 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 316058008578 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 316058008579 putative active site [active] 316058008580 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 316058008581 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 316058008582 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 316058008583 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 316058008584 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 316058008585 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 316058008586 homodimer interface [polypeptide binding]; other site 316058008587 substrate-cofactor binding pocket; other site 316058008588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058008589 catalytic residue [active] 316058008590 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 316058008591 enoyl-CoA hydratase; Validated; Region: PRK08139 316058008592 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 316058008593 substrate binding site [chemical binding]; other site 316058008594 oxyanion hole (OAH) forming residues; other site 316058008595 trimer interface [polypeptide binding]; other site 316058008596 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 316058008597 CoenzymeA binding site [chemical binding]; other site 316058008598 subunit interaction site [polypeptide binding]; other site 316058008599 PHB binding site; other site 316058008600 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 316058008601 23S rRNA interface [nucleotide binding]; other site 316058008602 L3 interface [polypeptide binding]; other site 316058008603 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 316058008604 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058008605 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058008606 metal binding site [ion binding]; metal-binding site 316058008607 active site 316058008608 I-site; other site 316058008609 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 316058008610 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 316058008611 Domain of unknown function DUF20; Region: UPF0118; pfam01594 316058008612 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 316058008613 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 316058008614 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316058008615 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316058008616 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 316058008617 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 316058008618 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 316058008619 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 316058008620 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 316058008621 TMP-binding site; other site 316058008622 ATP-binding site [chemical binding]; other site 316058008623 DNA polymerase III subunit delta'; Validated; Region: PRK07471 316058008624 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 316058008625 DNA polymerase III subunit delta'; Validated; Region: PRK08485 316058008626 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 316058008627 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 316058008628 active site 316058008629 HIGH motif; other site 316058008630 KMSKS motif; other site 316058008631 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 316058008632 tRNA binding surface [nucleotide binding]; other site 316058008633 anticodon binding site; other site 316058008634 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 316058008635 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 316058008636 active site 316058008637 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 316058008638 putative hydrolase; Provisional; Region: PRK02113 316058008639 acyl-CoA synthetase; Validated; Region: PRK08162 316058008640 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 316058008641 acyl-activating enzyme (AAE) consensus motif; other site 316058008642 putative active site [active] 316058008643 AMP binding site [chemical binding]; other site 316058008644 putative CoA binding site [chemical binding]; other site 316058008645 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 316058008646 DctM-like transporters; Region: DctM; pfam06808 316058008647 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 316058008648 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 316058008649 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 316058008650 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 316058008651 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 316058008652 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 316058008653 FeS/SAM binding site; other site 316058008654 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14839 316058008655 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 316058008656 catalytic residue [active] 316058008657 putative FPP diphosphate binding site; other site 316058008658 putative FPP binding hydrophobic cleft; other site 316058008659 dimer interface [polypeptide binding]; other site 316058008660 putative IPP diphosphate binding site; other site 316058008661 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 316058008662 putative DNA binding site [nucleotide binding]; other site 316058008663 dimerization interface [polypeptide binding]; other site 316058008664 putative Zn2+ binding site [ion binding]; other site 316058008665 metabolite-proton symporter; Region: 2A0106; TIGR00883 316058008666 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 316058008667 putative substrate translocation pore; other site 316058008668 Predicted transcriptional regulators [Transcription]; Region: COG1733 316058008669 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 316058008670 dimerization interface [polypeptide binding]; other site 316058008671 putative Zn2+ binding site [ion binding]; other site 316058008672 putative DNA binding site [nucleotide binding]; other site 316058008673 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316058008674 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058008675 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 316058008676 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 316058008677 N-terminal plug; other site 316058008678 ligand-binding site [chemical binding]; other site 316058008679 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 316058008680 Periplasmic binding protein TroA_f. 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_f; cd01139 316058008681 putative ligand binding residues [chemical binding]; other site 316058008682 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 316058008683 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 316058008684 ABC-ATPase subunit interface; other site 316058008685 dimer interface [polypeptide binding]; other site 316058008686 putative PBP binding regions; other site 316058008687 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 316058008688 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316058008689 Walker A/P-loop; other site 316058008690 ATP binding site [chemical binding]; other site 316058008691 Q-loop/lid; other site 316058008692 ABC transporter signature motif; other site 316058008693 Walker B; other site 316058008694 D-loop; other site 316058008695 H-loop/switch region; other site 316058008696 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 316058008697 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 316058008698 FAD binding pocket [chemical binding]; other site 316058008699 FAD binding motif [chemical binding]; other site 316058008700 phosphate binding motif [ion binding]; other site 316058008701 NAD binding pocket [chemical binding]; other site 316058008702 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 316058008703 Part of AAA domain; Region: AAA_19; pfam13245 316058008704 Family description; Region: UvrD_C_2; pfam13538 316058008705 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 316058008706 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 316058008707 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 316058008708 substrate binding site [chemical binding]; other site 316058008709 oxyanion hole (OAH) forming residues; other site 316058008710 trimer interface [polypeptide binding]; other site 316058008711 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 316058008712 putative TOMM peptide; Region: TOMM_nitrile_2; TIGR04351 316058008713 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 316058008714 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 316058008715 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 316058008716 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 316058008717 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 316058008718 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 316058008719 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316058008720 Beta-lactamase; Region: Beta-lactamase; pfam00144 316058008721 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 316058008722 Ligand Binding Site [chemical binding]; other site 316058008723 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 316058008724 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 316058008725 homodimer interface [polypeptide binding]; other site 316058008726 metal binding site [ion binding]; metal-binding site 316058008727 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 316058008728 homodimer interface [polypeptide binding]; other site 316058008729 active site 316058008730 putative chemical substrate binding site [chemical binding]; other site 316058008731 metal binding site [ion binding]; metal-binding site 316058008732 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 316058008733 Domain of unknown function DUF21; Region: DUF21; pfam01595 316058008734 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 316058008735 Transporter associated domain; Region: CorC_HlyC; smart01091 316058008736 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 316058008737 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 316058008738 dimer interface [polypeptide binding]; other site 316058008739 ssDNA binding site [nucleotide binding]; other site 316058008740 tetramer (dimer of dimers) interface [polypeptide binding]; other site 316058008741 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316058008742 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 316058008743 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 316058008744 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 316058008745 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 316058008746 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 316058008747 Protein of unknown function (DUF433); Region: DUF433; pfam04255 316058008748 Ion transport protein; Region: Ion_trans; pfam00520 316058008749 Ion channel; Region: Ion_trans_2; pfam07885 316058008750 Prokaryotic RING finger family 1; Region: Prok-RING_1; pfam14446 316058008751 TPR repeat; Region: TPR_11; pfam13414 316058008752 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 316058008753 binding surface 316058008754 TPR motif; other site 316058008755 TPR repeat; Region: TPR_11; pfam13414 316058008756 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 316058008757 binding surface 316058008758 TPR motif; other site 316058008759 TPR repeat; Region: TPR_11; pfam13414 316058008760 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 316058008761 binding surface 316058008762 TPR motif; other site 316058008763 Predicted acetyltransferase [General function prediction only]; Region: COG2388 316058008764 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 316058008765 Predicted integral membrane protein [Function unknown]; Region: COG5473 316058008766 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 316058008767 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 316058008768 Glucose inhibited division protein A; Region: GIDA; pfam01134 316058008769 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 316058008770 substrate binding pocket [chemical binding]; other site 316058008771 substrate-Mg2+ binding site; other site 316058008772 aspartate-rich region 1; other site 316058008773 aspartate-rich region 2; other site 316058008774 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 316058008775 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 316058008776 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 316058008777 Protein export membrane protein; Region: SecD_SecF; pfam02355 316058008778 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 316058008779 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 316058008780 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 316058008781 Preprotein translocase subunit; Region: YajC; pfam02699 316058008782 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 316058008783 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 316058008784 Walker A motif; other site 316058008785 ATP binding site [chemical binding]; other site 316058008786 Walker B motif; other site 316058008787 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 316058008788 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316058008789 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 316058008790 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316058008791 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 316058008792 Peptidase family M23; Region: Peptidase_M23; pfam01551 316058008793 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 316058008794 Methyltransferase domain; Region: Methyltransf_18; pfam12847 316058008795 S-adenosylmethionine binding site [chemical binding]; other site 316058008796 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058008797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058008798 active site 316058008799 phosphorylation site [posttranslational modification] 316058008800 intermolecular recognition site; other site 316058008801 dimerization interface [polypeptide binding]; other site 316058008802 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 316058008803 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 316058008804 seryl-tRNA synthetase; Provisional; Region: PRK05431 316058008805 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 316058008806 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 316058008807 dimer interface [polypeptide binding]; other site 316058008808 active site 316058008809 motif 1; other site 316058008810 motif 2; other site 316058008811 motif 3; other site 316058008812 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 316058008813 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 316058008814 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 316058008815 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 316058008816 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 316058008817 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 316058008818 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 316058008819 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 316058008820 Sporulation related domain; Region: SPOR; pfam05036 316058008821 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 316058008822 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 316058008823 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 316058008824 active site 316058008825 HIGH motif; other site 316058008826 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316058008827 KMSK motif region; other site 316058008828 tRNA binding surface [nucleotide binding]; other site 316058008829 DALR anticodon binding domain; Region: DALR_1; smart00836 316058008830 anticodon binding site; other site 316058008831 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 316058008832 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316058008833 Zn2+ binding site [ion binding]; other site 316058008834 Mg2+ binding site [ion binding]; other site 316058008835 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 316058008836 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 316058008837 Neurotransmitter-gated ion-channel ligand binding domain; Region: Neur_chan_LBD; pfam02931 316058008838 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 316058008839 active site 316058008840 Amidohydrolase; Region: Amidohydro_2; pfam04909 316058008841 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 316058008842 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316058008843 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058008844 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058008845 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 316058008846 putative catalytic site [active] 316058008847 putative phosphate binding site [ion binding]; other site 316058008848 active site 316058008849 metal binding site A [ion binding]; metal-binding site 316058008850 DNA binding site [nucleotide binding] 316058008851 putative AP binding site [nucleotide binding]; other site 316058008852 putative metal binding site B [ion binding]; other site 316058008853 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058008854 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 316058008855 putative ligand binding site [chemical binding]; other site 316058008856 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 316058008857 TM-ABC transporter signature motif; other site 316058008858 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058008859 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 316058008860 TM-ABC transporter signature motif; other site 316058008861 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058008862 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058008863 Walker A/P-loop; other site 316058008864 ATP binding site [chemical binding]; other site 316058008865 Q-loop/lid; other site 316058008866 ABC transporter signature motif; other site 316058008867 Walker B; other site 316058008868 D-loop; other site 316058008869 H-loop/switch region; other site 316058008870 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058008871 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058008872 Walker A/P-loop; other site 316058008873 ATP binding site [chemical binding]; other site 316058008874 Q-loop/lid; other site 316058008875 ABC transporter signature motif; other site 316058008876 Walker B; other site 316058008877 D-loop; other site 316058008878 H-loop/switch region; other site 316058008879 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316058008880 Sel1-like repeats; Region: SEL1; smart00671 316058008881 Sel1-like repeats; Region: SEL1; smart00671 316058008882 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 316058008883 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 316058008884 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316058008885 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 316058008886 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 316058008887 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 316058008888 active site 1 [active] 316058008889 dimer interface [polypeptide binding]; other site 316058008890 hexamer interface [polypeptide binding]; other site 316058008891 active site 2 [active] 316058008892 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 316058008893 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 316058008894 E3 interaction surface; other site 316058008895 lipoyl attachment site [posttranslational modification]; other site 316058008896 e3 binding domain; Region: E3_binding; pfam02817 316058008897 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 316058008898 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 316058008899 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 316058008900 E3 interaction surface; other site 316058008901 lipoyl attachment site [posttranslational modification]; other site 316058008902 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 316058008903 alpha subunit interface [polypeptide binding]; other site 316058008904 TPP binding site [chemical binding]; other site 316058008905 heterodimer interface [polypeptide binding]; other site 316058008906 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316058008907 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 316058008908 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 316058008909 tetramer interface [polypeptide binding]; other site 316058008910 TPP-binding site [chemical binding]; other site 316058008911 heterodimer interface [polypeptide binding]; other site 316058008912 phosphorylation loop region [posttranslational modification] 316058008913 Septum formation initiator; Region: DivIC; pfam04977 316058008914 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 316058008915 Predicted flavoprotein [General function prediction only]; Region: COG0431 316058008916 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316058008917 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316058008918 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 316058008919 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 316058008920 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 316058008921 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 316058008922 NADP binding site [chemical binding]; other site 316058008923 dimer interface [polypeptide binding]; other site 316058008924 enolase; Provisional; Region: eno; PRK00077 316058008925 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 316058008926 dimer interface [polypeptide binding]; other site 316058008927 metal binding site [ion binding]; metal-binding site 316058008928 substrate binding pocket [chemical binding]; other site 316058008929 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 316058008930 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 316058008931 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 316058008932 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 316058008933 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 316058008934 Ligand binding site; other site 316058008935 DXD motif; other site 316058008936 hypothetical protein; Provisional; Region: PRK12472 316058008937 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058008938 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 316058008939 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 316058008940 putative substrate translocation pore; other site 316058008941 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 316058008942 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 316058008943 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 316058008944 NIPSNAP; Region: NIPSNAP; pfam07978 316058008945 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 316058008946 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316058008947 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 316058008948 S-adenosylmethionine binding site [chemical binding]; other site 316058008949 PAAR motif; Region: PAAR_motif; pfam05488 316058008950 CTP synthetase; Validated; Region: pyrG; PRK05380 316058008951 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 316058008952 Catalytic site [active] 316058008953 active site 316058008954 UTP binding site [chemical binding]; other site 316058008955 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 316058008956 active site 316058008957 putative oxyanion hole; other site 316058008958 catalytic triad [active] 316058008959 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 316058008960 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 316058008961 trimer interface [polypeptide binding]; other site 316058008962 Haemagglutinin; Region: HIM; pfam05662 316058008963 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316058008964 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 316058008965 DNA binding residues [nucleotide binding] 316058008966 dimerization interface [polypeptide binding]; other site 316058008967 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 316058008968 triosephosphate isomerase; Provisional; Region: PRK14565 316058008969 substrate binding site [chemical binding]; other site 316058008970 dimer interface [polypeptide binding]; other site 316058008971 catalytic triad [active] 316058008972 periplasmic folding chaperone; Provisional; Region: PRK10788 316058008973 SurA N-terminal domain; Region: SurA_N_3; cl07813 316058008974 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 316058008975 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 316058008976 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 316058008977 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 316058008978 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 316058008979 active site 316058008980 ribulose/triose binding site [chemical binding]; other site 316058008981 phosphate binding site [ion binding]; other site 316058008982 substrate (anthranilate) binding pocket [chemical binding]; other site 316058008983 product (indole) binding pocket [chemical binding]; other site 316058008984 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 316058008985 trimer interface [polypeptide binding]; other site 316058008986 dimer interface [polypeptide binding]; other site 316058008987 putative active site [active] 316058008988 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 316058008989 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316058008990 Soluble P-type ATPase [General function prediction only]; Region: COG4087 316058008991 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 316058008992 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 316058008993 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 316058008994 putative dimer interface [polypeptide binding]; other site 316058008995 PilZ domain; Region: PilZ; pfam07238 316058008996 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 316058008997 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 316058008998 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316058008999 ligand binding site [chemical binding]; other site 316058009000 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 316058009001 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 316058009002 motif II; other site 316058009003 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 316058009004 active site 316058009005 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 316058009006 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 316058009007 dimer interface [polypeptide binding]; other site 316058009008 putative functional site; other site 316058009009 putative MPT binding site; other site 316058009010 LexA repressor; Validated; Region: PRK00215 316058009011 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 316058009012 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 316058009013 Catalytic site [active] 316058009014 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 316058009015 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 316058009016 Competence protein; Region: Competence; pfam03772 316058009017 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 316058009018 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316058009019 active site 316058009020 HIGH motif; other site 316058009021 nucleotide binding site [chemical binding]; other site 316058009022 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 316058009023 KMSKS motif; other site 316058009024 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 316058009025 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 316058009026 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 316058009027 HIGH motif; other site 316058009028 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 316058009029 active site 316058009030 KMSKS motif; other site 316058009031 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 316058009032 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 316058009033 dimer interface [polypeptide binding]; other site 316058009034 active site 316058009035 citrylCoA binding site [chemical binding]; other site 316058009036 NADH binding [chemical binding]; other site 316058009037 cationic pore residues; other site 316058009038 oxalacetate/citrate binding site [chemical binding]; other site 316058009039 coenzyme A binding site [chemical binding]; other site 316058009040 catalytic triad [active] 316058009041 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 316058009042 nucleoside/Zn binding site; other site 316058009043 dimer interface [polypeptide binding]; other site 316058009044 catalytic motif [active] 316058009045 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 316058009046 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 316058009047 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 316058009048 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 316058009049 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 316058009050 active site 316058009051 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 316058009052 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 316058009053 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 316058009054 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 316058009055 trimer interface [polypeptide binding]; other site 316058009056 active site 316058009057 UDP-GlcNAc binding site [chemical binding]; other site 316058009058 lipid binding site [chemical binding]; lipid-binding site 316058009059 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 316058009060 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316058009061 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316058009062 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316058009063 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316058009064 Surface antigen; Region: Bac_surface_Ag; pfam01103 316058009065 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 316058009066 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 316058009067 active site 316058009068 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 316058009069 protein binding site [polypeptide binding]; other site 316058009070 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 316058009071 putative substrate binding region [chemical binding]; other site 316058009072 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 316058009073 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 316058009074 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 316058009075 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 316058009076 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 316058009077 Cytidylyltransferase family; Region: CTP_transf_1; cl17467 316058009078 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 316058009079 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 316058009080 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 316058009081 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 316058009082 catalytic residue [active] 316058009083 putative FPP diphosphate binding site; other site 316058009084 putative FPP binding hydrophobic cleft; other site 316058009085 dimer interface [polypeptide binding]; other site 316058009086 putative IPP diphosphate binding site; other site 316058009087 ribosome recycling factor; Reviewed; Region: frr; PRK00083 316058009088 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 316058009089 hinge region; other site 316058009090 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 316058009091 putative nucleotide binding site [chemical binding]; other site 316058009092 uridine monophosphate binding site [chemical binding]; other site 316058009093 homohexameric interface [polypeptide binding]; other site 316058009094 elongation factor Ts; Provisional; Region: tsf; PRK09377 316058009095 UBA/TS-N domain; Region: UBA; pfam00627 316058009096 Elongation factor TS; Region: EF_TS; pfam00889 316058009097 Elongation factor TS; Region: EF_TS; pfam00889 316058009098 30S ribosomal protein S2/unknown domain fusion protein; Provisional; Region: rpsB; PRK12311 316058009099 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 316058009100 rRNA interaction site [nucleotide binding]; other site 316058009101 S8 interaction site; other site 316058009102 putative laminin-1 binding site; other site 316058009103 Uncharacterized conserved protein [Function unknown]; Region: COG3743 316058009104 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 316058009105 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 316058009106 hypothetical protein; Validated; Region: PRK08245 316058009107 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 316058009108 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 316058009109 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 316058009110 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 316058009111 putative active site [active] 316058009112 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 316058009113 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316058009114 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316058009115 Walker A/P-loop; other site 316058009116 ATP binding site [chemical binding]; other site 316058009117 Q-loop/lid; other site 316058009118 ABC transporter signature motif; other site 316058009119 Walker B; other site 316058009120 D-loop; other site 316058009121 H-loop/switch region; other site 316058009122 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058009123 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 316058009124 dimer interface [polypeptide binding]; other site 316058009125 conserved gate region; other site 316058009126 putative PBP binding loops; other site 316058009127 ABC-ATPase subunit interface; other site 316058009128 NMT1/THI5 like; Region: NMT1; pfam09084 316058009129 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 316058009130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058009131 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 316058009132 dimerization interface [polypeptide binding]; other site 316058009133 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 316058009134 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 316058009135 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 316058009136 FeS/SAM binding site; other site 316058009137 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 316058009138 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 316058009139 NADP binding site [chemical binding]; other site 316058009140 dimer interface [polypeptide binding]; other site 316058009141 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 316058009142 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 316058009143 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316058009144 Predicted permeases [General function prediction only]; Region: COG0679 316058009145 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 316058009146 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 316058009147 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 316058009148 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 316058009149 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 316058009150 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058009151 acyl-activating enzyme (AAE) consensus motif; other site 316058009152 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 316058009153 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 316058009154 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 316058009155 ATP binding site [chemical binding]; other site 316058009156 putative Mg++ binding site [ion binding]; other site 316058009157 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 316058009158 nucleotide binding region [chemical binding]; other site 316058009159 ATP-binding site [chemical binding]; other site 316058009160 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 316058009161 Uncharacterized conserved protein [Function unknown]; Region: COG2938 316058009162 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 316058009163 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 316058009164 generic binding surface II; other site 316058009165 ssDNA binding site; other site 316058009166 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 316058009167 ATP binding site [chemical binding]; other site 316058009168 putative Mg++ binding site [ion binding]; other site 316058009169 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 316058009170 nucleotide binding region [chemical binding]; other site 316058009171 ATP-binding site [chemical binding]; other site 316058009172 Uncharacterized conserved protein [Function unknown]; Region: COG2928 316058009173 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 316058009174 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 316058009175 glutaminase active site [active] 316058009176 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 316058009177 dimer interface [polypeptide binding]; other site 316058009178 active site 316058009179 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 316058009180 dimer interface [polypeptide binding]; other site 316058009181 active site 316058009182 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 316058009183 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 316058009184 Substrate binding site; other site 316058009185 Mg++ binding site; other site 316058009186 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 316058009187 active site 316058009188 substrate binding site [chemical binding]; other site 316058009189 CoA binding site [chemical binding]; other site 316058009190 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 316058009191 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 316058009192 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 316058009193 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 316058009194 active site 316058009195 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_2; cd08822 316058009196 putative active site [active] 316058009197 putative substrate binding site [chemical binding]; other site 316058009198 putative cosubstrate binding site; other site 316058009199 catalytic site [active] 316058009200 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316058009201 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316058009202 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 316058009203 homotrimer interaction site [polypeptide binding]; other site 316058009204 putative active site [active] 316058009205 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316058009206 EamA-like transporter family; Region: EamA; pfam00892 316058009207 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 316058009208 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 316058009209 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 316058009210 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 316058009211 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 316058009212 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 316058009213 active site 316058009214 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 316058009215 active site 316058009216 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 316058009217 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 316058009218 active site 316058009219 (T/H)XGH motif; other site 316058009220 DNA gyrase, A subunit; Region: gyrA; TIGR01063 316058009221 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 316058009222 CAP-like domain; other site 316058009223 active site 316058009224 primary dimer interface [polypeptide binding]; other site 316058009225 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316058009226 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316058009227 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316058009228 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316058009229 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316058009230 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 316058009231 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 316058009232 HflX GTPase family; Region: HflX; cd01878 316058009233 G1 box; other site 316058009234 GTP/Mg2+ binding site [chemical binding]; other site 316058009235 Switch I region; other site 316058009236 G2 box; other site 316058009237 G3 box; other site 316058009238 Switch II region; other site 316058009239 G4 box; other site 316058009240 G5 box; other site 316058009241 bacterial Hfq-like; Region: Hfq; cd01716 316058009242 hexamer interface [polypeptide binding]; other site 316058009243 Sm1 motif; other site 316058009244 RNA binding site [nucleotide binding]; other site 316058009245 Sm2 motif; other site 316058009246 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 316058009247 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 316058009248 homodimer interface [polypeptide binding]; other site 316058009249 substrate-cofactor binding pocket; other site 316058009250 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058009251 catalytic residue [active] 316058009252 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 316058009253 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058009254 active site 316058009255 phosphorylation site [posttranslational modification] 316058009256 intermolecular recognition site; other site 316058009257 dimerization interface [polypeptide binding]; other site 316058009258 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 316058009259 Walker A motif; other site 316058009260 ATP binding site [chemical binding]; other site 316058009261 Walker B motif; other site 316058009262 arginine finger; other site 316058009263 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316058009264 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 316058009265 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 316058009266 dimerization interface [polypeptide binding]; other site 316058009267 PAS domain; Region: PAS; smart00091 316058009268 putative active site [active] 316058009269 heme pocket [chemical binding]; other site 316058009270 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 316058009271 dimer interface [polypeptide binding]; other site 316058009272 phosphorylation site [posttranslational modification] 316058009273 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 316058009274 ATP binding site [chemical binding]; other site 316058009275 G-X-G motif; other site 316058009276 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 316058009277 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058009278 active site 316058009279 phosphorylation site [posttranslational modification] 316058009280 intermolecular recognition site; other site 316058009281 dimerization interface [polypeptide binding]; other site 316058009282 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 316058009283 Walker A motif; other site 316058009284 ATP binding site [chemical binding]; other site 316058009285 Walker B motif; other site 316058009286 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 316058009287 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 316058009288 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 316058009289 putative active site [active] 316058009290 heme pocket [chemical binding]; other site 316058009291 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 316058009292 dimer interface [polypeptide binding]; other site 316058009293 phosphorylation site [posttranslational modification] 316058009294 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 316058009295 ATP binding site [chemical binding]; other site 316058009296 Mg2+ binding site [ion binding]; other site 316058009297 G-X-G motif; other site 316058009298 tRNA dihydrouridine synthase A; Region: yjbN; TIGR00742 316058009299 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 316058009300 FMN binding site [chemical binding]; other site 316058009301 active site 316058009302 catalytic residues [active] 316058009303 substrate binding site [chemical binding]; other site 316058009304 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 316058009305 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 316058009306 substrate binding site; other site 316058009307 dimer interface; other site 316058009308 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 316058009309 homotrimer interaction site [polypeptide binding]; other site 316058009310 zinc binding site [ion binding]; other site 316058009311 CDP-binding sites; other site 316058009312 Competence-damaged protein; Region: CinA; pfam02464 316058009313 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 316058009314 putative coenzyme Q binding site [chemical binding]; other site 316058009315 lipoyl synthase; Provisional; Region: PRK05481 316058009316 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 316058009317 FeS/SAM binding site; other site 316058009318 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 316058009319 DNA binding site [nucleotide binding] 316058009320 active site 316058009321 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 316058009322 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 316058009323 HIGH motif; other site 316058009324 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 316058009325 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 316058009326 active site 316058009327 KMSKS motif; other site 316058009328 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 316058009329 tRNA binding surface [nucleotide binding]; other site 316058009330 anticodon binding site; other site 316058009331 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 316058009332 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 316058009333 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 316058009334 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 316058009335 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 316058009336 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 316058009337 S-adenosylmethionine binding site [chemical binding]; other site 316058009338 active site residue [active] 316058009339 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 316058009340 putative catalytic site [active] 316058009341 putative phosphate binding site [ion binding]; other site 316058009342 active site 316058009343 metal binding site A [ion binding]; metal-binding site 316058009344 DNA binding site [nucleotide binding] 316058009345 putative AP binding site [nucleotide binding]; other site 316058009346 putative metal binding site B [ion binding]; other site 316058009347 DTW domain; Region: DTW; cl01221 316058009348 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 316058009349 Protein export membrane protein; Region: SecD_SecF; cl14618 316058009350 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 316058009351 Protein export membrane protein; Region: SecD_SecF; cl14618 316058009352 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 316058009353 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058009354 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058009355 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 316058009356 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 316058009357 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316058009358 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 316058009359 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 316058009360 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 316058009361 S-adenosylmethionine binding site [chemical binding]; other site 316058009362 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 316058009363 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 316058009364 dimer interface [polypeptide binding]; other site 316058009365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058009366 catalytic residue [active] 316058009367 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 316058009368 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 316058009369 Walker A/P-loop; other site 316058009370 ATP binding site [chemical binding]; other site 316058009371 Q-loop/lid; other site 316058009372 ABC transporter signature motif; other site 316058009373 Walker B; other site 316058009374 D-loop; other site 316058009375 H-loop/switch region; other site 316058009376 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 316058009377 dimer interface [polypeptide binding]; other site 316058009378 conserved gate region; other site 316058009379 putative PBP binding loops; other site 316058009380 ABC-ATPase subunit interface; other site 316058009381 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 316058009382 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 316058009383 conserved gate region; other site 316058009384 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 316058009385 dimer interface [polypeptide binding]; other site 316058009386 ABC-ATPase subunit interface; other site 316058009387 putative PBP binding loops; other site 316058009388 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 316058009389 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 316058009390 substrate binding pocket [chemical binding]; other site 316058009391 membrane-bound complex binding site; other site 316058009392 hinge residues; other site 316058009393 cystathionine beta-lyase; Provisional; Region: PRK05967 316058009394 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 316058009395 homodimer interface [polypeptide binding]; other site 316058009396 substrate-cofactor binding pocket; other site 316058009397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058009398 catalytic residue [active] 316058009399 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 316058009400 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 316058009401 Ligand binding site; other site 316058009402 Putative Catalytic site; other site 316058009403 DXD motif; other site 316058009404 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 316058009405 active site 316058009406 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 316058009407 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 316058009408 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 316058009409 Transglycosylase; Region: Transgly; pfam00912 316058009410 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 316058009411 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 316058009412 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 316058009413 MG2 domain; Region: A2M_N; pfam01835 316058009414 Alpha-2-macroglobulin family; Region: A2M; pfam00207 316058009415 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 316058009416 surface patch; other site 316058009417 thioester region; other site 316058009418 specificity defining residues; other site 316058009419 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 316058009420 PEGA domain; Region: PEGA; pfam08308 316058009421 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 316058009422 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 316058009423 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316058009424 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 316058009425 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 316058009426 Uncharacterized conserved protein [Function unknown]; Region: COG2966 316058009427 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 316058009428 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 316058009429 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 316058009430 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 316058009431 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 316058009432 active site 316058009433 catalytic residues [active] 316058009434 metal binding site [ion binding]; metal-binding site 316058009435 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 316058009436 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316058009437 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316058009438 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 316058009439 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 316058009440 carboxyltransferase (CT) interaction site; other site 316058009441 biotinylation site [posttranslational modification]; other site 316058009442 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 316058009443 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 316058009444 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 316058009445 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 316058009446 OpgC protein; Region: OpgC_C; pfam10129 316058009447 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 316058009448 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 316058009449 DNA-binding site [nucleotide binding]; DNA binding site 316058009450 RNA-binding motif; other site 316058009451 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 316058009452 DNA-binding site [nucleotide binding]; DNA binding site 316058009453 RNA-binding motif; other site 316058009454 NAD-dependent deacetylase; Provisional; Region: PRK00481 316058009455 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 316058009456 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316058009457 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 316058009458 dimer interface [polypeptide binding]; other site 316058009459 active site 316058009460 metal binding site [ion binding]; metal-binding site 316058009461 glutathione binding site [chemical binding]; other site 316058009462 PilZ domain; Region: PilZ; pfam07238 316058009463 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 316058009464 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 316058009465 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 316058009466 FAD binding pocket [chemical binding]; other site 316058009467 FAD binding motif [chemical binding]; other site 316058009468 phosphate binding motif [ion binding]; other site 316058009469 beta-alpha-beta structure motif; other site 316058009470 NAD binding pocket [chemical binding]; other site 316058009471 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058009472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058009473 active site 316058009474 phosphorylation site [posttranslational modification] 316058009475 intermolecular recognition site; other site 316058009476 dimerization interface [polypeptide binding]; other site 316058009477 PAS domain; Region: PAS_9; pfam13426 316058009478 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 316058009479 Histidine kinase; Region: HisKA_2; pfam07568 316058009480 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 316058009481 ATP binding site [chemical binding]; other site 316058009482 Mg2+ binding site [ion binding]; other site 316058009483 G-X-G motif; other site 316058009484 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 316058009485 CrcB-like protein; Region: CRCB; cl09114 316058009486 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 316058009487 camphor resistance protein CrcB; Provisional; Region: PRK14203 316058009488 nsp8 replicase; Region: nsp8; pfam08717 316058009489 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 316058009490 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 316058009491 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 316058009492 FeS/SAM binding site; other site 316058009493 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 316058009494 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 316058009495 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 316058009496 motif 1; other site 316058009497 dimer interface [polypeptide binding]; other site 316058009498 active site 316058009499 motif 2; other site 316058009500 motif 3; other site 316058009501 elongation factor P; Validated; Region: PRK00529 316058009502 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 316058009503 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 316058009504 RNA binding site [nucleotide binding]; other site 316058009505 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 316058009506 RNA binding site [nucleotide binding]; other site 316058009507 Peptidase family M23; Region: Peptidase_M23; pfam01551 316058009508 lytic murein transglycosylase; Region: MltB_2; TIGR02283 316058009509 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 316058009510 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316058009511 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316058009512 Predicted membrane protein [Function unknown]; Region: COG1289 316058009513 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 316058009514 CHASE3 domain; Region: CHASE3; pfam05227 316058009515 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 316058009516 dimerization interface [polypeptide binding]; other site 316058009517 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058009518 dimer interface [polypeptide binding]; other site 316058009519 putative CheW interface [polypeptide binding]; other site 316058009520 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 316058009521 DHH family; Region: DHH; pfam01368 316058009522 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 316058009523 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 316058009524 motif II; other site 316058009525 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316058009526 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 316058009527 Coenzyme A binding pocket [chemical binding]; other site 316058009528 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 316058009529 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 316058009530 putative active site [active] 316058009531 homoserine dehydrogenase; Provisional; Region: PRK06349 316058009532 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 316058009533 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 316058009534 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 316058009535 aminotransferase; Validated; Region: PRK09148 316058009536 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 316058009537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058009538 homodimer interface [polypeptide binding]; other site 316058009539 catalytic residue [active] 316058009540 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 316058009541 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 316058009542 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316058009543 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 316058009544 S-adenosylmethionine binding site [chemical binding]; other site 316058009545 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 316058009546 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 316058009547 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 316058009548 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 316058009549 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316058009550 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316058009551 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316058009552 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 316058009553 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 316058009554 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 316058009555 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 316058009556 Mg2+ binding site [ion binding]; other site 316058009557 G-X-G motif; other site 316058009558 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 316058009559 anchoring element; other site 316058009560 dimer interface [polypeptide binding]; other site 316058009561 ATP binding site [chemical binding]; other site 316058009562 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 316058009563 active site 316058009564 metal binding site [ion binding]; metal-binding site 316058009565 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 316058009566 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058009567 AAA domain; Region: AAA_21; pfam13304 316058009568 Walker A/P-loop; other site 316058009569 ATP binding site [chemical binding]; other site 316058009570 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 316058009571 Caspase domain; Region: Peptidase_C14; pfam00656 316058009572 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058009573 dimer interface [polypeptide binding]; other site 316058009574 putative CheW interface [polypeptide binding]; other site 316058009575 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058009576 Helix-turn-helix domain; Region: HTH_18; pfam12833 316058009577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058009578 helicase 45; Provisional; Region: PTZ00424 316058009579 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 316058009580 ATP binding site [chemical binding]; other site 316058009581 Mg++ binding site [ion binding]; other site 316058009582 motif III; other site 316058009583 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 316058009584 nucleotide binding region [chemical binding]; other site 316058009585 ATP-binding site [chemical binding]; other site 316058009586 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058009587 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058009588 metal binding site [ion binding]; metal-binding site 316058009589 active site 316058009590 I-site; other site 316058009591 TfoX N-terminal domain; Region: TfoX_N; pfam04993 316058009592 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 316058009593 Domain of unknown function DUF59; Region: DUF59; cl00941 316058009594 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 316058009595 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 316058009596 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058009597 catalytic residue [active] 316058009598 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 316058009599 FeS assembly protein SufD; Region: sufD; TIGR01981 316058009600 FeS assembly ATPase SufC; Region: sufC; TIGR01978 316058009601 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 316058009602 Walker A/P-loop; other site 316058009603 ATP binding site [chemical binding]; other site 316058009604 Q-loop/lid; other site 316058009605 ABC transporter signature motif; other site 316058009606 Walker B; other site 316058009607 D-loop; other site 316058009608 H-loop/switch region; other site 316058009609 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 316058009610 putative ABC transporter; Region: ycf24; CHL00085 316058009611 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 316058009612 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 316058009613 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058009614 catalytic residue [active] 316058009615 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 316058009616 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 316058009617 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 316058009618 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 316058009619 active site 316058009620 HIGH motif; other site 316058009621 dimer interface [polypeptide binding]; other site 316058009622 KMSKS motif; other site 316058009623 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 316058009624 RNA binding surface [nucleotide binding]; other site 316058009625 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 316058009626 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316058009627 putative substrate translocation pore; other site 316058009628 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 316058009629 Protein of unknown function; Region: DUF3971; pfam13116 316058009630 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316058009631 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 316058009632 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 316058009633 catalytic triad [active] 316058009634 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 316058009635 Peptidase family M23; Region: Peptidase_M23; pfam01551 316058009636 EamA-like transporter family; Region: EamA; pfam00892 316058009637 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 316058009638 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 316058009639 peptide chain release factor 2; Provisional; Region: PRK07342 316058009640 This domain is found in peptide chain release factors; Region: PCRF; smart00937 316058009641 RF-1 domain; Region: RF-1; pfam00472 316058009642 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 316058009643 Transglycosylase; Region: Transgly; pfam00912 316058009644 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 316058009645 AMIN domain; Region: AMIN; pfam11741 316058009646 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 316058009647 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 316058009648 active site 316058009649 metal binding site [ion binding]; metal-binding site 316058009650 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 316058009651 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 316058009652 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 316058009653 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 316058009654 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 316058009655 BioY family; Region: BioY; pfam02632 316058009656 aspartate aminotransferase; Provisional; Region: PRK05764 316058009657 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 316058009658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058009659 homodimer interface [polypeptide binding]; other site 316058009660 catalytic residue [active] 316058009661 Peptidase family M48; Region: Peptidase_M48; cl12018 316058009662 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 316058009663 binding surface 316058009664 TPR motif; other site 316058009665 TPR repeat; Region: TPR_11; pfam13414 316058009666 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 316058009667 binding surface 316058009668 TPR motif; other site 316058009669 BA14K-like protein; Region: BA14K; pfam07886 316058009670 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 316058009671 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 316058009672 dimer interface [polypeptide binding]; other site 316058009673 decamer (pentamer of dimers) interface [polypeptide binding]; other site 316058009674 catalytic triad [active] 316058009675 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 316058009676 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 316058009677 catalytic residues [active] 316058009678 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 316058009679 Dehydroquinase class II; Region: DHquinase_II; pfam01220 316058009680 trimer interface [polypeptide binding]; other site 316058009681 active site 316058009682 dimer interface [polypeptide binding]; other site 316058009683 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 316058009684 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 316058009685 carboxyltransferase (CT) interaction site; other site 316058009686 biotinylation site [posttranslational modification]; other site 316058009687 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 316058009688 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316058009689 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316058009690 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 316058009691 CHASE3 domain; Region: CHASE3; pfam05227 316058009692 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058009693 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 316058009694 dimer interface [polypeptide binding]; other site 316058009695 phosphorylation site [posttranslational modification] 316058009696 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 316058009697 ATP binding site [chemical binding]; other site 316058009698 Mg2+ binding site [ion binding]; other site 316058009699 G-X-G motif; other site 316058009700 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058009701 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058009702 active site 316058009703 phosphorylation site [posttranslational modification] 316058009704 intermolecular recognition site; other site 316058009705 dimerization interface [polypeptide binding]; other site 316058009706 Response regulator receiver domain; Region: Response_reg; pfam00072 316058009707 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058009708 active site 316058009709 phosphorylation site [posttranslational modification] 316058009710 intermolecular recognition site; other site 316058009711 dimerization interface [polypeptide binding]; other site 316058009712 Histidine kinase; Region: HisKA_2; pfam07568 316058009713 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 316058009714 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 316058009715 ATP binding site [chemical binding]; other site 316058009716 Mg2+ binding site [ion binding]; other site 316058009717 G-X-G motif; other site 316058009718 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 316058009719 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 316058009720 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316058009721 classical (c) SDRs; Region: SDR_c; cd05233 316058009722 NAD(P) binding site [chemical binding]; other site 316058009723 active site 316058009724 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 316058009725 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 316058009726 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316058009727 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 316058009728 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 316058009729 conserved cys residue [active] 316058009730 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058009731 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 316058009732 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 316058009733 conserved cys residue [active] 316058009734 NADH dehydrogenase; Validated; Region: PRK08183 316058009735 BA14K-like protein; Region: BA14K; pfam07886 316058009736 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 316058009737 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 316058009738 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 316058009739 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316058009740 catalytic residue [active] 316058009741 Porin subfamily; Region: Porin_2; pfam02530 316058009742 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 316058009743 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 316058009744 N-terminal plug; other site 316058009745 ligand-binding site [chemical binding]; other site 316058009746 nickel responsive regulator; Provisional; Region: PRK02967 316058009747 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 316058009748 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 316058009749 PilZ domain; Region: PilZ; pfam07238 316058009750 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 316058009751 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 316058009752 Helix-turn-helix domain; Region: HTH_18; pfam12833 316058009753 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 316058009754 active site 316058009755 Int/Topo IB signature motif; other site 316058009756 DNA binding site [nucleotide binding] 316058009757 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 316058009758 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 316058009759 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 316058009760 ATP binding site [chemical binding]; other site 316058009761 putative Mg++ binding site [ion binding]; other site 316058009762 AAA domain; Region: AAA_13; pfam13166 316058009763 AAA domain; Region: AAA_13; pfam13166 316058009764 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 316058009765 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 316058009766 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 316058009767 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 316058009768 HsdM N-terminal domain; Region: HsdM_N; pfam12161 316058009769 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 316058009770 S-adenosylmethionine binding site [chemical binding]; other site 316058009771 Fic family protein [Function unknown]; Region: COG3177 316058009772 Fic/DOC family; Region: Fic; pfam02661 316058009773 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 316058009774 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058009775 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 316058009776 DNA binding residues [nucleotide binding] 316058009777 AAA domain; Region: AAA_17; pfam13207 316058009778 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 316058009779 dimerization interface [polypeptide binding]; other site 316058009780 Histidine kinase; Region: HisKA_3; pfam07730 316058009781 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 316058009782 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 316058009783 ATP binding site [chemical binding]; other site 316058009784 Mg2+ binding site [ion binding]; other site 316058009785 G-X-G motif; other site 316058009786 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316058009787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058009788 active site 316058009789 phosphorylation site [posttranslational modification] 316058009790 intermolecular recognition site; other site 316058009791 dimerization interface [polypeptide binding]; other site 316058009792 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 316058009793 DNA binding residues [nucleotide binding] 316058009794 dimerization interface [polypeptide binding]; other site 316058009795 short chain dehydrogenase; Provisional; Region: PRK12747 316058009796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058009797 NAD(P) binding site [chemical binding]; other site 316058009798 active site 316058009799 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 316058009800 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058009801 acyl-activating enzyme (AAE) consensus motif; other site 316058009802 AMP binding site [chemical binding]; other site 316058009803 active site 316058009804 CoA binding site [chemical binding]; other site 316058009805 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058009806 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 316058009807 Walker A/P-loop; other site 316058009808 ATP binding site [chemical binding]; other site 316058009809 Q-loop/lid; other site 316058009810 ABC transporter signature motif; other site 316058009811 Walker B; other site 316058009812 D-loop; other site 316058009813 H-loop/switch region; other site 316058009814 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 316058009815 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 316058009816 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058009817 Walker A/P-loop; other site 316058009818 ATP binding site [chemical binding]; other site 316058009819 Q-loop/lid; other site 316058009820 ABC transporter signature motif; other site 316058009821 Walker B; other site 316058009822 D-loop; other site 316058009823 H-loop/switch region; other site 316058009824 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058009825 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 316058009826 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 316058009827 dimer interface [polypeptide binding]; other site 316058009828 conserved gate region; other site 316058009829 putative PBP binding loops; other site 316058009830 ABC-ATPase subunit interface; other site 316058009831 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316058009832 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 316058009833 dimer interface [polypeptide binding]; other site 316058009834 conserved gate region; other site 316058009835 ABC-ATPase subunit interface; other site 316058009836 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316058009837 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 316058009838 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 316058009839 CoenzymeA binding site [chemical binding]; other site 316058009840 subunit interaction site [polypeptide binding]; other site 316058009841 PHB binding site; other site 316058009842 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316058009843 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 316058009844 NAD(P) binding site [chemical binding]; other site 316058009845 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 316058009846 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 316058009847 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 316058009848 metal binding site [ion binding]; metal-binding site 316058009849 putative dimer interface [polypeptide binding]; other site 316058009850 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 316058009851 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 316058009852 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058009853 catalytic residue [active] 316058009854 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316058009855 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 316058009856 putative DNA binding site [nucleotide binding]; other site 316058009857 putative Zn2+ binding site [ion binding]; other site 316058009858 AsnC family; Region: AsnC_trans_reg; pfam01037 316058009859 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 316058009860 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 316058009861 NMT1/THI5 like; Region: NMT1; pfam09084 316058009862 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316058009863 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316058009864 Walker A/P-loop; other site 316058009865 ATP binding site [chemical binding]; other site 316058009866 Q-loop/lid; other site 316058009867 ABC transporter signature motif; other site 316058009868 Walker B; other site 316058009869 D-loop; other site 316058009870 H-loop/switch region; other site 316058009871 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058009872 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 316058009873 dimer interface [polypeptide binding]; other site 316058009874 conserved gate region; other site 316058009875 putative PBP binding loops; other site 316058009876 ABC-ATPase subunit interface; other site 316058009877 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 316058009878 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 316058009879 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 316058009880 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 316058009881 catalytic loop [active] 316058009882 iron binding site [ion binding]; other site 316058009883 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316058009884 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316058009885 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316058009886 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058009887 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 316058009888 putative hydrophobic ligand binding site [chemical binding]; other site 316058009889 NMT1/THI5 like; Region: NMT1; pfam09084 316058009890 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 316058009891 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 316058009892 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058009893 dimer interface [polypeptide binding]; other site 316058009894 conserved gate region; other site 316058009895 putative PBP binding loops; other site 316058009896 ABC-ATPase subunit interface; other site 316058009897 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316058009898 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316058009899 Walker A/P-loop; other site 316058009900 ATP binding site [chemical binding]; other site 316058009901 Q-loop/lid; other site 316058009902 ABC transporter signature motif; other site 316058009903 Walker B; other site 316058009904 D-loop; other site 316058009905 H-loop/switch region; other site 316058009906 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 316058009907 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058009908 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 316058009909 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316058009910 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316058009911 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058009912 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 316058009913 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 316058009914 catalytic loop [active] 316058009915 iron binding site [ion binding]; other site 316058009916 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316058009917 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 316058009918 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 316058009919 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 316058009920 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 316058009921 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 316058009922 substrate binding pocket [chemical binding]; other site 316058009923 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 316058009924 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 316058009925 NAD(P) binding site [chemical binding]; other site 316058009926 catalytic residues [active] 316058009927 L-aspartate dehydrogenase; Provisional; Region: PRK13303 316058009928 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 316058009929 Domain of unknown function DUF108; Region: DUF108; pfam01958 316058009930 Cupin domain; Region: Cupin_2; pfam07883 316058009931 NMT1/THI5 like; Region: NMT1; pfam09084 316058009932 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 316058009933 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316058009934 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316058009935 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058009936 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 316058009937 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 316058009938 catalytic loop [active] 316058009939 iron binding site [ion binding]; other site 316058009940 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316058009941 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 316058009942 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 316058009943 Predicted acyl esterases [General function prediction only]; Region: COG2936 316058009944 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 316058009945 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 316058009946 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 316058009947 phosphate binding site [ion binding]; other site 316058009948 Isochorismatase family; Region: Isochorismatase; pfam00857 316058009949 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 316058009950 catalytic triad [active] 316058009951 conserved cis-peptide bond; other site 316058009952 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 316058009953 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058009954 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058009955 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 316058009956 dimer interface [polypeptide binding]; other site 316058009957 conserved gate region; other site 316058009958 ABC-ATPase subunit interface; other site 316058009959 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316058009960 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316058009961 Walker A/P-loop; other site 316058009962 ATP binding site [chemical binding]; other site 316058009963 Q-loop/lid; other site 316058009964 ABC transporter signature motif; other site 316058009965 Walker B; other site 316058009966 D-loop; other site 316058009967 H-loop/switch region; other site 316058009968 NMT1/THI5 like; Region: NMT1; pfam09084 316058009969 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 316058009970 membrane-bound complex binding site; other site 316058009971 hinge residues; other site 316058009972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058009973 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 316058009974 NAD(P) binding site [chemical binding]; other site 316058009975 active site 316058009976 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 316058009977 active site 316058009978 DNA binding site [nucleotide binding] 316058009979 Int/Topo IB signature motif; other site 316058009980 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 316058009981 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 316058009982 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 316058009983 FecR protein; Region: FecR; pfam04773 316058009984 RNA polymerase sigma factor; Reviewed; Region: PRK12527 316058009985 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 316058009986 Secretin and TonB N terminus short domain; Region: STN; smart00965 316058009987 Gram-negative bacterial tonB protein; Region: TonB; cl10048 316058009988 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 316058009989 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058009990 Walker A/P-loop; other site 316058009991 ATP binding site [chemical binding]; other site 316058009992 Q-loop/lid; other site 316058009993 ABC transporter signature motif; other site 316058009994 Walker B; other site 316058009995 D-loop; other site 316058009996 H-loop/switch region; other site 316058009997 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058009998 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058009999 Walker A/P-loop; other site 316058010000 ATP binding site [chemical binding]; other site 316058010001 Q-loop/lid; other site 316058010002 ABC transporter signature motif; other site 316058010003 Walker B; other site 316058010004 D-loop; other site 316058010005 H-loop/switch region; other site 316058010006 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058010007 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 316058010008 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 316058010009 dimer interface [polypeptide binding]; other site 316058010010 conserved gate region; other site 316058010011 putative PBP binding loops; other site 316058010012 ABC-ATPase subunit interface; other site 316058010013 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316058010014 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 316058010015 dimer interface [polypeptide binding]; other site 316058010016 conserved gate region; other site 316058010017 putative PBP binding loops; other site 316058010018 ABC-ATPase subunit interface; other site 316058010019 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316058010020 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 316058010021 hypothetical protein; Provisional; Region: PRK12474 316058010022 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316058010023 PYR/PP interface [polypeptide binding]; other site 316058010024 dimer interface [polypeptide binding]; other site 316058010025 TPP binding site [chemical binding]; other site 316058010026 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 316058010027 TPP-binding site [chemical binding]; other site 316058010028 dimer interface [polypeptide binding]; other site 316058010029 acetylornithine deacetylase; Provisional; Region: PRK06837 316058010030 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 316058010031 metal binding site [ion binding]; metal-binding site 316058010032 dimer interface [polypeptide binding]; other site 316058010033 succinic semialdehyde dehydrogenase; Region: PLN02278 316058010034 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 316058010035 tetramerization interface [polypeptide binding]; other site 316058010036 NAD(P) binding site [chemical binding]; other site 316058010037 catalytic residues [active] 316058010038 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 316058010039 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 316058010040 inhibitor-cofactor binding pocket; inhibition site 316058010041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058010042 catalytic residue [active] 316058010043 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 316058010044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058010045 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 316058010046 dimerization interface [polypeptide binding]; other site 316058010047 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 316058010048 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 316058010049 molybdopterin cofactor binding site [chemical binding]; other site 316058010050 substrate binding site [chemical binding]; other site 316058010051 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 316058010052 molybdopterin cofactor binding site; other site 316058010053 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 316058010054 diiron binding motif [ion binding]; other site 316058010055 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 316058010056 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 316058010057 4Fe-4S binding domain; Region: Fer4_5; pfam12801 316058010058 4Fe-4S binding domain; Region: Fer4_5; pfam12801 316058010059 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 316058010060 nitrous-oxide reductase; Validated; Region: PRK02888 316058010061 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 316058010062 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 316058010063 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 316058010064 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316058010065 Walker A/P-loop; other site 316058010066 ATP binding site [chemical binding]; other site 316058010067 Q-loop/lid; other site 316058010068 ABC transporter signature motif; other site 316058010069 Walker B; other site 316058010070 D-loop; other site 316058010071 H-loop/switch region; other site 316058010072 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 316058010073 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 316058010074 NosL; Region: NosL; pfam05573 316058010075 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 316058010076 ApbE family; Region: ApbE; pfam02424 316058010077 EF-hand domain pair; Region: EF_hand_5; pfam13499 316058010078 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 316058010079 Ca2+ binding site [ion binding]; other site 316058010080 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 316058010081 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 316058010082 N-terminal plug; other site 316058010083 ligand-binding site [chemical binding]; other site 316058010084 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058010085 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 316058010086 ligand binding site [chemical binding]; other site 316058010087 flexible hinge region; other site 316058010088 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 316058010089 putative switch regulator; other site 316058010090 non-specific DNA interactions [nucleotide binding]; other site 316058010091 DNA binding site [nucleotide binding] 316058010092 sequence specific DNA binding site [nucleotide binding]; other site 316058010093 putative cAMP binding site [chemical binding]; other site 316058010094 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 316058010095 CHASE3 domain; Region: CHASE3; pfam05227 316058010096 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 316058010097 dimer interface [polypeptide binding]; other site 316058010098 phosphorylation site [posttranslational modification] 316058010099 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 316058010100 ATP binding site [chemical binding]; other site 316058010101 Mg2+ binding site [ion binding]; other site 316058010102 G-X-G motif; other site 316058010103 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 316058010104 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316058010105 cyclase homology domain; Region: CHD; cd07302 316058010106 nucleotidyl binding site; other site 316058010107 metal binding site [ion binding]; metal-binding site 316058010108 dimer interface [polypeptide binding]; other site 316058010109 FecR protein; Region: FecR; pfam04773 316058010110 Tetratricopeptide repeat; Region: TPR_9; pfam13371 316058010111 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 316058010112 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 316058010113 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 316058010114 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 316058010115 G1 box; other site 316058010116 putative GEF interaction site [polypeptide binding]; other site 316058010117 GTP/Mg2+ binding site [chemical binding]; other site 316058010118 Switch I region; other site 316058010119 G2 box; other site 316058010120 G3 box; other site 316058010121 Switch II region; other site 316058010122 G4 box; other site 316058010123 G5 box; other site 316058010124 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 316058010125 multidrug efflux system protein; Provisional; Region: PRK11431 316058010126 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 316058010127 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 316058010128 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 316058010129 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 316058010130 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058010131 TM-ABC transporter signature motif; other site 316058010132 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058010133 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 316058010134 TM-ABC transporter signature motif; other site 316058010135 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058010136 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058010137 Walker A/P-loop; other site 316058010138 ATP binding site [chemical binding]; other site 316058010139 Q-loop/lid; other site 316058010140 ABC transporter signature motif; other site 316058010141 Walker B; other site 316058010142 D-loop; other site 316058010143 H-loop/switch region; other site 316058010144 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058010145 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058010146 Walker A/P-loop; other site 316058010147 ATP binding site [chemical binding]; other site 316058010148 Q-loop/lid; other site 316058010149 ABC transporter signature motif; other site 316058010150 Walker B; other site 316058010151 D-loop; other site 316058010152 H-loop/switch region; other site 316058010153 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 316058010154 ArsC family; Region: ArsC; pfam03960 316058010155 putative catalytic residues [active] 316058010156 pyruvate kinase; Validated; Region: PRK08187 316058010157 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 316058010158 active site 316058010159 domain interfaces; other site 316058010160 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 316058010161 SnoaL-like domain; Region: SnoaL_2; pfam12680 316058010162 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 316058010163 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 316058010164 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 316058010165 flavodoxin FldA; Validated; Region: PRK09267 316058010166 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 316058010167 active site 316058010168 SAM binding site [chemical binding]; other site 316058010169 homodimer interface [polypeptide binding]; other site 316058010170 tricarballylate dehydrogenase; Validated; Region: PRK08274 316058010171 CitB domain protein; Region: CitB; TIGR02484 316058010172 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 316058010173 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 316058010174 Precorrin-8X methylmutase; Region: CbiC; pfam02570 316058010175 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 316058010176 active site 316058010177 SAM binding site [chemical binding]; other site 316058010178 homodimer interface [polypeptide binding]; other site 316058010179 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 316058010180 active site 316058010181 SAM binding site [chemical binding]; other site 316058010182 homodimer interface [polypeptide binding]; other site 316058010183 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 316058010184 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 316058010185 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 316058010186 active site 316058010187 putative homodimer interface [polypeptide binding]; other site 316058010188 SAM binding site [chemical binding]; other site 316058010189 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 316058010190 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 316058010191 S-adenosylmethionine binding site [chemical binding]; other site 316058010192 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 316058010193 active site 316058010194 SAM binding site [chemical binding]; other site 316058010195 homodimer interface [polypeptide binding]; other site 316058010196 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 316058010197 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 316058010198 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 316058010199 active site 316058010200 SAM binding site [chemical binding]; other site 316058010201 homodimer interface [polypeptide binding]; other site 316058010202 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 316058010203 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316058010204 NAD binding site [chemical binding]; other site 316058010205 catalytic Zn binding site [ion binding]; other site 316058010206 structural Zn binding site [ion binding]; other site 316058010207 short chain dehydrogenase; Provisional; Region: PRK06197 316058010208 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 316058010209 putative NAD(P) binding site [chemical binding]; other site 316058010210 active site 316058010211 GMP synthase; Reviewed; Region: guaA; PRK00074 316058010212 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 316058010213 AMP/PPi binding site [chemical binding]; other site 316058010214 candidate oxyanion hole; other site 316058010215 catalytic triad [active] 316058010216 potential glutamine specificity residues [chemical binding]; other site 316058010217 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 316058010218 ATP Binding subdomain [chemical binding]; other site 316058010219 Ligand Binding sites [chemical binding]; other site 316058010220 Dimerization subdomain; other site 316058010221 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 316058010222 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 316058010223 MAPEG family; Region: MAPEG; cl09190 316058010224 Prostaglandin dehydrogenases; Region: PGDH; cd05288 316058010225 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 316058010226 NAD(P) binding site [chemical binding]; other site 316058010227 substrate binding site [chemical binding]; other site 316058010228 dimer interface [polypeptide binding]; other site 316058010229 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 316058010230 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 316058010231 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 316058010232 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 316058010233 active site 316058010234 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 316058010235 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316058010236 putative substrate translocation pore; other site 316058010237 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 316058010238 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 316058010239 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 316058010240 S-adenosylmethionine binding site [chemical binding]; other site 316058010241 exopolyphosphatase; Region: exo_poly_only; TIGR03706 316058010242 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 316058010243 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316058010244 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316058010245 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058010246 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058010247 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 316058010248 putative ligand binding site [chemical binding]; other site 316058010249 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 316058010250 active site 2 [active] 316058010251 active site 1 [active] 316058010252 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 316058010253 hypothetical protein; Validated; Region: PRK00124 316058010254 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 316058010255 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316058010256 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316058010257 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 316058010258 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 316058010259 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316058010260 catalytic residue [active] 316058010261 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316058010262 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 316058010263 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 316058010264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058010265 NAD(P) binding site [chemical binding]; other site 316058010266 active site 316058010267 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 316058010268 putative active site [active] 316058010269 putative catalytic site [active] 316058010270 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 316058010271 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 316058010272 NAD(P) binding site [chemical binding]; other site 316058010273 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 316058010274 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 316058010275 putative catalytic residue [active] 316058010276 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 316058010277 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 316058010278 C-terminal domain interface [polypeptide binding]; other site 316058010279 GSH binding site (G-site) [chemical binding]; other site 316058010280 dimer interface [polypeptide binding]; other site 316058010281 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 316058010282 N-terminal domain interface [polypeptide binding]; other site 316058010283 putative dimer interface [polypeptide binding]; other site 316058010284 active site 316058010285 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 316058010286 substrate binding site [chemical binding]; other site 316058010287 THF binding site; other site 316058010288 zinc-binding site [ion binding]; other site 316058010289 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 316058010290 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 316058010291 Trp docking motif [polypeptide binding]; other site 316058010292 putative active site [active] 316058010293 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316058010294 active site 316058010295 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 316058010296 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 316058010297 CoenzymeA binding site [chemical binding]; other site 316058010298 subunit interaction site [polypeptide binding]; other site 316058010299 PHB binding site; other site 316058010300 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 316058010301 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 316058010302 putative MPT binding site; other site 316058010303 Uncharacterized conserved protein [Function unknown]; Region: COG2308 316058010304 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 316058010305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 316058010306 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316058010307 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 316058010308 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316058010309 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 316058010310 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 316058010311 active site 316058010312 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316058010313 Coenzyme A binding pocket [chemical binding]; other site 316058010314 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 316058010315 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 316058010316 classical (c) SDRs; Region: SDR_c; cd05233 316058010317 NAD(P) binding site [chemical binding]; other site 316058010318 active site 316058010319 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 316058010320 Cupin domain; Region: Cupin_2; pfam07883 316058010321 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 316058010322 dimer interface [polypeptide binding]; other site 316058010323 catalytic residue [active] 316058010324 metal binding site [ion binding]; metal-binding site 316058010325 H+ Antiporter protein; Region: 2A0121; TIGR00900 316058010326 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 316058010327 putative substrate translocation pore; other site 316058010328 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 316058010329 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 316058010330 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 316058010331 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 316058010332 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 316058010333 putative active site [active] 316058010334 heme pocket [chemical binding]; other site 316058010335 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 316058010336 putative active site [active] 316058010337 heme pocket [chemical binding]; other site 316058010338 GAF domain; Region: GAF; pfam01590 316058010339 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058010340 metal binding site [ion binding]; metal-binding site 316058010341 active site 316058010342 I-site; other site 316058010343 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 316058010344 Usg-like family; Region: Usg; pfam06233 316058010345 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 316058010346 oligomerisation interface [polypeptide binding]; other site 316058010347 mobile loop; other site 316058010348 roof hairpin; other site 316058010349 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 316058010350 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 316058010351 ring oligomerisation interface [polypeptide binding]; other site 316058010352 ATP/Mg binding site [chemical binding]; other site 316058010353 stacking interactions; other site 316058010354 hinge regions; other site 316058010355 HDOD domain; Region: HDOD; pfam08668 316058010356 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 316058010357 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 316058010358 salt bridge; other site 316058010359 non-specific DNA binding site [nucleotide binding]; other site 316058010360 sequence-specific DNA binding site [nucleotide binding]; other site 316058010361 hypothetical protein; Provisional; Region: PRK10396 316058010362 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 316058010363 SEC-C motif; Region: SEC-C; pfam02810 316058010364 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316058010365 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316058010366 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316058010367 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316058010368 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316058010369 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 316058010370 dimerization interface [polypeptide binding]; other site 316058010371 putative DNA binding site [nucleotide binding]; other site 316058010372 putative Zn2+ binding site [ion binding]; other site 316058010373 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 316058010374 putative DNA binding site [nucleotide binding]; other site 316058010375 putative Zn2+ binding site [ion binding]; other site 316058010376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058010377 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 316058010378 NAD(P) binding site [chemical binding]; other site 316058010379 active site 316058010380 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 316058010381 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 316058010382 dihydroxy-acid dehydratase; Validated; Region: PRK06131 316058010383 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058010384 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058010385 metal binding site [ion binding]; metal-binding site 316058010386 active site 316058010387 I-site; other site 316058010388 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 316058010389 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 316058010390 NAD binding site [chemical binding]; other site 316058010391 catalytic residues [active] 316058010392 PAS fold; Region: PAS_7; pfam12860 316058010393 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058010394 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058010395 metal binding site [ion binding]; metal-binding site 316058010396 active site 316058010397 I-site; other site 316058010398 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 316058010399 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 316058010400 TPP-binding site [chemical binding]; other site 316058010401 PYR/PP interface [polypeptide binding]; other site 316058010402 dimer interface [polypeptide binding]; other site 316058010403 TPP binding site [chemical binding]; other site 316058010404 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 316058010405 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316058010406 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 316058010407 putative DNA binding site [nucleotide binding]; other site 316058010408 putative Zn2+ binding site [ion binding]; other site 316058010409 AsnC family; Region: AsnC_trans_reg; pfam01037 316058010410 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316058010411 EamA-like transporter family; Region: EamA; pfam00892 316058010412 EamA-like transporter family; Region: EamA; pfam00892 316058010413 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 316058010414 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 316058010415 active site 316058010416 catalytic tetrad [active] 316058010417 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 316058010418 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 316058010419 dimer interface [polypeptide binding]; other site 316058010420 active site 316058010421 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316058010422 Beta-lactamase; Region: Beta-lactamase; pfam00144 316058010423 enoyl-CoA hydratase; Provisional; Region: PRK05995 316058010424 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 316058010425 substrate binding site [chemical binding]; other site 316058010426 oxyanion hole (OAH) forming residues; other site 316058010427 trimer interface [polypeptide binding]; other site 316058010428 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 316058010429 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316058010430 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 316058010431 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 316058010432 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 316058010433 carboxyltransferase (CT) interaction site; other site 316058010434 biotinylation site [posttranslational modification]; other site 316058010435 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 316058010436 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 316058010437 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 316058010438 acyl-CoA synthetase; Validated; Region: PRK08316 316058010439 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058010440 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316058010441 acyl-activating enzyme (AAE) consensus motif; other site 316058010442 acyl-activating enzyme (AAE) consensus motif; other site 316058010443 putative AMP binding site [chemical binding]; other site 316058010444 putative active site [active] 316058010445 putative CoA binding site [chemical binding]; other site 316058010446 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 316058010447 Cupin domain; Region: Cupin_2; cl17218 316058010448 Helix-turn-helix domain; Region: HTH_18; pfam12833 316058010449 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316058010450 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 316058010451 putative C-terminal domain interface [polypeptide binding]; other site 316058010452 putative GSH binding site (G-site) [chemical binding]; other site 316058010453 putative dimer interface [polypeptide binding]; other site 316058010454 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 316058010455 N-terminal domain interface [polypeptide binding]; other site 316058010456 dimer interface [polypeptide binding]; other site 316058010457 substrate binding pocket (H-site) [chemical binding]; other site 316058010458 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 316058010459 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058010460 putative ligand binding site [chemical binding]; other site 316058010461 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058010462 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058010463 active site 316058010464 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058010465 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058010466 active site 316058010467 Cytochrome c; Region: Cytochrom_C; cl11414 316058010468 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 316058010469 ATP binding site [chemical binding]; other site 316058010470 G-X-G motif; other site 316058010471 Response regulator receiver domain; Region: Response_reg; pfam00072 316058010472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058010473 active site 316058010474 phosphorylation site [posttranslational modification] 316058010475 intermolecular recognition site; other site 316058010476 dimerization interface [polypeptide binding]; other site 316058010477 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 316058010478 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 316058010479 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 316058010480 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 316058010481 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 316058010482 N-terminal plug; other site 316058010483 ligand-binding site [chemical binding]; other site 316058010484 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058010485 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058010486 Predicted periplasmic protein [Function unknown]; Region: COG3904 316058010487 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 316058010488 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 316058010489 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 316058010490 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 316058010491 RNA binding site [nucleotide binding]; other site 316058010492 Esterase/lipase [General function prediction only]; Region: COG1647 316058010493 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316058010494 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 316058010495 intersubunit interface [polypeptide binding]; other site 316058010496 Cysteine-rich small domain; Region: zf-like; cl00946 316058010497 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 316058010498 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 316058010499 putative dimer interface [polypeptide binding]; other site 316058010500 active site pocket [active] 316058010501 putative cataytic base [active] 316058010502 cobalamin synthase; Reviewed; Region: cobS; PRK00235 316058010503 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 316058010504 cobyric acid synthase; Provisional; Region: PRK00784 316058010505 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 316058010506 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 316058010507 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 316058010508 catalytic triad [active] 316058010509 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 316058010510 hexamer interface [polypeptide binding]; other site 316058010511 RNA binding site [nucleotide binding]; other site 316058010512 Histidine-zinc binding site [chemical binding]; other site 316058010513 BioY family; Region: BioY; pfam02632 316058010514 Cobalt transport protein; Region: CbiQ; cl00463 316058010515 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 316058010516 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 316058010517 Walker A/P-loop; other site 316058010518 ATP binding site [chemical binding]; other site 316058010519 Q-loop/lid; other site 316058010520 ABC transporter signature motif; other site 316058010521 Walker B; other site 316058010522 D-loop; other site 316058010523 H-loop/switch region; other site 316058010524 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 316058010525 Malonate transporter MadL subunit; Region: MadL; cl04273 316058010526 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 316058010527 carboxyltransferase (CT) interaction site; other site 316058010528 biotinylation site [posttranslational modification]; other site 316058010529 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 316058010530 malonate decarboxylase holo-[acyl-carrier-protein] synthase; Region: malonate_mdcG; TIGR03135 316058010531 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 316058010532 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058010533 acyl-activating enzyme (AAE) consensus motif; other site 316058010534 CoA binding site [chemical binding]; other site 316058010535 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 316058010536 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 316058010537 malonate decarboxylase acyl carrier protein; Region: malonate_delta; TIGR03130 316058010538 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 316058010539 Coenzyme A transferase; Region: CoA_trans; cl17247 316058010540 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 316058010541 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 316058010542 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 316058010543 Na+-transporting malonate decarboxylase, carboxybiotin decarboxylase subunit; Region: malonate_biotin; TIGR03136 316058010544 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 316058010545 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 316058010546 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 316058010547 putative [4Fe-4S] binding site [ion binding]; other site 316058010548 putative molybdopterin cofactor binding site [chemical binding]; other site 316058010549 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 316058010550 putative molybdopterin cofactor binding site; other site 316058010551 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 316058010552 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316058010553 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058010554 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058010555 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058010556 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058010557 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 316058010558 active site 316058010559 DNA binding site [nucleotide binding] 316058010560 Int/Topo IB signature motif; other site 316058010561 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 316058010562 nucleotide binding site [chemical binding]; other site 316058010563 polymerase nucleotide-binding site; other site 316058010564 primase nucleotide-binding site [nucleotide binding]; other site 316058010565 DNA-binding residues [nucleotide binding]; DNA binding site 316058010566 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 316058010567 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 316058010568 cheY-homologous receiver domain; Region: REC; smart00448 316058010569 active site 316058010570 phosphorylation site [posttranslational modification] 316058010571 intermolecular recognition site; other site 316058010572 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 316058010573 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 316058010574 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 316058010575 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 316058010576 Catalytic site; other site 316058010577 Autoinducer synthetase; Region: Autoind_synth; cl17404 316058010578 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 316058010579 Autoinducer binding domain; Region: Autoind_bind; pfam03472 316058010580 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 316058010581 DNA binding residues [nucleotide binding] 316058010582 dimerization interface [polypeptide binding]; other site 316058010583 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 316058010584 additional DNA contacts [nucleotide binding]; other site 316058010585 mismatch recognition site; other site 316058010586 active site 316058010587 zinc binding site [ion binding]; other site 316058010588 DNA intercalation site [nucleotide binding]; other site 316058010589 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 316058010590 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 316058010591 cofactor binding site; other site 316058010592 DNA binding site [nucleotide binding] 316058010593 substrate interaction site [chemical binding]; other site 316058010594 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 316058010595 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 316058010596 DctM-like transporters; Region: DctM; pfam06808 316058010597 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 316058010598 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 316058010599 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 316058010600 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 316058010601 2-isopropylmalate synthase; Validated; Region: PRK00915 316058010602 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 316058010603 active site 316058010604 catalytic residues [active] 316058010605 metal binding site [ion binding]; metal-binding site 316058010606 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 316058010607 biotin synthase; Region: bioB; TIGR00433 316058010608 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 316058010609 FeS/SAM binding site; other site 316058010610 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 316058010611 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 316058010612 NMT1-like family; Region: NMT1_2; pfam13379 316058010613 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 316058010614 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058010615 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 316058010616 dimer interface [polypeptide binding]; other site 316058010617 conserved gate region; other site 316058010618 ABC-ATPase subunit interface; other site 316058010619 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316058010620 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316058010621 Walker A/P-loop; other site 316058010622 ATP binding site [chemical binding]; other site 316058010623 Q-loop/lid; other site 316058010624 ABC transporter signature motif; other site 316058010625 Walker B; other site 316058010626 D-loop; other site 316058010627 H-loop/switch region; other site 316058010628 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 316058010629 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058010630 Walker A/P-loop; other site 316058010631 ATP binding site [chemical binding]; other site 316058010632 Q-loop/lid; other site 316058010633 ABC transporter signature motif; other site 316058010634 Walker B; other site 316058010635 D-loop; other site 316058010636 H-loop/switch region; other site 316058010637 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 316058010638 dimer interface [polypeptide binding]; other site 316058010639 conserved gate region; other site 316058010640 ABC-ATPase subunit interface; other site 316058010641 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 316058010642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058010643 short chain dehydrogenase; Provisional; Region: PRK06914 316058010644 NAD(P) binding site [chemical binding]; other site 316058010645 active site 316058010646 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 316058010647 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058010648 putative ligand binding site [chemical binding]; other site 316058010649 transcriptional regulator NanR; Provisional; Region: PRK03837 316058010650 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316058010651 DNA-binding site [nucleotide binding]; DNA binding site 316058010652 FCD domain; Region: FCD; pfam07729 316058010653 ketol-acid reductoisomerase; Provisional; Region: PRK05479 316058010654 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 316058010655 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 316058010656 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 316058010657 EamA-like transporter family; Region: EamA; pfam00892 316058010658 Protein required for attachment to host cells; Region: Host_attach; pfam10116 316058010659 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 316058010660 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 316058010661 putative valine binding site [chemical binding]; other site 316058010662 dimer interface [polypeptide binding]; other site 316058010663 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 316058010664 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 316058010665 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316058010666 PYR/PP interface [polypeptide binding]; other site 316058010667 dimer interface [polypeptide binding]; other site 316058010668 TPP binding site [chemical binding]; other site 316058010669 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316058010670 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 316058010671 TPP-binding site [chemical binding]; other site 316058010672 dimer interface [polypeptide binding]; other site 316058010673 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 316058010674 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 316058010675 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 316058010676 Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like; Region: HAD-SF-IB; TIGR01488 316058010677 HerA helicase [Replication, recombination, and repair]; Region: COG0433 316058010678 Domain of unknown function DUF87; Region: DUF87; pfam01935 316058010679 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 316058010680 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 316058010681 MgtC family; Region: MgtC; pfam02308 316058010682 Putative ParB-like nuclease; Region: ParBc_2; cl17538 316058010683 acyl carrier protein; Provisional; Region: PRK06508 316058010684 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases [Lipid metabolism]; Region: FabA; COG0764 316058010685 active site 2 [active] 316058010686 active site 1 [active] 316058010687 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 316058010688 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 316058010689 active site 316058010690 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 316058010691 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 316058010692 dimer interface [polypeptide binding]; other site 316058010693 active site 316058010694 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 316058010695 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 316058010696 putative NAD(P) binding site [chemical binding]; other site 316058010697 structural Zn binding site [ion binding]; other site 316058010698 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 316058010699 putative acyl-acceptor binding pocket; other site 316058010700 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 316058010701 B12 binding site [chemical binding]; other site 316058010702 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 316058010703 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 316058010704 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316058010705 hypothetical protein; Provisional; Region: PRK08912 316058010706 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 316058010707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058010708 homodimer interface [polypeptide binding]; other site 316058010709 catalytic residue [active] 316058010710 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 316058010711 active site residue [active] 316058010712 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 316058010713 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 316058010714 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316058010715 ligand binding site [chemical binding]; other site 316058010716 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 316058010717 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 316058010718 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 316058010719 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 316058010720 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 316058010721 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 316058010722 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 316058010723 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316058010724 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 316058010725 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 316058010726 Walker A/P-loop; other site 316058010727 ATP binding site [chemical binding]; other site 316058010728 Q-loop/lid; other site 316058010729 ABC transporter signature motif; other site 316058010730 Walker B; other site 316058010731 D-loop; other site 316058010732 H-loop/switch region; other site 316058010733 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 316058010734 Cytochrome c; Region: Cytochrom_C; pfam00034 316058010735 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 316058010736 Cytochrome c; Region: Cytochrom_C; pfam00034 316058010737 Cytochrome c [Energy production and conversion]; Region: COG3258 316058010738 Cytochrome c; Region: Cytochrom_C; pfam00034 316058010739 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 316058010740 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 316058010741 active site 316058010742 catalytic residues [active] 316058010743 metal binding site [ion binding]; metal-binding site 316058010744 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 316058010745 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 316058010746 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316058010747 Coenzyme A binding pocket [chemical binding]; other site 316058010748 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 316058010749 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 316058010750 active site 316058010751 HIGH motif; other site 316058010752 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 316058010753 KMSKS motif; other site 316058010754 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 316058010755 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 316058010756 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316058010757 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 316058010758 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 316058010759 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316058010760 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 316058010761 DNA binding residues [nucleotide binding] 316058010762 dimerization interface [polypeptide binding]; other site 316058010763 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 316058010764 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 316058010765 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 316058010766 NAD synthetase; Provisional; Region: PRK13981 316058010767 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 316058010768 multimer interface [polypeptide binding]; other site 316058010769 active site 316058010770 catalytic triad [active] 316058010771 protein interface 1 [polypeptide binding]; other site 316058010772 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 316058010773 homodimer interface [polypeptide binding]; other site 316058010774 NAD binding pocket [chemical binding]; other site 316058010775 ATP binding pocket [chemical binding]; other site 316058010776 Mg binding site [ion binding]; other site 316058010777 active-site loop [active] 316058010778 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 316058010779 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 316058010780 glutathione reductase; Validated; Region: PRK06116 316058010781 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316058010782 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316058010783 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 316058010784 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 316058010785 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 316058010786 tetramer (dimer of dimers) interface [polypeptide binding]; other site 316058010787 active site 316058010788 dimer interface [polypeptide binding]; other site 316058010789 phosphoglycolate phosphatase; Provisional; Region: PRK13222 316058010790 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 316058010791 motif II; other site 316058010792 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 316058010793 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 316058010794 FeS/SAM binding site; other site 316058010795 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 316058010796 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 316058010797 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 316058010798 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 316058010799 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 316058010800 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 316058010801 Domain of unknown function DUF59; Region: DUF59; pfam01883 316058010802 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 316058010803 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 316058010804 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 316058010805 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058010806 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 316058010807 dimer interface [polypeptide binding]; other site 316058010808 phosphorylation site [posttranslational modification] 316058010809 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 316058010810 ATP binding site [chemical binding]; other site 316058010811 Mg2+ binding site [ion binding]; other site 316058010812 G-X-G motif; other site 316058010813 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 316058010814 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 316058010815 catalytic motif [active] 316058010816 Catalytic residue [active] 316058010817 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 316058010818 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316058010819 cyclase homology domain; Region: CHD; cd07302 316058010820 nucleotidyl binding site; other site 316058010821 metal binding site [ion binding]; metal-binding site 316058010822 dimer interface [polypeptide binding]; other site 316058010823 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 316058010824 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 316058010825 FMN binding site [chemical binding]; other site 316058010826 active site 316058010827 catalytic residues [active] 316058010828 substrate binding site [chemical binding]; other site 316058010829 manganese transport regulator MntR; Provisional; Region: PRK11050 316058010830 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 316058010831 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 316058010832 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 316058010833 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 316058010834 metal binding site [ion binding]; metal-binding site 316058010835 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 316058010836 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 316058010837 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 316058010838 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 316058010839 ABC-ATPase subunit interface; other site 316058010840 dimer interface [polypeptide binding]; other site 316058010841 putative PBP binding regions; other site 316058010842 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 316058010843 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 316058010844 ABC-ATPase subunit interface; other site 316058010845 dimer interface [polypeptide binding]; other site 316058010846 putative PBP binding regions; other site 316058010847 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 316058010848 nucleophile elbow; other site 316058010849 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 316058010850 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316058010851 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058010852 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316058010853 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058010854 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058010855 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058010856 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058010857 HerA helicase [Replication, recombination, and repair]; Region: COG0433 316058010858 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 316058010859 Walker A motif; other site 316058010860 ATP binding site [chemical binding]; other site 316058010861 Walker B motif; other site 316058010862 ferredoxin-NADP+ reductase; Region: PLN02852 316058010863 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316058010864 Ferredoxin [Energy production and conversion]; Region: COG1146 316058010865 4Fe-4S binding domain; Region: Fer4; pfam00037 316058010866 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 316058010867 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 316058010868 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 316058010869 putative [4Fe-4S] binding site [ion binding]; other site 316058010870 putative molybdopterin cofactor binding site [chemical binding]; other site 316058010871 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 316058010872 molybdopterin cofactor binding site; other site 316058010873 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316058010874 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058010875 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058010876 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 316058010877 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 316058010878 substrate binding site [chemical binding]; other site 316058010879 catalytic Zn binding site [ion binding]; other site 316058010880 NAD binding site [chemical binding]; other site 316058010881 structural Zn binding site [ion binding]; other site 316058010882 dimer interface [polypeptide binding]; other site 316058010883 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 316058010884 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 316058010885 FeS/SAM binding site; other site 316058010886 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 316058010887 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 316058010888 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 316058010889 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 316058010890 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 316058010891 Transcriptional regulators [Transcription]; Region: GntR; COG1802 316058010892 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316058010893 DNA-binding site [nucleotide binding]; DNA binding site 316058010894 FCD domain; Region: FCD; pfam07729 316058010895 formyl-coenzyme A transferase; Provisional; Region: PRK05398 316058010896 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316058010897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 316058010898 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 316058010899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 316058010900 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 316058010901 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 316058010902 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 316058010903 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 316058010904 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 316058010905 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 316058010906 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 316058010907 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 316058010908 FMN binding site [chemical binding]; other site 316058010909 substrate binding site [chemical binding]; other site 316058010910 putative catalytic residue [active] 316058010911 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316058010912 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 316058010913 NAD(P) binding site [chemical binding]; other site 316058010914 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 316058010915 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 316058010916 Cation efflux family; Region: Cation_efflux; cl00316 316058010917 Cation efflux family; Region: Cation_efflux; cl00316 316058010918 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 316058010919 PAS fold; Region: PAS_3; pfam08447 316058010920 putative active site [active] 316058010921 heme pocket [chemical binding]; other site 316058010922 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 316058010923 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 316058010924 dimer interface [polypeptide binding]; other site 316058010925 phosphorylation site [posttranslational modification] 316058010926 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 316058010927 ATP binding site [chemical binding]; other site 316058010928 Mg2+ binding site [ion binding]; other site 316058010929 G-X-G motif; other site 316058010930 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 316058010931 catalytic triad [active] 316058010932 putative active site [active] 316058010933 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 316058010934 Autotransporter beta-domain; Region: Autotransporter; smart00869 316058010935 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316058010936 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058010937 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 316058010938 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 316058010939 metal binding triad; other site 316058010940 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 316058010941 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 316058010942 metal binding triad; other site 316058010943 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 316058010944 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058010945 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 316058010946 dimerization interface [polypeptide binding]; other site 316058010947 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 316058010948 dimer interface [polypeptide binding]; other site 316058010949 phosphorylation site [posttranslational modification] 316058010950 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 316058010951 ATP binding site [chemical binding]; other site 316058010952 Mg2+ binding site [ion binding]; other site 316058010953 G-X-G motif; other site 316058010954 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316058010955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058010956 active site 316058010957 phosphorylation site [posttranslational modification] 316058010958 intermolecular recognition site; other site 316058010959 dimerization interface [polypeptide binding]; other site 316058010960 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 316058010961 DNA binding site [nucleotide binding] 316058010962 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 316058010963 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316058010964 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 316058010965 protein binding site [polypeptide binding]; other site 316058010966 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 316058010967 protein binding site [polypeptide binding]; other site 316058010968 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 316058010969 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 316058010970 catalytic loop [active] 316058010971 iron binding site [ion binding]; other site 316058010972 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 316058010973 diiron binding motif [ion binding]; other site 316058010974 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 316058010975 diiron binding motif [ion binding]; other site 316058010976 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 316058010977 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 316058010978 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 316058010979 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 316058010980 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 316058010981 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 316058010982 binding surface 316058010983 TPR motif; other site 316058010984 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 316058010985 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058010986 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 316058010987 ATP binding site [chemical binding]; other site 316058010988 Mg2+ binding site [ion binding]; other site 316058010989 G-X-G motif; other site 316058010990 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316058010991 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058010992 active site 316058010993 phosphorylation site [posttranslational modification] 316058010994 intermolecular recognition site; other site 316058010995 dimerization interface [polypeptide binding]; other site 316058010996 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 316058010997 DNA binding site [nucleotide binding] 316058010998 Predicted chitinase [General function prediction only]; Region: COG3179 316058010999 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 316058011000 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 316058011001 Putative phage tail protein; Region: Phage-tail_3; pfam13550 316058011002 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 316058011003 NlpC/P60 family; Region: NLPC_P60; cl17555 316058011004 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 316058011005 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 316058011006 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 316058011007 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 316058011008 phage conserved hypothetical protein; Region: phage_TIGR02216 316058011009 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 316058011010 Phage major tail protein 2; Region: Phage_tail_2; cl11463 316058011011 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 316058011012 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 316058011013 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 316058011014 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 316058011015 oligomerization interface [polypeptide binding]; other site 316058011016 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 316058011017 oligomerization interface [polypeptide binding]; other site 316058011018 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 316058011019 active site 316058011020 substrate binding sites [chemical binding]; other site 316058011021 Uncharacterized conserved protein [Function unknown]; Region: COG5323 316058011022 Terminase-like family; Region: Terminase_6; pfam03237 316058011023 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 316058011024 DNA-binding interface [nucleotide binding]; DNA binding site 316058011025 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 316058011026 Ligand Binding Site [chemical binding]; other site 316058011027 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 316058011028 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 316058011029 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 316058011030 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 316058011031 Phage capsid family; Region: Phage_capsid; pfam05065 316058011032 MCM2/3/5 family; Region: MCM; pfam00493 316058011033 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 316058011034 MafB19-like deaminase; Region: MafB19-deam; pfam14437 316058011035 Phage-related protein [Function unknown]; Region: COG4695 316058011036 Phage portal protein; Region: Phage_portal; pfam04860 316058011037 Uncharacterized conserved protein [Function unknown]; Region: COG5323 316058011038 Terminase-like family; Region: Terminase_6; pfam03237 316058011039 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 316058011040 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 316058011041 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 316058011042 putative active site [active] 316058011043 heme pocket [chemical binding]; other site 316058011044 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 316058011045 putative active site [active] 316058011046 heme pocket [chemical binding]; other site 316058011047 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316058011048 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058011049 dimer interface [polypeptide binding]; other site 316058011050 putative CheW interface [polypeptide binding]; other site 316058011051 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 316058011052 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 316058011053 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 316058011054 putative substrate translocation pore; other site 316058011055 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 316058011056 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 316058011057 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 316058011058 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 316058011059 Protein of unknown function (DUF497); Region: DUF497; cl01108 316058011060 Caspase domain; Region: Peptidase_C14; pfam00656 316058011061 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316058011062 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 316058011063 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 316058011064 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 316058011065 N-terminal plug; other site 316058011066 ligand-binding site [chemical binding]; other site 316058011067 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 316058011068 active site 316058011069 hypothetical protein; Provisional; Region: PRK05170 316058011070 Transglycosylase; Region: Transgly; pfam00912 316058011071 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 316058011072 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 316058011073 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 316058011074 Predicted integral membrane protein [Function unknown]; Region: COG5436 316058011075 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 316058011076 heptad repeat 1-heptad repeat 2 region (ectodomain) of the transmembrane subunit of various endogenous retroviruses (ERVs) and infectious retroviruses, including Ebola virus and human immunodeficiency virus type 1 (HIV-1); Region: Ebola_HIV-1-like_HR1-HR2; cl02885 316058011077 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 316058011078 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 316058011079 NodB motif; other site 316058011080 active site 316058011081 catalytic site [active] 316058011082 metal binding site [ion binding]; metal-binding site 316058011083 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 316058011084 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 316058011085 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316058011086 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 316058011087 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 316058011088 putative active site [active] 316058011089 heme pocket [chemical binding]; other site 316058011090 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 316058011091 dimer interface [polypeptide binding]; other site 316058011092 phosphorylation site [posttranslational modification] 316058011093 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 316058011094 ATP binding site [chemical binding]; other site 316058011095 Mg2+ binding site [ion binding]; other site 316058011096 G-X-G motif; other site 316058011097 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 316058011098 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 316058011099 aldolase II superfamily protein; Provisional; Region: PRK07044 316058011100 intersubunit interface [polypeptide binding]; other site 316058011101 active site 316058011102 Zn2+ binding site [ion binding]; other site 316058011103 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316058011104 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058011105 dimer interface [polypeptide binding]; other site 316058011106 putative CheW interface [polypeptide binding]; other site 316058011107 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 316058011108 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 316058011109 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 316058011110 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 316058011111 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 316058011112 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 316058011113 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 316058011114 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 316058011115 N-terminal plug; other site 316058011116 ligand-binding site [chemical binding]; other site 316058011117 hypothetical protein; Validated; Region: PRK09104 316058011118 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 316058011119 metal binding site [ion binding]; metal-binding site 316058011120 putative dimer interface [polypeptide binding]; other site 316058011121 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 316058011122 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 316058011123 SIR2-like domain; Region: SIR2_2; pfam13289 316058011124 dihydropteroate synthase; Region: DHPS; TIGR01496 316058011125 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 316058011126 substrate binding pocket [chemical binding]; other site 316058011127 dimer interface [polypeptide binding]; other site 316058011128 inhibitor binding site; inhibition site 316058011129 Dihydroneopterin aldolase; Region: FolB; pfam02152 316058011130 active site 316058011131 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 316058011132 catalytic center binding site [active] 316058011133 ATP binding site [chemical binding]; other site 316058011134 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 316058011135 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 316058011136 heterodimer interface [polypeptide binding]; other site 316058011137 substrate interaction site [chemical binding]; other site 316058011138 Uncharacterized conserved protein [Function unknown]; Region: COG3791 316058011139 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 316058011140 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 316058011141 active site 316058011142 substrate binding site [chemical binding]; other site 316058011143 coenzyme B12 binding site [chemical binding]; other site 316058011144 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 316058011145 B12 binding site [chemical binding]; other site 316058011146 cobalt ligand [ion binding]; other site 316058011147 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 316058011148 active site 316058011149 NTP binding site [chemical binding]; other site 316058011150 metal binding triad [ion binding]; metal-binding site 316058011151 antibiotic binding site [chemical binding]; other site 316058011152 Protein of unknown function DUF86; Region: DUF86; pfam01934 316058011153 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 316058011154 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 316058011155 membrane ATPase/protein kinase; Provisional; Region: PRK09435 316058011156 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 316058011157 Walker A; other site 316058011158 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 316058011159 G4 box; other site 316058011160 G5 box; other site 316058011161 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; cl00237 316058011162 putative substrate binding pocket [chemical binding]; other site 316058011163 AC domain interface; other site 316058011164 catalytic triad [active] 316058011165 AB domain interface; other site 316058011166 interchain disulfide; other site 316058011167 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 316058011168 putative cofactor-binding repeat; Region: RR_fam_repeat; TIGR03807 316058011169 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 316058011170 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 316058011171 dimerization interface [polypeptide binding]; other site 316058011172 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058011173 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 316058011174 dimer interface [polypeptide binding]; other site 316058011175 putative CheW interface [polypeptide binding]; other site 316058011176 TIGR03809 family protein; Region: TIGR03809 316058011177 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 316058011178 active site 316058011179 catalytic triad [active] 316058011180 RNA polymerase sigma factor; Provisional; Region: PRK12515 316058011181 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058011182 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 316058011183 DNA binding residues [nucleotide binding] 316058011184 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058011185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058011186 metal binding site [ion binding]; metal-binding site 316058011187 active site 316058011188 I-site; other site 316058011189 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 316058011190 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 316058011191 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 316058011192 N-terminal plug; other site 316058011193 ligand-binding site [chemical binding]; other site 316058011194 Protein of unknown function (DUF1644); Region: DUF1644; pfam07800 316058011195 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 316058011196 RNA polymerase sigma factor; Provisional; Region: PRK12512 316058011197 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058011198 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 316058011199 DNA binding residues [nucleotide binding] 316058011200 enoyl-CoA hydratase; Provisional; Region: PRK05862 316058011201 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 316058011202 substrate binding site [chemical binding]; other site 316058011203 oxyanion hole (OAH) forming residues; other site 316058011204 trimer interface [polypeptide binding]; other site 316058011205 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 316058011206 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 316058011207 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 316058011208 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 316058011209 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058011210 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316058011211 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316058011212 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 316058011213 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 316058011214 putative active site [active] 316058011215 putative PHP Thumb interface [polypeptide binding]; other site 316058011216 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 316058011217 generic binding surface I; other site 316058011218 generic binding surface II; other site 316058011219 DNA Polymerase Y-family; Region: PolY_like; cd03468 316058011220 active site 316058011221 DNA binding site [nucleotide binding] 316058011222 Uncharacterized conserved protein [Function unknown]; Region: COG4544 316058011223 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 316058011224 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058011225 putative ligand binding site [chemical binding]; other site 316058011226 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 316058011227 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 316058011228 MOFRL family; Region: MOFRL; pfam05161 316058011229 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 316058011230 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316058011231 cyclase homology domain; Region: CHD; cd07302 316058011232 nucleotidyl binding site; other site 316058011233 metal binding site [ion binding]; metal-binding site 316058011234 dimer interface [polypeptide binding]; other site 316058011235 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 316058011236 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 316058011237 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 316058011238 TrkA-N domain; Region: TrkA_N; pfam02254 316058011239 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316058011240 MarR family; Region: MarR; pfam01047 316058011241 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058011242 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 316058011243 TM-ABC transporter signature motif; other site 316058011244 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058011245 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 316058011246 TM-ABC transporter signature motif; other site 316058011247 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058011248 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058011249 Walker A/P-loop; other site 316058011250 ATP binding site [chemical binding]; other site 316058011251 Q-loop/lid; other site 316058011252 ABC transporter signature motif; other site 316058011253 Walker B; other site 316058011254 D-loop; other site 316058011255 H-loop/switch region; other site 316058011256 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058011257 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058011258 Walker A/P-loop; other site 316058011259 ATP binding site [chemical binding]; other site 316058011260 Q-loop/lid; other site 316058011261 ABC transporter signature motif; other site 316058011262 Walker B; other site 316058011263 D-loop; other site 316058011264 H-loop/switch region; other site 316058011265 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058011266 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058011267 metal binding site [ion binding]; metal-binding site 316058011268 active site 316058011269 I-site; other site 316058011270 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316058011271 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 316058011272 putative ligand binding site [chemical binding]; other site 316058011273 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 316058011274 active site 316058011275 feruloyl-CoA synthase; Reviewed; Region: PRK08180 316058011276 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 316058011277 acyl-activating enzyme (AAE) consensus motif; other site 316058011278 putative AMP binding site [chemical binding]; other site 316058011279 putative active site [active] 316058011280 putative CoA binding site [chemical binding]; other site 316058011281 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 316058011282 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 316058011283 substrate binding site [chemical binding]; other site 316058011284 oxyanion hole (OAH) forming residues; other site 316058011285 trimer interface [polypeptide binding]; other site 316058011286 hypothetical protein; Provisional; Region: PRK00872 316058011287 DctM-like transporters; Region: DctM; pfam06808 316058011288 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 316058011289 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 316058011290 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 316058011291 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 316058011292 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316058011293 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 316058011294 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 316058011295 CoenzymeA binding site [chemical binding]; other site 316058011296 subunit interaction site [polypeptide binding]; other site 316058011297 PHB binding site; other site 316058011298 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 316058011299 amidase; Provisional; Region: PRK07056 316058011300 Amidase; Region: Amidase; cl11426 316058011301 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 316058011302 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 316058011303 DUF35 OB-fold domain; Region: DUF35; pfam01796 316058011304 thiolase; Provisional; Region: PRK06158 316058011305 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 316058011306 active site 316058011307 short chain dehydrogenase; Provisional; Region: PRK07791 316058011308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058011309 NAD(P) binding site [chemical binding]; other site 316058011310 active site 316058011311 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 316058011312 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316058011313 ligand binding site [chemical binding]; other site 316058011314 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 316058011315 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 316058011316 Predicted membrane protein [Function unknown]; Region: COG2855 316058011317 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 316058011318 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058011319 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 316058011320 putative dimerization interface [polypeptide binding]; other site 316058011321 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 316058011322 HAMP domain; Region: HAMP; pfam00672 316058011323 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 316058011324 dimer interface [polypeptide binding]; other site 316058011325 phosphorylation site [posttranslational modification] 316058011326 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 316058011327 ATP binding site [chemical binding]; other site 316058011328 G-X-G motif; other site 316058011329 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058011330 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058011331 active site 316058011332 phosphorylation site [posttranslational modification] 316058011333 intermolecular recognition site; other site 316058011334 dimerization interface [polypeptide binding]; other site 316058011335 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12406 316058011336 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058011337 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316058011338 acyl-activating enzyme (AAE) consensus motif; other site 316058011339 putative AMP binding site [chemical binding]; other site 316058011340 putative active site [active] 316058011341 putative CoA binding site [chemical binding]; other site 316058011342 enoyl-CoA hydratase; Provisional; Region: PRK07509 316058011343 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 316058011344 substrate binding site [chemical binding]; other site 316058011345 oxyanion hole (OAH) forming residues; other site 316058011346 trimer interface [polypeptide binding]; other site 316058011347 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 316058011348 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 316058011349 short chain dehydrogenase; Provisional; Region: PRK07677 316058011350 NAD(P) binding site [chemical binding]; other site 316058011351 substrate binding site [chemical binding]; other site 316058011352 homotetramer interface [polypeptide binding]; other site 316058011353 active site 316058011354 homodimer interface [polypeptide binding]; other site 316058011355 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 316058011356 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058011357 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316058011358 acyl-activating enzyme (AAE) consensus motif; other site 316058011359 acyl-activating enzyme (AAE) consensus motif; other site 316058011360 putative AMP binding site [chemical binding]; other site 316058011361 putative active site [active] 316058011362 putative CoA binding site [chemical binding]; other site 316058011363 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058011364 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 316058011365 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316058011366 active site 316058011367 enoyl-CoA hydratase; Provisional; Region: PRK06494 316058011368 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 316058011369 substrate binding site [chemical binding]; other site 316058011370 oxyanion hole (OAH) forming residues; other site 316058011371 trimer interface [polypeptide binding]; other site 316058011372 Phosphotransferase enzyme family; Region: APH; pfam01636 316058011373 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 316058011374 putative active site [active] 316058011375 putative substrate binding site [chemical binding]; other site 316058011376 ATP binding site [chemical binding]; other site 316058011377 enoyl-CoA hydratase; Provisional; Region: PRK05981 316058011378 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 316058011379 substrate binding site [chemical binding]; other site 316058011380 oxyanion hole (OAH) forming residues; other site 316058011381 trimer interface [polypeptide binding]; other site 316058011382 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316058011383 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058011384 NAD(P) binding site [chemical binding]; other site 316058011385 active site 316058011386 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 316058011387 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 316058011388 active site 316058011389 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316058011390 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058011391 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 316058011392 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 316058011393 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 316058011394 HAMP domain; Region: HAMP; pfam00672 316058011395 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058011396 dimer interface [polypeptide binding]; other site 316058011397 putative CheW interface [polypeptide binding]; other site 316058011398 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 316058011399 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316058011400 MarR family; Region: MarR_2; pfam12802 316058011401 MarR family; Region: MarR_2; cl17246 316058011402 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316058011403 Cytochrome P450; Region: p450; cl12078 316058011404 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 316058011405 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 316058011406 catalytic loop [active] 316058011407 iron binding site [ion binding]; other site 316058011408 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058011409 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 316058011410 putative ligand binding site [chemical binding]; other site 316058011411 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058011412 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058011413 Walker A/P-loop; other site 316058011414 ATP binding site [chemical binding]; other site 316058011415 Q-loop/lid; other site 316058011416 ABC transporter signature motif; other site 316058011417 Walker B; other site 316058011418 D-loop; other site 316058011419 H-loop/switch region; other site 316058011420 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058011421 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058011422 Walker A/P-loop; other site 316058011423 ATP binding site [chemical binding]; other site 316058011424 Q-loop/lid; other site 316058011425 ABC transporter signature motif; other site 316058011426 Walker B; other site 316058011427 D-loop; other site 316058011428 H-loop/switch region; other site 316058011429 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058011430 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 316058011431 TM-ABC transporter signature motif; other site 316058011432 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 316058011433 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058011434 TM-ABC transporter signature motif; other site 316058011435 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316058011436 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 316058011437 putative ligand binding site [chemical binding]; other site 316058011438 hypothetical protein; Provisional; Region: PRK05463 316058011439 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058011440 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058011441 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 316058011442 dimerization interface [polypeptide binding]; other site 316058011443 allantoate amidohydrolase; Reviewed; Region: PRK09290 316058011444 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 316058011445 active site 316058011446 metal binding site [ion binding]; metal-binding site 316058011447 dimer interface [polypeptide binding]; other site 316058011448 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 316058011449 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 316058011450 NAD binding site [chemical binding]; other site 316058011451 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 316058011452 tartrate dehydrogenase; Region: TTC; TIGR02089 316058011453 beta-galactosidase; Region: BGL; TIGR03356 316058011454 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 316058011455 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 316058011456 amidase; Provisional; Region: PRK07486 316058011457 Amidase; Region: Amidase; pfam01425 316058011458 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 316058011459 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 316058011460 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316058011461 Cytochrome P450; Region: p450; cl12078 316058011462 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 316058011463 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 316058011464 Moco binding site; other site 316058011465 metal coordination site [ion binding]; other site 316058011466 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 316058011467 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 316058011468 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058011469 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 316058011470 acyl-activating enzyme (AAE) consensus motif; other site 316058011471 AMP binding site [chemical binding]; other site 316058011472 active site 316058011473 CoA binding site [chemical binding]; other site 316058011474 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 316058011475 CoenzymeA binding site [chemical binding]; other site 316058011476 subunit interaction site [polypeptide binding]; other site 316058011477 PHB binding site; other site 316058011478 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 316058011479 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 316058011480 substrate binding site [chemical binding]; other site 316058011481 dimer interface [polypeptide binding]; other site 316058011482 NADP binding site [chemical binding]; other site 316058011483 catalytic residues [active] 316058011484 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 316058011485 substrate binding site [chemical binding]; other site 316058011486 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 316058011487 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 316058011488 FAD binding pocket [chemical binding]; other site 316058011489 FAD binding motif [chemical binding]; other site 316058011490 phosphate binding motif [ion binding]; other site 316058011491 beta-alpha-beta structure motif; other site 316058011492 NAD(p) ribose binding residues [chemical binding]; other site 316058011493 NAD binding pocket [chemical binding]; other site 316058011494 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 316058011495 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 316058011496 catalytic loop [active] 316058011497 iron binding site [ion binding]; other site 316058011498 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 316058011499 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 316058011500 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 316058011501 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 316058011502 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 316058011503 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 316058011504 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058011505 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058011506 Phasin protein; Region: Phasin_2; cl11491 316058011507 Membrane fusogenic activity; Region: BMFP; cl01115 316058011508 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316058011509 Cytochrome P450; Region: p450; pfam00067 316058011510 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 316058011511 Flavodoxin; Region: Flavodoxin_1; pfam00258 316058011512 These bifunctional proteins fuse N-terminal cytochrome p450 with a cytochrome p450 reductase (CYPOR). NADPH cytochrome p450 reductase serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine...; Region: bifunctional_CYPOR; cd06206 316058011513 FAD binding pocket [chemical binding]; other site 316058011514 FAD binding motif [chemical binding]; other site 316058011515 catalytic residues [active] 316058011516 NAD binding pocket [chemical binding]; other site 316058011517 phosphate binding motif [ion binding]; other site 316058011518 beta-alpha-beta structure motif; other site 316058011519 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316058011520 PGAP1-like protein; Region: PGAP1; pfam07819 316058011521 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 316058011522 hydroxyglutarate oxidase; Provisional; Region: PRK11728 316058011523 multidrug efflux protein; Reviewed; Region: PRK09579 316058011524 Protein export membrane protein; Region: SecD_SecF; cl14618 316058011525 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316058011526 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058011527 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058011528 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058011529 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058011530 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316058011531 Cytochrome P450; Region: p450; cl12078 316058011532 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 316058011533 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316058011534 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 316058011535 active site 316058011536 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 316058011537 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 316058011538 substrate binding site [chemical binding]; other site 316058011539 ATP binding site [chemical binding]; other site 316058011540 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 316058011541 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 316058011542 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316058011543 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 316058011544 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 316058011545 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 316058011546 Ligand binding site; other site 316058011547 Putative Catalytic site; other site 316058011548 DXD motif; other site 316058011549 Predicted membrane protein [Function unknown]; Region: COG2246 316058011550 GtrA-like protein; Region: GtrA; pfam04138 316058011551 Protein of unknown function DUF72; Region: DUF72; pfam01904 316058011552 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316058011553 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316058011554 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 316058011555 trimer interface [polypeptide binding]; other site 316058011556 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 316058011557 trimer interface [polypeptide binding]; other site 316058011558 cyclase homology domain; Region: CHD; cd07302 316058011559 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316058011560 nucleotidyl binding site; other site 316058011561 metal binding site [ion binding]; metal-binding site 316058011562 dimer interface [polypeptide binding]; other site 316058011563 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316058011564 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 316058011565 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 316058011566 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316058011567 Walker A/P-loop; other site 316058011568 ATP binding site [chemical binding]; other site 316058011569 Q-loop/lid; other site 316058011570 ABC transporter signature motif; other site 316058011571 Walker B; other site 316058011572 D-loop; other site 316058011573 H-loop/switch region; other site 316058011574 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316058011575 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058011576 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058011577 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058011578 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058011579 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 316058011580 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 316058011581 MPT binding site; other site 316058011582 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 316058011583 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 316058011584 Ligand binding site; other site 316058011585 metal-binding site 316058011586 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 316058011587 XdhC Rossmann domain; Region: XdhC_C; pfam13478 316058011588 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 316058011589 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 316058011590 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 316058011591 metal ion-dependent adhesion site (MIDAS); other site 316058011592 MoxR-like ATPases [General function prediction only]; Region: COG0714 316058011593 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 316058011594 Walker A motif; other site 316058011595 ATP binding site [chemical binding]; other site 316058011596 Walker B motif; other site 316058011597 arginine finger; other site 316058011598 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 316058011599 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 316058011600 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 316058011601 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 316058011602 catalytic loop [active] 316058011603 iron binding site [ion binding]; other site 316058011604 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316058011605 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 316058011606 putative hydrophobic ligand binding site [chemical binding]; other site 316058011607 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058011608 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 316058011609 TM-ABC transporter signature motif; other site 316058011610 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 316058011611 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 316058011612 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 316058011613 TM-ABC transporter signature motif; other site 316058011614 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058011615 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058011616 Walker A/P-loop; other site 316058011617 ATP binding site [chemical binding]; other site 316058011618 Q-loop/lid; other site 316058011619 ABC transporter signature motif; other site 316058011620 Walker B; other site 316058011621 D-loop; other site 316058011622 H-loop/switch region; other site 316058011623 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058011624 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058011625 Walker A/P-loop; other site 316058011626 ATP binding site [chemical binding]; other site 316058011627 Q-loop/lid; other site 316058011628 ABC transporter signature motif; other site 316058011629 Walker B; other site 316058011630 D-loop; other site 316058011631 H-loop/switch region; other site 316058011632 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316058011633 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 316058011634 dimerization interface [polypeptide binding]; other site 316058011635 ligand binding site [chemical binding]; other site 316058011636 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 316058011637 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 316058011638 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 316058011639 putative active site pocket [active] 316058011640 cleavage site 316058011641 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 316058011642 EF-hand domain pair; Region: EF_hand_5; pfam13499 316058011643 Ca2+ binding site [ion binding]; other site 316058011644 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 316058011645 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 316058011646 substrate binding site [chemical binding]; other site 316058011647 hexamer interface [polypeptide binding]; other site 316058011648 metal binding site [ion binding]; metal-binding site 316058011649 adenylosuccinate lyase; Provisional; Region: PRK07492 316058011650 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 316058011651 tetramer interface [polypeptide binding]; other site 316058011652 active site 316058011653 glutamate racemase; Provisional; Region: PRK00865 316058011654 Cupin domain; Region: Cupin_2; pfam07883 316058011655 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 316058011656 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 316058011657 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 316058011658 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 316058011659 RNA binding surface [nucleotide binding]; other site 316058011660 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 316058011661 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 316058011662 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058011663 catalytic residue [active] 316058011664 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 316058011665 Beta-lactamase; Region: Beta-lactamase; pfam00144 316058011666 Macro domain, 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 polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 316058011667 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 316058011668 putative GSH binding site [chemical binding]; other site 316058011669 catalytic residues [active] 316058011670 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 316058011671 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 316058011672 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 316058011673 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 316058011674 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; pfam06772 316058011675 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 316058011676 Domain of unknown function (DUF427); Region: DUF427; pfam04248 316058011677 Acyltransferase family; Region: Acyl_transf_3; pfam01757 316058011678 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 316058011679 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 316058011680 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 316058011681 dimerization interface [polypeptide binding]; other site 316058011682 ATP binding site [chemical binding]; other site 316058011683 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 316058011684 dimerization interface [polypeptide binding]; other site 316058011685 ATP binding site [chemical binding]; other site 316058011686 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 316058011687 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 316058011688 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058011689 catalytic residue [active] 316058011690 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 316058011691 CoenzymeA binding site [chemical binding]; other site 316058011692 subunit interaction site [polypeptide binding]; other site 316058011693 PHB binding site; other site 316058011694 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 316058011695 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 316058011696 putative active site [active] 316058011697 catalytic triad [active] 316058011698 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 316058011699 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 316058011700 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 316058011701 ATP binding site [chemical binding]; other site 316058011702 active site 316058011703 substrate binding site [chemical binding]; other site 316058011704 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 316058011705 Virulence protein [General function prediction only]; Region: COG3943 316058011706 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 316058011707 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 316058011708 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 316058011709 tetramer interface [polypeptide binding]; other site 316058011710 active site 316058011711 Mg2+/Mn2+ binding site [ion binding]; other site 316058011712 Fic/DOC family; Region: Fic; pfam02661 316058011713 hypothetical protein; Region: PHA00547 316058011714 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 316058011715 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 316058011716 oligomeric interface; other site 316058011717 putative active site [active] 316058011718 homodimer interface [polypeptide binding]; other site 316058011719 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 316058011720 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 316058011721 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 316058011722 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 316058011723 putative active site [active] 316058011724 isocitrate dehydrogenase; Validated; Region: PRK08299 316058011725 putative cation:proton antiport protein; Provisional; Region: PRK10669 316058011726 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 316058011727 TrkA-N domain; Region: TrkA_N; pfam02254 316058011728 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 316058011729 TrkA-N domain; Region: TrkA_N; pfam02254 316058011730 von Hippel-Landau (pVHL) tumor suppressor protein; Region: pVHL; cl03381 316058011731 pVHL-HIF-1alpha interaction [polypeptide binding]; other site 316058011732 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316058011733 Coenzyme A binding pocket [chemical binding]; other site 316058011734 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 316058011735 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 316058011736 motif 1; other site 316058011737 active site 316058011738 motif 2; other site 316058011739 motif 3; other site 316058011740 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 316058011741 DHHA1 domain; Region: DHHA1; pfam02272 316058011742 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 316058011743 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 316058011744 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 316058011745 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 316058011746 lipoyl attachment site [posttranslational modification]; other site 316058011747 glycine dehydrogenase; Provisional; Region: PRK05367 316058011748 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 316058011749 tetramer interface [polypeptide binding]; other site 316058011750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058011751 catalytic residue [active] 316058011752 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 316058011753 tetramer interface [polypeptide binding]; other site 316058011754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058011755 catalytic residue [active] 316058011756 recombinase A; Provisional; Region: recA; PRK09354 316058011757 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 316058011758 hexamer interface [polypeptide binding]; other site 316058011759 Walker A motif; other site 316058011760 ATP binding site [chemical binding]; other site 316058011761 Walker B motif; other site 316058011762 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058011763 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058011764 active site 316058011765 phosphorylation site [posttranslational modification] 316058011766 intermolecular recognition site; other site 316058011767 dimerization interface [polypeptide binding]; other site 316058011768 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058011769 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 316058011770 ligand binding site [chemical binding]; other site 316058011771 flexible hinge region; other site 316058011772 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316058011773 non-specific DNA interactions [nucleotide binding]; other site 316058011774 DNA binding site [nucleotide binding] 316058011775 sequence specific DNA binding site [nucleotide binding]; other site 316058011776 putative cAMP binding site [chemical binding]; other site 316058011777 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 316058011778 CoenzymeA binding site [chemical binding]; other site 316058011779 subunit interaction site [polypeptide binding]; other site 316058011780 PHB binding site; other site 316058011781 PilZ domain; Region: PilZ; pfam07238 316058011782 Uncharacterized protein containing caspase domain [General function prediction only]; Region: COG4249 316058011783 Caspase domain; Region: Peptidase_C14; pfam00656 316058011784 active site 316058011785 substrate pocket [chemical binding]; other site 316058011786 proteolytic cleavage site; other site 316058011787 dimer interface [polypeptide binding]; other site 316058011788 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 316058011789 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 316058011790 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 316058011791 catalytic residues [active] 316058011792 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 316058011793 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 316058011794 non-specific DNA binding site [nucleotide binding]; other site 316058011795 salt bridge; other site 316058011796 sequence-specific DNA binding site [nucleotide binding]; other site 316058011797 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 316058011798 Intracellular septation protein A; Region: IspA; cl01098 316058011799 fumarate hydratase; Provisional; Region: PRK15389 316058011800 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 316058011801 Fumarase C-terminus; Region: Fumerase_C; pfam05683 316058011802 Protein of unknown function (DUF497); Region: DUF497; pfam04365 316058011803 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 316058011804 glutathione s-transferase; Provisional; Region: PTZ00057 316058011805 GSH binding site (G-site) [chemical binding]; other site 316058011806 C-terminal domain interface [polypeptide binding]; other site 316058011807 dimer interface [polypeptide binding]; other site 316058011808 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 316058011809 dimer interface [polypeptide binding]; other site 316058011810 N-terminal domain interface [polypeptide binding]; other site 316058011811 substrate binding pocket (H-site) [chemical binding]; other site 316058011812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 316058011813 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316058011814 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058011815 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058011816 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 316058011817 putative effector binding pocket; other site 316058011818 putative dimerization interface [polypeptide binding]; other site 316058011819 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 316058011820 PAS domain; Region: PAS_9; pfam13426 316058011821 putative active site [active] 316058011822 heme pocket [chemical binding]; other site 316058011823 PAS fold; Region: PAS_4; pfam08448 316058011824 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058011825 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 316058011826 dimer interface [polypeptide binding]; other site 316058011827 phosphorylation site [posttranslational modification] 316058011828 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 316058011829 ATP binding site [chemical binding]; other site 316058011830 Mg2+ binding site [ion binding]; other site 316058011831 G-X-G motif; other site 316058011832 Response regulator receiver domain; Region: Response_reg; pfam00072 316058011833 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058011834 active site 316058011835 phosphorylation site [posttranslational modification] 316058011836 intermolecular recognition site; other site 316058011837 dimerization interface [polypeptide binding]; other site 316058011838 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 316058011839 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 316058011840 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 316058011841 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 316058011842 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00732 316058011843 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 316058011844 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316058011845 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 316058011846 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 316058011847 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 316058011848 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 316058011849 Uncharacterized conserved protein [Function unknown]; Region: COG3334 316058011850 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 316058011851 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 316058011852 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK12785 316058011853 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 316058011854 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316058011855 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 316058011856 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 316058011857 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316058011858 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316058011859 SAF-like; Region: SAF_2; pfam13144 316058011860 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 316058011861 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 316058011862 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 316058011863 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 316058011864 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 316058011865 flagellar assembly regulator FliX; Reviewed; Region: fliX; PRK12787 316058011866 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 316058011867 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 316058011868 chemotactic signal-response protein CheL; Provisional; Region: PRK12790 316058011869 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 316058011870 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK12791 316058011871 flagellin; Provisional; Region: PRK14708 316058011872 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 316058011873 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 316058011874 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 316058011875 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 316058011876 binding surface 316058011877 TPR motif; other site 316058011878 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 316058011879 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 316058011880 TPR motif; other site 316058011881 binding surface 316058011882 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 316058011883 binding surface 316058011884 TPR motif; other site 316058011885 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 316058011886 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 316058011887 binding surface 316058011888 TPR motif; other site 316058011889 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 316058011890 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316058011891 PYR/PP interface [polypeptide binding]; other site 316058011892 dimer interface [polypeptide binding]; other site 316058011893 TPP binding site [chemical binding]; other site 316058011894 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316058011895 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 316058011896 TPP-binding site [chemical binding]; other site 316058011897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058011898 NAD(P) binding site [chemical binding]; other site 316058011899 active site 316058011900 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 316058011901 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 316058011902 active site 316058011903 Substrate binding site; other site 316058011904 Mg++ binding site; other site 316058011905 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316058011906 active site 316058011907 nucleotide binding site [chemical binding]; other site 316058011908 HIGH motif; other site 316058011909 KMSKS motif; other site 316058011910 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 316058011911 putative ribose interaction site [chemical binding]; other site 316058011912 putative ADP binding site [chemical binding]; other site 316058011913 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 316058011914 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 316058011915 NAD binding site [chemical binding]; other site 316058011916 catalytic Zn binding site [ion binding]; other site 316058011917 substrate binding site [chemical binding]; other site 316058011918 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 316058011919 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 316058011920 alpha subunit interface [polypeptide binding]; other site 316058011921 TPP binding site [chemical binding]; other site 316058011922 heterodimer interface [polypeptide binding]; other site 316058011923 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316058011924 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 316058011925 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 316058011926 tetramer interface [polypeptide binding]; other site 316058011927 TPP-binding site [chemical binding]; other site 316058011928 heterodimer interface [polypeptide binding]; other site 316058011929 phosphorylation loop region [posttranslational modification] 316058011930 Methyltransferase domain; Region: Methyltransf_31; pfam13847 316058011931 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 316058011932 S-adenosylmethionine binding site [chemical binding]; other site 316058011933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058011934 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 316058011935 NAD(P) binding site [chemical binding]; other site 316058011936 active site 316058011937 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 316058011938 extended (e) SDRs; Region: SDR_e; cd08946 316058011939 NAD(P) binding site [chemical binding]; other site 316058011940 active site 316058011941 substrate binding site [chemical binding]; other site 316058011942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058011943 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 316058011944 dimer interface [polypeptide binding]; other site 316058011945 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 316058011946 active site 316058011947 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 316058011948 flagellin; Provisional; Region: PRK14708 316058011949 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 316058011950 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 316058011951 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 316058011952 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08913 316058011953 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 316058011954 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 316058011955 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316058011956 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 316058011957 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 316058011958 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316058011959 GAF domain; Region: GAF_3; pfam13492 316058011960 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058011961 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 316058011962 dimer interface [polypeptide binding]; other site 316058011963 phosphorylation site [posttranslational modification] 316058011964 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 316058011965 ATP binding site [chemical binding]; other site 316058011966 Mg2+ binding site [ion binding]; other site 316058011967 G-X-G motif; other site 316058011968 Response regulator receiver domain; Region: Response_reg; pfam00072 316058011969 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058011970 active site 316058011971 phosphorylation site [posttranslational modification] 316058011972 intermolecular recognition site; other site 316058011973 dimerization interface [polypeptide binding]; other site 316058011974 PAS fold; Region: PAS_4; pfam08448 316058011975 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 316058011976 putative active site [active] 316058011977 heme pocket [chemical binding]; other site 316058011978 PAS fold; Region: PAS_4; pfam08448 316058011979 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 316058011980 putative active site [active] 316058011981 heme pocket [chemical binding]; other site 316058011982 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 316058011983 dimer interface [polypeptide binding]; other site 316058011984 phosphorylation site [posttranslational modification] 316058011985 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 316058011986 ATP binding site [chemical binding]; other site 316058011987 Mg2+ binding site [ion binding]; other site 316058011988 G-X-G motif; other site 316058011989 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058011990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058011991 active site 316058011992 phosphorylation site [posttranslational modification] 316058011993 intermolecular recognition site; other site 316058011994 dimerization interface [polypeptide binding]; other site 316058011995 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 316058011996 methionine sulfoxide reductase B; Provisional; Region: PRK00222 316058011997 SelR domain; Region: SelR; pfam01641 316058011998 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 316058011999 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 316058012000 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 316058012001 catalytic core [active] 316058012002 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 316058012003 Ligand Binding Site [chemical binding]; other site 316058012004 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 316058012005 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 316058012006 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058012007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058012008 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 316058012009 dimerization interface [polypeptide binding]; other site 316058012010 Domain of unknown function (DUF897); Region: DUF897; cl01312 316058012011 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 316058012012 dimerization interface [polypeptide binding]; other site 316058012013 metal binding site [ion binding]; metal-binding site 316058012014 Predicted integral membrane protein [Function unknown]; Region: COG0392 316058012015 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 316058012016 oxyanion hole [active] 316058012017 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 316058012018 active site 316058012019 nucleophile elbow; other site 316058012020 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 316058012021 O-Antigen ligase; Region: Wzy_C; pfam04932 316058012022 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316058012023 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 316058012024 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 316058012025 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 316058012026 active site 316058012027 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 316058012028 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316058012029 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 316058012030 active site 316058012031 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 316058012032 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 316058012033 catalytic loop [active] 316058012034 iron binding site [ion binding]; other site 316058012035 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 316058012036 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 316058012037 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 316058012038 NAD(P) binding site [chemical binding]; other site 316058012039 catalytic residues [active] 316058012040 choline dehydrogenase; Validated; Region: PRK02106 316058012041 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 316058012042 short chain dehydrogenase; Provisional; Region: PRK06949 316058012043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058012044 NAD(P) binding site [chemical binding]; other site 316058012045 active site 316058012046 short chain dehydrogenase; Provisional; Region: PRK08339 316058012047 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 316058012048 putative NAD(P) binding site [chemical binding]; other site 316058012049 putative active site [active] 316058012050 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 316058012051 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012052 active site 316058012053 phosphorylation site [posttranslational modification] 316058012054 intermolecular recognition site; other site 316058012055 dimerization interface [polypeptide binding]; other site 316058012056 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 316058012057 DNA binding residues [nucleotide binding] 316058012058 dimerization interface [polypeptide binding]; other site 316058012059 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 316058012060 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 316058012061 phosphorylation site [posttranslational modification] 316058012062 dimer interface [polypeptide binding]; other site 316058012063 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 316058012064 ATP binding site [chemical binding]; other site 316058012065 Mg2+ binding site [ion binding]; other site 316058012066 G-X-G motif; other site 316058012067 Response regulator receiver domain; Region: Response_reg; pfam00072 316058012068 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012069 active site 316058012070 phosphorylation site [posttranslational modification] 316058012071 intermolecular recognition site; other site 316058012072 dimerization interface [polypeptide binding]; other site 316058012073 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 316058012074 putative binding surface; other site 316058012075 active site 316058012076 Response regulator receiver domain; Region: Response_reg; pfam00072 316058012077 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012078 active site 316058012079 phosphorylation site [posttranslational modification] 316058012080 intermolecular recognition site; other site 316058012081 dimerization interface [polypeptide binding]; other site 316058012082 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 316058012083 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 316058012084 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 316058012085 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 316058012086 Response regulator receiver domain; Region: Response_reg; pfam00072 316058012087 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012088 active site 316058012089 phosphorylation site [posttranslational modification] 316058012090 intermolecular recognition site; other site 316058012091 putative phosphoketolase; Provisional; Region: PRK05261 316058012092 XFP N-terminal domain; Region: XFP_N; pfam09364 316058012093 XFP C-terminal domain; Region: XFP_C; pfam09363 316058012094 BON domain; Region: BON; pfam04972 316058012095 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 316058012096 BON domain; Region: BON; pfam04972 316058012097 BON domain; Region: BON; pfam04972 316058012098 Protein kinase domain; Region: Pkinase; pfam00069 316058012099 Catalytic domain of Protein Kinases; Region: PKc; cd00180 316058012100 active site 316058012101 ATP binding site [chemical binding]; other site 316058012102 substrate binding site [chemical binding]; other site 316058012103 activation loop (A-loop); other site 316058012104 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 316058012105 Ligand Binding Site [chemical binding]; other site 316058012106 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316058012107 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 316058012108 active site 316058012109 metal binding site [ion binding]; metal-binding site 316058012110 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 316058012111 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 316058012112 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 316058012113 FeS/SAM binding site; other site 316058012114 V4R domain; Region: V4R; cl15268 316058012115 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 316058012116 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 316058012117 FeS/SAM binding site; other site 316058012118 HemN C-terminal domain; Region: HemN_C; pfam06969 316058012119 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 316058012120 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316058012121 Zn binding site [ion binding]; other site 316058012122 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 316058012123 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 316058012124 putative active site [active] 316058012125 putative metal binding site [ion binding]; other site 316058012126 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 316058012127 putative homodimer interface [polypeptide binding]; other site 316058012128 putative homotetramer interface [polypeptide binding]; other site 316058012129 putative allosteric switch controlling residues; other site 316058012130 putative metal binding site [ion binding]; other site 316058012131 putative homodimer-homodimer interface [polypeptide binding]; other site 316058012132 YHS domain; Region: YHS; pfam04945 316058012133 Uncharacterized conserved protein [Function unknown]; Region: COG3350 316058012134 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 316058012135 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316058012136 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 316058012137 motif II; other site 316058012138 Hemerythrin-like domain; Region: Hr-like; cd12108 316058012139 Fe binding site [ion binding]; other site 316058012140 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 316058012141 active site 316058012142 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058012143 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058012144 metal binding site [ion binding]; metal-binding site 316058012145 active site 316058012146 I-site; other site 316058012147 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058012148 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 316058012149 putative ligand binding site [chemical binding]; other site 316058012150 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 316058012151 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 316058012152 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 316058012153 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 316058012154 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316058012155 Walker A/P-loop; other site 316058012156 ATP binding site [chemical binding]; other site 316058012157 Q-loop/lid; other site 316058012158 ABC transporter signature motif; other site 316058012159 Walker B; other site 316058012160 D-loop; other site 316058012161 H-loop/switch region; other site 316058012162 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 316058012163 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 316058012164 FtsX-like permease family; Region: FtsX; pfam02687 316058012165 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316058012166 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058012167 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316058012168 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 316058012169 Protein of unknown function (DUF3222); Region: DUF3222; pfam11519 316058012170 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316058012171 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316058012172 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 316058012173 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 316058012174 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 316058012175 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 316058012176 intersubunit interface [polypeptide binding]; other site 316058012177 active site 316058012178 Zn2+ binding site [ion binding]; other site 316058012179 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058012180 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058012181 Walker A/P-loop; other site 316058012182 ATP binding site [chemical binding]; other site 316058012183 Q-loop/lid; other site 316058012184 ABC transporter signature motif; other site 316058012185 Walker B; other site 316058012186 D-loop; other site 316058012187 H-loop/switch region; other site 316058012188 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 316058012189 TM-ABC transporter signature motif; other site 316058012190 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058012191 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 316058012192 TM-ABC transporter signature motif; other site 316058012193 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058012194 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058012195 Walker A/P-loop; other site 316058012196 ATP binding site [chemical binding]; other site 316058012197 Q-loop/lid; other site 316058012198 ABC transporter signature motif; other site 316058012199 Walker B; other site 316058012200 D-loop; other site 316058012201 H-loop/switch region; other site 316058012202 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316058012203 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 316058012204 putative ligand binding site [chemical binding]; other site 316058012205 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316058012206 MarR family; Region: MarR_2; pfam12802 316058012207 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058012208 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058012209 active site 316058012210 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 316058012211 [2Fe-2S] cluster binding site [ion binding]; other site 316058012212 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 316058012213 putative alpha subunit interface [polypeptide binding]; other site 316058012214 putative active site [active] 316058012215 putative substrate binding site [chemical binding]; other site 316058012216 Fe binding site [ion binding]; other site 316058012217 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 316058012218 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316058012219 classical (c) SDRs; Region: SDR_c; cd05233 316058012220 NAD(P) binding site [chemical binding]; other site 316058012221 active site 316058012222 Flavin Reductases; Region: FlaRed; cl00801 316058012223 SnoaL-like domain; Region: SnoaL_4; pfam13577 316058012224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 316058012225 Predicted membrane protein [Function unknown]; Region: COG2261 316058012226 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 316058012227 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316058012228 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 316058012229 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 316058012230 FHIPEP family; Region: FHIPEP; pfam00771 316058012231 Anti-sigma-K factor rskA; Region: RskA; pfam10099 316058012232 RNA polymerase sigma factor; Provisional; Region: PRK12514 316058012233 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058012234 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 316058012235 DNA binding residues [nucleotide binding] 316058012236 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 316058012237 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 316058012238 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 316058012239 Walker A motif/ATP binding site; other site 316058012240 Walker B motif; other site 316058012241 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316058012242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012243 active site 316058012244 phosphorylation site [posttranslational modification] 316058012245 intermolecular recognition site; other site 316058012246 dimerization interface [polypeptide binding]; other site 316058012247 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 316058012248 DNA binding site [nucleotide binding] 316058012249 Predicted membrane protein [Function unknown]; Region: COG3766 316058012250 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 316058012251 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 316058012252 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 316058012253 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 316058012254 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 316058012255 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 316058012256 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012257 active site 316058012258 phosphorylation site [posttranslational modification] 316058012259 intermolecular recognition site; other site 316058012260 dimerization interface [polypeptide binding]; other site 316058012261 CheB methylesterase; Region: CheB_methylest; pfam01339 316058012262 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012263 Response regulator receiver domain; Region: Response_reg; pfam00072 316058012264 active site 316058012265 phosphorylation site [posttranslational modification] 316058012266 intermolecular recognition site; other site 316058012267 dimerization interface [polypeptide binding]; other site 316058012268 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 316058012269 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 316058012270 putative binding surface; other site 316058012271 active site 316058012272 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 316058012273 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 316058012274 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 316058012275 ATP binding site [chemical binding]; other site 316058012276 Mg2+ binding site [ion binding]; other site 316058012277 G-X-G motif; other site 316058012278 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 316058012279 Response regulator receiver domain; Region: Response_reg; pfam00072 316058012280 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012281 active site 316058012282 phosphorylation site [posttranslational modification] 316058012283 intermolecular recognition site; other site 316058012284 dimerization interface [polypeptide binding]; other site 316058012285 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 316058012286 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 316058012287 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 316058012288 active site 316058012289 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 316058012290 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 316058012291 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 316058012292 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 316058012293 hypothetical protein; Validated; Region: PRK07586 316058012294 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316058012295 PYR/PP interface [polypeptide binding]; other site 316058012296 dimer interface [polypeptide binding]; other site 316058012297 TPP binding site [chemical binding]; other site 316058012298 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 316058012299 TPP-binding site [chemical binding]; other site 316058012300 dimer interface [polypeptide binding]; other site 316058012301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316058012302 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058012303 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 316058012304 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 316058012305 isovaleryl-CoA dehydrogenase; Region: PLN02519 316058012306 substrate binding site [chemical binding]; other site 316058012307 FAD binding site [chemical binding]; other site 316058012308 catalytic base [active] 316058012309 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316058012310 Cytochrome P450; Region: p450; cl12078 316058012311 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058012312 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058012313 active site 316058012314 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316058012315 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316058012316 Uncharacterized conserved protein [Function unknown]; Region: COG3777 316058012317 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 316058012318 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 316058012319 active site 2 [active] 316058012320 active site 1 [active] 316058012321 benzoylformate decarboxylase; Reviewed; Region: PRK07092 316058012322 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316058012323 PYR/PP interface [polypeptide binding]; other site 316058012324 dimer interface [polypeptide binding]; other site 316058012325 TPP binding site [chemical binding]; other site 316058012326 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316058012327 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 316058012328 TPP-binding site [chemical binding]; other site 316058012329 dimer interface [polypeptide binding]; other site 316058012330 classical (c) SDRs; Region: SDR_c; cd05233 316058012331 NAD(P) binding site [chemical binding]; other site 316058012332 active site 316058012333 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 316058012334 YcjX-like family, DUF463; Region: DUF463; pfam04317 316058012335 hypothetical protein; Provisional; Region: PRK05415 316058012336 Domain of unknown function (DUF697); Region: DUF697; cl12064 316058012337 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 316058012338 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 316058012339 catalytic loop [active] 316058012340 iron binding site [ion binding]; other site 316058012341 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316058012342 cyclase homology domain; Region: CHD; cd07302 316058012343 nucleotidyl binding site; other site 316058012344 metal binding site [ion binding]; metal-binding site 316058012345 dimer interface [polypeptide binding]; other site 316058012346 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 316058012347 Proline dehydrogenase; Region: Pro_dh; pfam01619 316058012348 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 316058012349 Glutamate binding site [chemical binding]; other site 316058012350 NAD binding site [chemical binding]; other site 316058012351 catalytic residues [active] 316058012352 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 316058012353 CoA-transferase family III; Region: CoA_transf_3; pfam02515 316058012354 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316058012355 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 316058012356 putative C-terminal domain interface [polypeptide binding]; other site 316058012357 putative GSH binding site (G-site) [chemical binding]; other site 316058012358 putative dimer interface [polypeptide binding]; other site 316058012359 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 316058012360 N-terminal domain interface [polypeptide binding]; other site 316058012361 dimer interface [polypeptide binding]; other site 316058012362 substrate binding pocket (H-site) [chemical binding]; other site 316058012363 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 316058012364 Predicted transcriptional regulator [Transcription]; Region: COG1959 316058012365 Transcriptional regulator; Region: Rrf2; pfam02082 316058012366 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 316058012367 Repair protein; Region: Repair_PSII; pfam04536 316058012368 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 316058012369 Repair protein; Region: Repair_PSII; pfam04536 316058012370 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 316058012371 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316058012372 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316058012373 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058012374 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 316058012375 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 316058012376 inhibitor site; inhibition site 316058012377 active site 316058012378 dimer interface [polypeptide binding]; other site 316058012379 catalytic residue [active] 316058012380 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 316058012381 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316058012382 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 316058012383 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 316058012384 homodimer interface [polypeptide binding]; other site 316058012385 substrate-cofactor binding pocket; other site 316058012386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058012387 catalytic residue [active] 316058012388 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316058012389 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 316058012390 Serine hydrolase (FSH1); Region: FSH1; pfam03959 316058012391 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 316058012392 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 316058012393 Walker A motif; other site 316058012394 ATP binding site [chemical binding]; other site 316058012395 Walker B motif; other site 316058012396 arginine finger; other site 316058012397 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 316058012398 multimerization interface [polypeptide binding]; other site 316058012399 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 316058012400 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 316058012401 homodimer interface [polypeptide binding]; other site 316058012402 active site 316058012403 heterodimer interface [polypeptide binding]; other site 316058012404 catalytic residue [active] 316058012405 metal binding site [ion binding]; metal-binding site 316058012406 CHASE domain; Region: CHASE; pfam03924 316058012407 PAS domain S-box; Region: sensory_box; TIGR00229 316058012408 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 316058012409 putative active site [active] 316058012410 heme pocket [chemical binding]; other site 316058012411 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 316058012412 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 316058012413 putative active site [active] 316058012414 heme pocket [chemical binding]; other site 316058012415 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 316058012416 dimer interface [polypeptide binding]; other site 316058012417 phosphorylation site [posttranslational modification] 316058012418 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 316058012419 ATP binding site [chemical binding]; other site 316058012420 Mg2+ binding site [ion binding]; other site 316058012421 G-X-G motif; other site 316058012422 Response regulator receiver domain; Region: Response_reg; pfam00072 316058012423 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012424 active site 316058012425 phosphorylation site [posttranslational modification] 316058012426 intermolecular recognition site; other site 316058012427 dimerization interface [polypeptide binding]; other site 316058012428 Hpt domain; Region: Hpt; pfam01627 316058012429 Response regulator receiver domain; Region: Response_reg; pfam00072 316058012430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012431 active site 316058012432 phosphorylation site [posttranslational modification] 316058012433 intermolecular recognition site; other site 316058012434 Response regulator receiver domain; Region: Response_reg; pfam00072 316058012435 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012436 active site 316058012437 phosphorylation site [posttranslational modification] 316058012438 intermolecular recognition site; other site 316058012439 dimerization interface [polypeptide binding]; other site 316058012440 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058012441 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012442 active site 316058012443 phosphorylation site [posttranslational modification] 316058012444 intermolecular recognition site; other site 316058012445 dimerization interface [polypeptide binding]; other site 316058012446 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 316058012447 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058012448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058012449 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 316058012450 putative dimerization interface [polypeptide binding]; other site 316058012451 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 316058012452 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 316058012453 substrate-cofactor binding pocket; other site 316058012454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058012455 catalytic residue [active] 316058012456 putative photosynthetic complex assembly protein 2; Region: photo_alph_chp2; TIGR03055 316058012457 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 316058012458 diiron binding motif [ion binding]; other site 316058012459 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 316058012460 Bacterial PH domain; Region: DUF304; pfam03703 316058012461 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 316058012462 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 316058012463 subunit M interaction residues [polypeptide binding]; other site 316058012464 subunit L interaction residues [polypeptide binding]; other site 316058012465 putative proton transfer pathway, P1; other site 316058012466 putative proton transfer pathway, P2; other site 316058012467 PUCC protein; Region: PUCC; pfam03209 316058012468 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 316058012469 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 316058012470 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 316058012471 S-adenosylmethionine binding site [chemical binding]; other site 316058012472 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 316058012473 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 316058012474 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 316058012475 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 316058012476 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 316058012477 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 316058012478 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 316058012479 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 316058012480 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 316058012481 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 316058012482 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 316058012483 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 316058012484 B12 binding domain; Region: B12-binding_2; pfam02607 316058012485 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 316058012486 B12 binding site [chemical binding]; other site 316058012487 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 316058012488 heme binding pocket [chemical binding]; other site 316058012489 heme ligand [chemical binding]; other site 316058012490 PAS fold; Region: PAS_2; pfam08446 316058012491 GAF domain; Region: GAF; pfam01590 316058012492 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 316058012493 Phytochrome region; Region: PHY; pfam00360 316058012494 PAS domain; Region: PAS_9; pfam13426 316058012495 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 316058012496 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 316058012497 putative active site [active] 316058012498 heme pocket [chemical binding]; other site 316058012499 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 316058012500 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316058012501 Cytochrome c; Region: Cytochrom_C; cl11414 316058012502 TspO/MBR family; Region: TspO_MBR; pfam03073 316058012503 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 316058012504 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316058012505 PUCC protein; Region: PUCC; pfam03209 316058012506 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 316058012507 UbiA prenyltransferase family; Region: UbiA; pfam01040 316058012508 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 316058012509 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316058012510 Subunit M of bacterial photosynthetic reaction center; Region: Photo-RC_M; cd09291 316058012511 subunit H interface; other site 316058012512 subunit L interface; other site 316058012513 bacteriopheophytin binding site; other site 316058012514 carotenoid binding site; other site 316058012515 bacteriochlorophyll binding site; other site 316058012516 cytochrome C interface; other site 316058012517 quinone binding site; other site 316058012518 Fe binding site [ion binding]; other site 316058012519 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 316058012520 subunit M interface; other site 316058012521 subunit H interface; other site 316058012522 quinone binding site; other site 316058012523 bacteriopheophytin binding site; other site 316058012524 bacteriochlorophyll binding site; other site 316058012525 cytochrome C subunit interface; other site 316058012526 Fe binding site [ion binding]; other site 316058012527 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316058012528 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316058012529 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 316058012530 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 316058012531 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 316058012532 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 316058012533 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 316058012534 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 316058012535 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 316058012536 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 316058012537 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 316058012538 putative NAD(P) binding site [chemical binding]; other site 316058012539 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 316058012540 S-adenosylmethionine binding site [chemical binding]; other site 316058012541 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 316058012542 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 316058012543 substrate binding pocket [chemical binding]; other site 316058012544 chain length determination region; other site 316058012545 substrate-Mg2+ binding site; other site 316058012546 catalytic residues [active] 316058012547 aspartate-rich region 1; other site 316058012548 active site lid residues [active] 316058012549 aspartate-rich region 2; other site 316058012550 phytoene desaturase; Region: crtI_fam; TIGR02734 316058012551 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316058012552 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 316058012553 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 316058012554 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 316058012555 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 316058012556 active site lid residues [active] 316058012557 substrate binding pocket [chemical binding]; other site 316058012558 catalytic residues [active] 316058012559 substrate-Mg2+ binding site; other site 316058012560 aspartate-rich region 1; other site 316058012561 aspartate-rich region 2; other site 316058012562 phytoene desaturase; Region: crtI_fam; TIGR02734 316058012563 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316058012564 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 316058012565 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316058012566 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 316058012567 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 316058012568 substrate binding site [chemical binding]; other site 316058012569 active site 316058012570 PilZ domain; Region: PilZ; pfam07238 316058012571 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 316058012572 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 316058012573 metal ion-dependent adhesion site (MIDAS); other site 316058012574 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 316058012575 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 316058012576 Walker A motif; other site 316058012577 ATP binding site [chemical binding]; other site 316058012578 Walker B motif; other site 316058012579 arginine finger; other site 316058012580 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 316058012581 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 316058012582 domain interfaces; other site 316058012583 active site 316058012584 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 316058012585 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 316058012586 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316058012587 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 316058012588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 316058012589 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 316058012590 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 316058012591 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 316058012592 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 316058012593 Protein export membrane protein; Region: SecD_SecF; cl14618 316058012594 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 316058012595 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058012596 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058012597 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 316058012598 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316058012599 PUCC protein; Region: PUCC; pfam03209 316058012600 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316058012601 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316058012602 PAS fold; Region: PAS_2; pfam08446 316058012603 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316058012604 Phytochrome region; Region: PHY; pfam00360 316058012605 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 316058012606 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 316058012607 ATP binding site [chemical binding]; other site 316058012608 Mg2+ binding site [ion binding]; other site 316058012609 G-X-G motif; other site 316058012610 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316058012611 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012612 active site 316058012613 phosphorylation site [posttranslational modification] 316058012614 intermolecular recognition site; other site 316058012615 dimerization interface [polypeptide binding]; other site 316058012616 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 316058012617 DNA binding residues [nucleotide binding] 316058012618 dimerization interface [polypeptide binding]; other site 316058012619 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 316058012620 NnrS protein; Region: NnrS; pfam05940 316058012621 NnrU protein; Region: NnrU; pfam07298 316058012622 phosphoglucomutase; Validated; Region: PRK07564 316058012623 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 316058012624 active site 316058012625 substrate binding site [chemical binding]; other site 316058012626 metal binding site [ion binding]; metal-binding site 316058012627 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 316058012628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012629 active site 316058012630 phosphorylation site [posttranslational modification] 316058012631 intermolecular recognition site; other site 316058012632 dimerization interface [polypeptide binding]; other site 316058012633 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 316058012634 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316058012635 active site 316058012636 metal binding site [ion binding]; metal-binding site 316058012637 hexamer interface [polypeptide binding]; other site 316058012638 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 316058012639 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058012640 Walker A/P-loop; other site 316058012641 ATP binding site [chemical binding]; other site 316058012642 Q-loop/lid; other site 316058012643 ABC transporter signature motif; other site 316058012644 Walker B; other site 316058012645 D-loop; other site 316058012646 H-loop/switch region; other site 316058012647 TOBE domain; Region: TOBE_2; pfam08402 316058012648 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316058012649 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 316058012650 dimer interface [polypeptide binding]; other site 316058012651 conserved gate region; other site 316058012652 putative PBP binding loops; other site 316058012653 ABC-ATPase subunit interface; other site 316058012654 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 316058012655 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 316058012656 dimer interface [polypeptide binding]; other site 316058012657 conserved gate region; other site 316058012658 ABC-ATPase subunit interface; other site 316058012659 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 316058012660 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 316058012661 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 316058012662 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 316058012663 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316058012664 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 316058012665 dimer interface [polypeptide binding]; other site 316058012666 conserved gate region; other site 316058012667 putative PBP binding loops; other site 316058012668 ABC-ATPase subunit interface; other site 316058012669 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 316058012670 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 316058012671 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 316058012672 dimer interface [polypeptide binding]; other site 316058012673 conserved gate region; other site 316058012674 putative PBP binding loops; other site 316058012675 ABC-ATPase subunit interface; other site 316058012676 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 316058012677 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058012678 Walker A/P-loop; other site 316058012679 ATP binding site [chemical binding]; other site 316058012680 Q-loop/lid; other site 316058012681 ABC transporter signature motif; other site 316058012682 Walker B; other site 316058012683 D-loop; other site 316058012684 H-loop/switch region; other site 316058012685 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 316058012686 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058012687 Walker A/P-loop; other site 316058012688 ATP binding site [chemical binding]; other site 316058012689 Q-loop/lid; other site 316058012690 ABC transporter signature motif; other site 316058012691 Walker B; other site 316058012692 D-loop; other site 316058012693 H-loop/switch region; other site 316058012694 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058012695 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 316058012696 amidase; Provisional; Region: PRK09201 316058012697 Amidase; Region: Amidase; pfam01425 316058012698 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 316058012699 Transcriptional regulators [Transcription]; Region: GntR; COG1802 316058012700 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316058012701 DNA-binding site [nucleotide binding]; DNA binding site 316058012702 FCD domain; Region: FCD; pfam07729 316058012703 allophanate hydrolase; Provisional; Region: PRK08186 316058012704 Amidase; Region: Amidase; cl11426 316058012705 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 316058012706 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 316058012707 substrate binding pocket [chemical binding]; other site 316058012708 membrane-bound complex binding site; other site 316058012709 hinge residues; other site 316058012710 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316058012711 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 316058012712 Walker A/P-loop; other site 316058012713 ATP binding site [chemical binding]; other site 316058012714 Q-loop/lid; other site 316058012715 ABC transporter signature motif; other site 316058012716 Walker B; other site 316058012717 D-loop; other site 316058012718 H-loop/switch region; other site 316058012719 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316058012720 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 316058012721 dimer interface [polypeptide binding]; other site 316058012722 conserved gate region; other site 316058012723 putative PBP binding loops; other site 316058012724 ABC-ATPase subunit interface; other site 316058012725 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 316058012726 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 316058012727 active site pocket [active] 316058012728 choline dehydrogenase; Validated; Region: PRK02106 316058012729 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 316058012730 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 316058012731 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316058012732 DNA-binding site [nucleotide binding]; DNA binding site 316058012733 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 316058012734 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 316058012735 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 316058012736 Cl- selectivity filter; other site 316058012737 Cl- binding residues [ion binding]; other site 316058012738 pore gating glutamate residue; other site 316058012739 dimer interface [polypeptide binding]; other site 316058012740 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 316058012741 Peptidase C26; Region: Peptidase_C26; pfam07722 316058012742 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 316058012743 catalytic triad [active] 316058012744 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 316058012745 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 316058012746 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 316058012747 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 316058012748 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058012749 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 316058012750 ligand binding site [chemical binding]; other site 316058012751 flexible hinge region; other site 316058012752 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316058012753 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 316058012754 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058012755 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316058012756 acyl-activating enzyme (AAE) consensus motif; other site 316058012757 putative AMP binding site [chemical binding]; other site 316058012758 putative active site [active] 316058012759 putative CoA binding site [chemical binding]; other site 316058012760 enoyl-CoA hydratase; Provisional; Region: PRK08140 316058012761 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 316058012762 substrate binding site [chemical binding]; other site 316058012763 oxyanion hole (OAH) forming residues; other site 316058012764 trimer interface [polypeptide binding]; other site 316058012765 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 316058012766 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058012767 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058012768 active site 316058012769 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316058012770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058012771 NAD(P) binding site [chemical binding]; other site 316058012772 active site 316058012773 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 316058012774 active site 316058012775 catalytic site [active] 316058012776 (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 316058012777 active site 316058012778 catalytic site [active] 316058012779 lipid-transfer protein; Provisional; Region: PRK08256 316058012780 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 316058012781 active site 316058012782 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058012783 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058012784 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 316058012785 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 316058012786 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058012787 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316058012788 acyl-activating enzyme (AAE) consensus motif; other site 316058012789 acyl-activating enzyme (AAE) consensus motif; other site 316058012790 putative AMP binding site [chemical binding]; other site 316058012791 putative active site [active] 316058012792 putative CoA binding site [chemical binding]; other site 316058012793 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 316058012794 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 316058012795 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 316058012796 active site 316058012797 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 316058012798 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 316058012799 trimer interface [polypeptide binding]; other site 316058012800 active site 316058012801 substrate binding site [chemical binding]; other site 316058012802 CoA binding site [chemical binding]; other site 316058012803 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 316058012804 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 316058012805 Walker A/P-loop; other site 316058012806 ATP binding site [chemical binding]; other site 316058012807 Q-loop/lid; other site 316058012808 ABC transporter signature motif; other site 316058012809 Walker B; other site 316058012810 D-loop; other site 316058012811 H-loop/switch region; other site 316058012812 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 316058012813 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 316058012814 substrate binding pocket [chemical binding]; other site 316058012815 membrane-bound complex binding site; other site 316058012816 hinge residues; other site 316058012817 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 316058012818 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 316058012819 dimer interface [polypeptide binding]; other site 316058012820 conserved gate region; other site 316058012821 ABC-ATPase subunit interface; other site 316058012822 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 316058012823 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 316058012824 dimer interface [polypeptide binding]; other site 316058012825 conserved gate region; other site 316058012826 ABC-ATPase subunit interface; other site 316058012827 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 316058012828 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316058012829 DNA-binding site [nucleotide binding]; DNA binding site 316058012830 UTRA domain; Region: UTRA; pfam07702 316058012831 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 316058012832 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 316058012833 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 316058012834 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 316058012835 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 316058012836 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316058012837 Walker A/P-loop; other site 316058012838 ATP binding site [chemical binding]; other site 316058012839 Q-loop/lid; other site 316058012840 ABC transporter signature motif; other site 316058012841 Walker B; other site 316058012842 D-loop; other site 316058012843 H-loop/switch region; other site 316058012844 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316058012845 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 316058012846 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316058012847 Walker A/P-loop; other site 316058012848 ATP binding site [chemical binding]; other site 316058012849 Q-loop/lid; other site 316058012850 ABC transporter signature motif; other site 316058012851 Walker B; other site 316058012852 D-loop; other site 316058012853 H-loop/switch region; other site 316058012854 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 316058012855 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 316058012856 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 316058012857 active site 316058012858 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 316058012859 active site 316058012860 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 316058012861 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058012862 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 316058012863 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058012864 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 316058012865 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 316058012866 S-adenosylmethionine binding site [chemical binding]; other site 316058012867 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 316058012868 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 316058012869 active site 316058012870 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058012871 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058012872 active site 316058012873 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 316058012874 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058012875 putative ligand binding site [chemical binding]; other site 316058012876 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 316058012877 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 316058012878 putative active site [active] 316058012879 heme pocket [chemical binding]; other site 316058012880 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 316058012881 dimer interface [polypeptide binding]; other site 316058012882 phosphorylation site [posttranslational modification] 316058012883 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 316058012884 ATP binding site [chemical binding]; other site 316058012885 Mg2+ binding site [ion binding]; other site 316058012886 G-X-G motif; other site 316058012887 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058012888 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012889 active site 316058012890 phosphorylation site [posttranslational modification] 316058012891 intermolecular recognition site; other site 316058012892 Response regulator receiver domain; Region: Response_reg; pfam00072 316058012893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012894 active site 316058012895 phosphorylation site [posttranslational modification] 316058012896 intermolecular recognition site; other site 316058012897 dimerization interface [polypeptide binding]; other site 316058012898 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 316058012899 putative binding surface; other site 316058012900 active site 316058012901 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 316058012902 Response regulator receiver domain; Region: Response_reg; pfam00072 316058012903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058012904 active site 316058012905 phosphorylation site [posttranslational modification] 316058012906 intermolecular recognition site; other site 316058012907 dimerization interface [polypeptide binding]; other site 316058012908 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 316058012909 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 316058012910 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 316058012911 DXD motif; other site 316058012912 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 316058012913 S-adenosylmethionine binding site [chemical binding]; other site 316058012914 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 316058012915 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 316058012916 Ligand Binding Site [chemical binding]; other site 316058012917 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 316058012918 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 316058012919 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 316058012920 lytic murein transglycosylase; Region: MltB_2; TIGR02283 316058012921 murein hydrolase B; Provisional; Region: PRK10760; cl17906 316058012922 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 316058012923 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316058012924 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 316058012925 intracellular protease, PfpI family; Region: PfpI; TIGR01382 316058012926 proposed catalytic triad [active] 316058012927 conserved cys residue [active] 316058012928 Cupin domain; Region: Cupin_2; cl17218 316058012929 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 316058012930 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 316058012931 dimer interface [polypeptide binding]; other site 316058012932 active site 316058012933 CoA binding pocket [chemical binding]; other site 316058012934 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 316058012935 dimerization interface [polypeptide binding]; other site 316058012936 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058012937 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058012938 metal binding site [ion binding]; metal-binding site 316058012939 active site 316058012940 I-site; other site 316058012941 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 316058012942 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 316058012943 Histidine kinase; Region: HisKA_2; pfam07568 316058012944 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 316058012945 ATP binding site [chemical binding]; other site 316058012946 Mg2+ binding site [ion binding]; other site 316058012947 G-X-G motif; other site 316058012948 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 316058012949 nudix motif; other site 316058012950 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 316058012951 cyclase homology domain; Region: CHD; cd07302 316058012952 nucleotidyl binding site; other site 316058012953 metal binding site [ion binding]; metal-binding site 316058012954 dimer interface [polypeptide binding]; other site 316058012955 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 316058012956 nudix motif; other site 316058012957 YcfA-like protein; Region: YcfA; pfam07927 316058012958 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 316058012959 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 316058012960 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 316058012961 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 316058012962 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 316058012963 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058012964 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 316058012965 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 316058012966 DNA binding residues [nucleotide binding] 316058012967 DNA primase, catalytic core; Region: dnaG; TIGR01391 316058012968 CHC2 zinc finger; Region: zf-CHC2; cl17510 316058012969 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 316058012970 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 316058012971 active site 316058012972 metal binding site [ion binding]; metal-binding site 316058012973 interdomain interaction site; other site 316058012974 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 316058012975 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 316058012976 putative active site pocket [active] 316058012977 dimerization interface [polypeptide binding]; other site 316058012978 putative catalytic residue [active] 316058012979 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 316058012980 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 316058012981 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 316058012982 N-formylglutamate amidohydrolase; Region: FGase; cl01522 316058012983 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 316058012984 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 316058012985 Yqey-like protein; Region: YqeY; pfam09424 316058012986 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 316058012987 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 316058012988 catalytic site [active] 316058012989 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 316058012990 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 316058012991 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 316058012992 catalytic site [active] 316058012993 subunit interface [polypeptide binding]; other site 316058012994 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 316058012995 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316058012996 putative C-terminal domain interface [polypeptide binding]; other site 316058012997 putative GSH binding site (G-site) [chemical binding]; other site 316058012998 putative dimer interface [polypeptide binding]; other site 316058012999 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 316058013000 putative N-terminal domain interface [polypeptide binding]; other site 316058013001 putative dimer interface [polypeptide binding]; other site 316058013002 putative substrate binding pocket (H-site) [chemical binding]; other site 316058013003 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 316058013004 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 316058013005 C-terminal domain interface [polypeptide binding]; other site 316058013006 GSH binding site (G-site) [chemical binding]; other site 316058013007 dimer interface [polypeptide binding]; other site 316058013008 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 316058013009 N-terminal domain interface [polypeptide binding]; other site 316058013010 putative dimer interface [polypeptide binding]; other site 316058013011 active site 316058013012 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 316058013013 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316058013014 SCP-2 sterol transfer family; Region: SCP2; cl01225 316058013015 excinuclease ABC subunit B; Provisional; Region: PRK05298 316058013016 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 316058013017 ATP binding site [chemical binding]; other site 316058013018 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 316058013019 nucleotide binding region [chemical binding]; other site 316058013020 ATP-binding site [chemical binding]; other site 316058013021 Ultra-violet resistance protein B; Region: UvrB; pfam12344 316058013022 UvrB/uvrC motif; Region: UVR; pfam02151 316058013023 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 316058013024 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 316058013025 sequence-specific DNA binding site [nucleotide binding]; other site 316058013026 salt bridge; other site 316058013027 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 316058013028 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 316058013029 acetyl-CoA acetyltransferase; Provisional; Region: PRK06025 316058013030 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 316058013031 dimer interface [polypeptide binding]; other site 316058013032 active site 316058013033 SnoaL-like domain; Region: SnoaL_2; pfam12680 316058013034 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 316058013035 putative active site [active] 316058013036 putative catalytic site [active] 316058013037 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 316058013038 putative active site [active] 316058013039 putative catalytic site [active] 316058013040 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 316058013041 GTP-binding protein YchF; Reviewed; Region: PRK09601 316058013042 YchF GTPase; Region: YchF; cd01900 316058013043 G1 box; other site 316058013044 GTP/Mg2+ binding site [chemical binding]; other site 316058013045 Switch I region; other site 316058013046 G2 box; other site 316058013047 Switch II region; other site 316058013048 G3 box; other site 316058013049 G4 box; other site 316058013050 G5 box; other site 316058013051 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 316058013052 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 316058013053 putative active site [active] 316058013054 catalytic residue [active] 316058013055 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 316058013056 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 316058013057 5S rRNA interface [nucleotide binding]; other site 316058013058 CTC domain interface [polypeptide binding]; other site 316058013059 L16 interface [polypeptide binding]; other site 316058013060 Membrane fusogenic activity; Region: BMFP; pfam04380 316058013061 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 316058013062 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 316058013063 Uncharacterized conserved protein [Function unknown]; Region: COG1565 316058013064 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 316058013065 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 316058013066 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 316058013067 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 316058013068 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316058013069 active site 316058013070 riboflavin synthase subunit beta; Provisional; Region: PRK12419 316058013071 active site 316058013072 homopentamer interface [polypeptide binding]; other site 316058013073 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 316058013074 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 316058013075 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 316058013076 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 316058013077 dimerization interface [polypeptide binding]; other site 316058013078 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 316058013079 dimer interface [polypeptide binding]; other site 316058013080 phosphorylation site [posttranslational modification] 316058013081 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 316058013082 ATP binding site [chemical binding]; other site 316058013083 Mg2+ binding site [ion binding]; other site 316058013084 G-X-G motif; other site 316058013085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058013086 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 316058013087 active site 316058013088 phosphorylation site [posttranslational modification] 316058013089 intermolecular recognition site; other site 316058013090 dimerization interface [polypeptide binding]; other site 316058013091 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 316058013092 DNA binding site [nucleotide binding] 316058013093 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 316058013094 MarR family; Region: MarR_2; pfam12802 316058013095 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 316058013096 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 316058013097 homodimer interface [polypeptide binding]; other site 316058013098 substrate-cofactor binding pocket; other site 316058013099 catalytic residue [active] 316058013100 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 316058013101 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 316058013102 ATP binding site [chemical binding]; other site 316058013103 Mg2+ binding site [ion binding]; other site 316058013104 G-X-G motif; other site 316058013105 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 316058013106 ATP binding site [chemical binding]; other site 316058013107 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 316058013108 hypothetical protein; Provisional; Region: PRK09256 316058013109 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 316058013110 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 316058013111 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 316058013112 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316058013113 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 316058013114 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 316058013115 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316058013116 lipoprotein signal peptidase; Provisional; Region: PRK14796 316058013117 lipoprotein signal peptidase; Provisional; Region: PRK14787 316058013118 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 316058013119 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 316058013120 active site 316058013121 HIGH motif; other site 316058013122 nucleotide binding site [chemical binding]; other site 316058013123 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 316058013124 active site 316058013125 KMSKS motif; other site 316058013126 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 316058013127 tRNA binding surface [nucleotide binding]; other site 316058013128 anticodon binding site; other site 316058013129 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 316058013130 RES domain; Region: RES; pfam08808 316058013131 maltose O-acetyltransferase; Provisional; Region: PRK10092 316058013132 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 316058013133 active site 316058013134 substrate binding site [chemical binding]; other site 316058013135 trimer interface [polypeptide binding]; other site 316058013136 CoA binding site [chemical binding]; other site 316058013137 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 316058013138 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 316058013139 active site 316058013140 Riboflavin kinase; Region: Flavokinase; smart00904 316058013141 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 316058013142 B1 nucleotide binding pocket [chemical binding]; other site 316058013143 B2 nucleotide binding pocket [chemical binding]; other site 316058013144 CAS motifs; other site 316058013145 active site 316058013146 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 316058013147 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 316058013148 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 316058013149 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 316058013150 Predicted acetyltransferase [General function prediction only]; Region: COG3153 316058013151 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 316058013152 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316058013153 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 316058013154 nudix motif; other site 316058013155 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 316058013156 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 316058013157 putative active site [active] 316058013158 putative metal binding site [ion binding]; other site 316058013159 isocitrate lyase; Provisional; Region: PRK15063 316058013160 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 316058013161 tetramer interface [polypeptide binding]; other site 316058013162 active site 316058013163 Mg2+/Mn2+ binding site [ion binding]; other site 316058013164 isocitrate lyase; Region: PLN02892 316058013165 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 316058013166 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 316058013167 non-specific DNA binding site [nucleotide binding]; other site 316058013168 salt bridge; other site 316058013169 sequence-specific DNA binding site [nucleotide binding]; other site 316058013170 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 316058013171 Domain of unknown function (DUF955); Region: DUF955; pfam06114 316058013172 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 316058013173 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 316058013174 lytic murein transglycosylase; Region: MltB_2; TIGR02283 316058013175 murein hydrolase B; Provisional; Region: PRK10760; cl17906 316058013176 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316058013177 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058013178 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 316058013179 putative ligand binding site [chemical binding]; other site 316058013180 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058013181 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058013182 Walker A/P-loop; other site 316058013183 ATP binding site [chemical binding]; other site 316058013184 Q-loop/lid; other site 316058013185 ABC transporter signature motif; other site 316058013186 Walker B; other site 316058013187 D-loop; other site 316058013188 H-loop/switch region; other site 316058013189 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058013190 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058013191 Walker A/P-loop; other site 316058013192 ATP binding site [chemical binding]; other site 316058013193 Q-loop/lid; other site 316058013194 ABC transporter signature motif; other site 316058013195 Walker B; other site 316058013196 D-loop; other site 316058013197 H-loop/switch region; other site 316058013198 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058013199 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 316058013200 TM-ABC transporter signature motif; other site 316058013201 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058013202 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 316058013203 TM-ABC transporter signature motif; other site 316058013204 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 316058013205 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 316058013206 FMN binding site [chemical binding]; other site 316058013207 active site 316058013208 substrate binding site [chemical binding]; other site 316058013209 catalytic residue [active] 316058013210 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 316058013211 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 316058013212 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316058013213 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 316058013214 dimer interface [polypeptide binding]; other site 316058013215 conserved gate region; other site 316058013216 putative PBP binding loops; other site 316058013217 ABC-ATPase subunit interface; other site 316058013218 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 316058013219 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 316058013220 dimer interface [polypeptide binding]; other site 316058013221 conserved gate region; other site 316058013222 putative PBP binding loops; other site 316058013223 ABC-ATPase subunit interface; other site 316058013224 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 316058013225 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 316058013226 Walker A/P-loop; other site 316058013227 ATP binding site [chemical binding]; other site 316058013228 Q-loop/lid; other site 316058013229 ABC transporter signature motif; other site 316058013230 Walker B; other site 316058013231 D-loop; other site 316058013232 H-loop/switch region; other site 316058013233 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 316058013234 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 316058013235 Walker A/P-loop; other site 316058013236 ATP binding site [chemical binding]; other site 316058013237 Q-loop/lid; other site 316058013238 ABC transporter signature motif; other site 316058013239 Walker B; other site 316058013240 D-loop; other site 316058013241 H-loop/switch region; other site 316058013242 TOBE domain; Region: TOBE; cl01440 316058013243 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 316058013244 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 316058013245 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316058013246 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316058013247 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 316058013248 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058013249 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058013250 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 316058013251 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316058013252 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058013253 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058013254 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 316058013255 dimer interface [polypeptide binding]; other site 316058013256 PAS fold; Region: PAS_4; pfam08448 316058013257 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 316058013258 dimer interface [polypeptide binding]; other site 316058013259 phosphorylation site [posttranslational modification] 316058013260 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 316058013261 ATP binding site [chemical binding]; other site 316058013262 Mg2+ binding site [ion binding]; other site 316058013263 G-X-G motif; other site 316058013264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058013265 active site 316058013266 phosphorylation site [posttranslational modification] 316058013267 intermolecular recognition site; other site 316058013268 dimerization interface [polypeptide binding]; other site 316058013269 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 316058013270 putative binding surface; other site 316058013271 active site 316058013272 CsbD-like; Region: CsbD; pfam05532 316058013273 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 316058013274 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 316058013275 dimerization interface [polypeptide binding]; other site 316058013276 NAD binding site [chemical binding]; other site 316058013277 ligand binding site [chemical binding]; other site 316058013278 catalytic site [active] 316058013279 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 316058013280 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 316058013281 SlyX; Region: SlyX; pfam04102 316058013282 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 316058013283 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058013284 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316058013285 acyl-activating enzyme (AAE) consensus motif; other site 316058013286 acyl-activating enzyme (AAE) consensus motif; other site 316058013287 putative AMP binding site [chemical binding]; other site 316058013288 putative active site [active] 316058013289 putative CoA binding site [chemical binding]; other site 316058013290 SnoaL-like domain; Region: SnoaL_4; pfam13577 316058013291 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 316058013292 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 316058013293 ligand binding site [chemical binding]; other site 316058013294 flexible hinge region; other site 316058013295 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 316058013296 non-specific DNA interactions [nucleotide binding]; other site 316058013297 DNA binding site [nucleotide binding] 316058013298 sequence specific DNA binding site [nucleotide binding]; other site 316058013299 putative cAMP binding site [chemical binding]; other site 316058013300 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 316058013301 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316058013302 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 316058013303 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 316058013304 putative glutathione S-transferase; Provisional; Region: PRK10357 316058013305 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 316058013306 putative C-terminal domain interface [polypeptide binding]; other site 316058013307 putative GSH binding site (G-site) [chemical binding]; other site 316058013308 putative dimer interface [polypeptide binding]; other site 316058013309 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 316058013310 N-terminal domain interface [polypeptide binding]; other site 316058013311 dimer interface [polypeptide binding]; other site 316058013312 putative substrate binding pocket (H-site) [chemical binding]; other site 316058013313 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 316058013314 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 316058013315 DNA binding site [nucleotide binding] 316058013316 active site 316058013317 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 316058013318 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316058013319 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 316058013320 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 316058013321 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 316058013322 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 316058013323 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 316058013324 N-terminal plug; other site 316058013325 ligand-binding site [chemical binding]; other site 316058013326 PBP superfamily domain; Region: PBP_like_2; pfam12849 316058013327 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 316058013328 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 316058013329 Peptidase family M23; Region: Peptidase_M23; pfam01551 316058013330 PQQ-like domain; Region: PQQ_2; pfam13360 316058013331 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 316058013332 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 316058013333 Clp amino terminal domain; Region: Clp_N; pfam02861 316058013334 Clp amino terminal domain; Region: Clp_N; pfam02861 316058013335 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 316058013336 Walker A motif; other site 316058013337 ATP binding site [chemical binding]; other site 316058013338 Walker B motif; other site 316058013339 arginine finger; other site 316058013340 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 316058013341 Walker A motif; other site 316058013342 ATP binding site [chemical binding]; other site 316058013343 Walker B motif; other site 316058013344 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 316058013345 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 316058013346 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 316058013347 MOSC domain; Region: MOSC; pfam03473 316058013348 TIGR02594 family protein; Region: TIGR02594 316058013349 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 316058013350 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316058013351 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 316058013352 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 316058013353 hypothetical protein; Provisional; Region: PRK06034 316058013354 Chorismate mutase type II; Region: CM_2; pfam01817 316058013355 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 316058013356 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 316058013357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058013358 homodimer interface [polypeptide binding]; other site 316058013359 catalytic residue [active] 316058013360 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 316058013361 prephenate dehydrogenase; Validated; Region: PRK08507 316058013362 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 316058013363 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 316058013364 classical (c) SDRs; Region: SDR_c; cd05233 316058013365 NAD(P) binding site [chemical binding]; other site 316058013366 active site 316058013367 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 316058013368 GIY-YIG motif/motif A; other site 316058013369 putative active site [active] 316058013370 putative metal binding site [ion binding]; other site 316058013371 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 316058013372 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058013373 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 316058013374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 316058013375 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 316058013376 putative dimer interface [polypeptide binding]; other site 316058013377 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316058013378 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058013379 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058013380 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 316058013381 glutathionine S-transferase; Provisional; Region: PRK10542 316058013382 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 316058013383 C-terminal domain interface [polypeptide binding]; other site 316058013384 GSH binding site (G-site) [chemical binding]; other site 316058013385 dimer interface [polypeptide binding]; other site 316058013386 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 316058013387 N-terminal domain interface [polypeptide binding]; other site 316058013388 dimer interface [polypeptide binding]; other site 316058013389 substrate binding pocket (H-site) [chemical binding]; other site 316058013390 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058013391 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058013392 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 316058013393 SnoaL-like domain; Region: SnoaL_2; pfam12680 316058013394 OpgC protein; Region: OpgC_C; pfam10129 316058013395 Acyltransferase family; Region: Acyl_transf_3; pfam01757 316058013396 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 316058013397 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316058013398 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 316058013399 active site 316058013400 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 316058013401 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 316058013402 Walker A motif; other site 316058013403 ATP binding site [chemical binding]; other site 316058013404 Walker B motif; other site 316058013405 arginine finger; other site 316058013406 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 316058013407 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 316058013408 active site 316058013409 catalytic motif [active] 316058013410 Zn binding site [ion binding]; other site 316058013411 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 316058013412 RuvA N terminal domain; Region: RuvA_N; pfam01330 316058013413 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 316058013414 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 316058013415 active site 316058013416 putative DNA-binding cleft [nucleotide binding]; other site 316058013417 dimer interface [polypeptide binding]; other site 316058013418 hypothetical protein; Validated; Region: PRK00110 316058013419 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058013420 dimer interface [polypeptide binding]; other site 316058013421 putative CheW interface [polypeptide binding]; other site 316058013422 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 316058013423 Heavy-metal resistance; Region: Metal_resist; pfam13801 316058013424 RNA polymerase sigma factor; Reviewed; Region: PRK05602 316058013425 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058013426 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 316058013427 DNA binding residues [nucleotide binding] 316058013428 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 316058013429 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 316058013430 dimerization interface [polypeptide binding]; other site 316058013431 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316058013432 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058013433 dimer interface [polypeptide binding]; other site 316058013434 putative CheW interface [polypeptide binding]; other site 316058013435 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 316058013436 tyrosine decarboxylase; Region: PLN02880 316058013437 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 316058013438 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058013439 catalytic residue [active] 316058013440 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 316058013441 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316058013442 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058013443 dimer interface [polypeptide binding]; other site 316058013444 putative CheW interface [polypeptide binding]; other site 316058013445 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 316058013446 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 316058013447 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 316058013448 putative active site [active] 316058013449 metal binding site [ion binding]; metal-binding site 316058013450 homodimer binding site [polypeptide binding]; other site 316058013451 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 316058013452 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 316058013453 active site 316058013454 catalytic residue [active] 316058013455 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 316058013456 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 316058013457 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 316058013458 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316058013459 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 316058013460 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058013461 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; pfam00173 316058013462 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 316058013463 FAD binding pocket [chemical binding]; other site 316058013464 FAD binding motif [chemical binding]; other site 316058013465 phosphate binding motif [ion binding]; other site 316058013466 beta-alpha-beta structure motif; other site 316058013467 NAD binding pocket [chemical binding]; other site 316058013468 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 316058013469 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 316058013470 catalytic residues [active] 316058013471 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 316058013472 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 316058013473 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 316058013474 E3 interaction surface; other site 316058013475 lipoyl attachment site [posttranslational modification]; other site 316058013476 HlyD family secretion protein; Region: HlyD_3; pfam13437 316058013477 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 316058013478 dimerization interface [polypeptide binding]; other site 316058013479 putative DNA binding site [nucleotide binding]; other site 316058013480 putative Zn2+ binding site [ion binding]; other site 316058013481 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 316058013482 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 316058013483 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 316058013484 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 316058013485 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 316058013486 [2Fe-2S] cluster binding site [ion binding]; other site 316058013487 Predicted transcriptional regulators [Transcription]; Region: COG1695 316058013488 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 316058013489 Predicted transporter component [General function prediction only]; Region: COG2391 316058013490 Sulphur transport; Region: Sulf_transp; pfam04143 316058013491 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 316058013492 4Fe-4S binding domain; Region: Fer4_5; pfam12801 316058013493 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 316058013494 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 316058013495 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 316058013496 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 316058013497 Peptidase family M48; Region: Peptidase_M48; cl12018 316058013498 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 316058013499 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316058013500 active site 316058013501 anthranilate synthase; Provisional; Region: PRK13566 316058013502 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 316058013503 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 316058013504 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 316058013505 glutamine binding [chemical binding]; other site 316058013506 catalytic triad [active] 316058013507 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]; Region: COG1724 316058013508 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 316058013509 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316058013510 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 316058013511 S-adenosylmethionine binding site [chemical binding]; other site 316058013512 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 316058013513 ABC1 family; Region: ABC1; pfam03109 316058013514 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 316058013515 PhnA protein; Region: PhnA; pfam03831 316058013516 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 316058013517 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 316058013518 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 316058013519 acyl-activating enzyme (AAE) consensus motif; other site 316058013520 putative AMP binding site [chemical binding]; other site 316058013521 putative active site [active] 316058013522 putative CoA binding site [chemical binding]; other site 316058013523 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 316058013524 TPR repeat; Region: TPR_11; pfam13414 316058013525 binding surface 316058013526 TPR motif; other site 316058013527 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 316058013528 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316058013529 classical (c) SDRs; Region: SDR_c; cd05233 316058013530 NAD(P) binding site [chemical binding]; other site 316058013531 active site 316058013532 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 316058013533 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 316058013534 DctM-like transporters; Region: DctM; pfam06808 316058013535 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 316058013536 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 316058013537 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316058013538 PhoD-like phosphatase; Region: PhoD; pfam09423 316058013539 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 316058013540 putative active site [active] 316058013541 putative metal binding site [ion binding]; other site 316058013542 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 316058013543 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 316058013544 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 316058013545 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 316058013546 putative active site [active] 316058013547 putative CoA binding site [chemical binding]; other site 316058013548 nudix motif; other site 316058013549 metal binding site [ion binding]; metal-binding site 316058013550 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 316058013551 CoenzymeA binding site [chemical binding]; other site 316058013552 subunit interaction site [polypeptide binding]; other site 316058013553 PHB binding site; other site 316058013554 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 316058013555 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 316058013556 motif II; other site 316058013557 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 316058013558 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 316058013559 inhibitor-cofactor binding pocket; inhibition site 316058013560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058013561 catalytic residue [active] 316058013562 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 316058013563 AAA domain; Region: AAA_26; pfam13500 316058013564 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 316058013565 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058013566 catalytic residue [active] 316058013567 zinc-binding protein; Provisional; Region: PRK01343 316058013568 Maf-like protein; Region: Maf; pfam02545 316058013569 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 316058013570 active site 316058013571 dimer interface [polypeptide binding]; other site 316058013572 Predicted ATPase [General function prediction only]; Region: COG4637 316058013573 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058013574 Walker A/P-loop; other site 316058013575 ATP binding site [chemical binding]; other site 316058013576 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 316058013577 Low molecular weight phosphatase family; Region: LMWPc; cd00115 316058013578 active site 316058013579 hypothetical protein; Provisional; Region: PRK02853 316058013580 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 316058013581 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 316058013582 NAD binding site [chemical binding]; other site 316058013583 dimerization interface [polypeptide binding]; other site 316058013584 product binding site; other site 316058013585 substrate binding site [chemical binding]; other site 316058013586 zinc binding site [ion binding]; other site 316058013587 catalytic residues [active] 316058013588 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 316058013589 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 316058013590 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 316058013591 hinge; other site 316058013592 active site 316058013593 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 316058013594 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 316058013595 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 316058013596 ligand binding site [chemical binding]; other site 316058013597 flexible hinge region; other site 316058013598 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 316058013599 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 316058013600 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 316058013601 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316058013602 SnoaL-like domain; Region: SnoaL_2; pfam12680 316058013603 sensor protein QseC; Provisional; Region: PRK10337 316058013604 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 316058013605 dimer interface [polypeptide binding]; other site 316058013606 phosphorylation site [posttranslational modification] 316058013607 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 316058013608 ATP binding site [chemical binding]; other site 316058013609 Mg2+ binding site [ion binding]; other site 316058013610 G-X-G motif; other site 316058013611 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 316058013612 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058013613 active site 316058013614 phosphorylation site [posttranslational modification] 316058013615 intermolecular recognition site; other site 316058013616 dimerization interface [polypeptide binding]; other site 316058013617 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 316058013618 DNA binding site [nucleotide binding] 316058013619 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 316058013620 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 316058013621 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 316058013622 DsbD alpha interface [polypeptide binding]; other site 316058013623 catalytic residues [active] 316058013624 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 316058013625 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 316058013626 catalytic residues [active] 316058013627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316058013628 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058013629 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 316058013630 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 316058013631 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 316058013632 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 316058013633 Cytochrome c; Region: Cytochrom_C; cl11414 316058013634 Sulphur transport; Region: Sulf_transp; pfam04143 316058013635 Cytochrome c; Region: Cytochrom_C; pfam00034 316058013636 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 316058013637 Moco binding site; other site 316058013638 metal coordination site [ion binding]; other site 316058013639 dimerization interface [polypeptide binding]; other site 316058013640 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 316058013641 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 316058013642 active site 316058013643 metal binding site [ion binding]; metal-binding site 316058013644 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 316058013645 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 316058013646 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 316058013647 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 316058013648 His-Xaa-Ser system putative quinone modification maturase; Region: SAM_quin_mod; TIGR03981 316058013649 Cytochrome c; Region: Cytochrom_C; pfam00034 316058013650 Domain of unknown function (DUF336); Region: DUF336; pfam03928 316058013651 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 316058013652 catalytic residues [active] 316058013653 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 316058013654 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 316058013655 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 316058013656 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 316058013657 dimerization interface [polypeptide binding]; other site 316058013658 putative DNA binding site [nucleotide binding]; other site 316058013659 putative Zn2+ binding site [ion binding]; other site 316058013660 Predicted transporter component [General function prediction only]; Region: COG2391 316058013661 Sulphur transport; Region: Sulf_transp; pfam04143 316058013662 Sulphur transport; Region: Sulf_transp; pfam04143 316058013663 DsrE/DsrF-like family; Region: DrsE; pfam02635 316058013664 choline dehydrogenase; Validated; Region: PRK02106 316058013665 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 316058013666 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 316058013667 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 316058013668 dimer interface [polypeptide binding]; other site 316058013669 phosphorylation site [posttranslational modification] 316058013670 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 316058013671 ATP binding site [chemical binding]; other site 316058013672 Mg2+ binding site [ion binding]; other site 316058013673 G-X-G motif; other site 316058013674 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 316058013675 two-component response regulator VirG; Provisional; Region: PRK13856 316058013676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058013677 active site 316058013678 phosphorylation site [posttranslational modification] 316058013679 intermolecular recognition site; other site 316058013680 dimerization interface [polypeptide binding]; other site 316058013681 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 316058013682 DNA binding site [nucleotide binding] 316058013683 short chain dehydrogenase; Provisional; Region: PRK06523 316058013684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058013685 NAD(P) binding site [chemical binding]; other site 316058013686 active site 316058013687 SnoaL-like domain; Region: SnoaL_2; pfam12680 316058013688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058013689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058013690 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_5; cd08474 316058013691 putative effector binding pocket; other site 316058013692 putative dimerization interface [polypeptide binding]; other site 316058013693 Putative cyclase; Region: Cyclase; pfam04199 316058013694 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058013695 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 316058013696 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 316058013697 DNA binding residues [nucleotide binding] 316058013698 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 316058013699 IucA / IucC family; Region: IucA_IucC; pfam04183 316058013700 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 316058013701 IucA / IucC family; Region: IucA_IucC; pfam04183 316058013702 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 316058013703 acyl-CoA synthetase; Validated; Region: PRK08308 316058013704 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058013705 acyl-activating enzyme (AAE) consensus motif; other site 316058013706 AMP binding site [chemical binding]; other site 316058013707 active site 316058013708 CoA binding site [chemical binding]; other site 316058013709 acyl carrier protein; Provisional; Region: PRK07639 316058013710 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 316058013711 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 316058013712 putative ligand binding residues [chemical binding]; other site 316058013713 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 316058013714 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 316058013715 ABC-ATPase subunit interface; other site 316058013716 dimer interface [polypeptide binding]; other site 316058013717 putative PBP binding regions; other site 316058013718 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 316058013719 ABC-ATPase subunit interface; other site 316058013720 dimer interface [polypeptide binding]; other site 316058013721 putative PBP binding regions; other site 316058013722 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 316058013723 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316058013724 Walker A/P-loop; other site 316058013725 ATP binding site [chemical binding]; other site 316058013726 Q-loop/lid; other site 316058013727 ABC transporter signature motif; other site 316058013728 Walker B; other site 316058013729 D-loop; other site 316058013730 H-loop/switch region; other site 316058013731 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 316058013732 FecR protein; Region: FecR; pfam04773 316058013733 Secretin and TonB N terminus short domain; Region: STN; smart00965 316058013734 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 316058013735 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 316058013736 putative acetyltransferase YhhY; Provisional; Region: PRK10140 316058013737 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316058013738 Coenzyme A binding pocket [chemical binding]; other site 316058013739 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 316058013740 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 316058013741 N-terminal plug; other site 316058013742 ligand-binding site [chemical binding]; other site 316058013743 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 316058013744 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 316058013745 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316058013746 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 316058013747 Walker A/P-loop; other site 316058013748 ATP binding site [chemical binding]; other site 316058013749 Q-loop/lid; other site 316058013750 ABC transporter signature motif; other site 316058013751 Walker B; other site 316058013752 D-loop; other site 316058013753 H-loop/switch region; other site 316058013754 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316058013755 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 316058013756 Bacterial transcriptional regulator; Region: IclR; pfam01614 316058013757 LPPG:FO 2-phospho-L-lactate transferase; Provisional; Region: PRK13606 316058013758 dimer interface [polypeptide binding]; other site 316058013759 phosphate binding site [ion binding]; other site 316058013760 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 316058013761 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 316058013762 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 316058013763 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 316058013764 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 316058013765 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 316058013766 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 316058013767 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 316058013768 coenzyme F420-dependent oxidoreductase, NP1902A family; Region: F420_NP1902A; TIGR04024 316058013769 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 316058013770 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 316058013771 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 316058013772 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316058013773 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 316058013774 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 316058013775 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 316058013776 putative hydrophobic ligand binding site [chemical binding]; other site 316058013777 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316058013778 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316058013779 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058013780 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 316058013781 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 316058013782 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 316058013783 threonine synthase; Validated; Region: PRK08197 316058013784 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 316058013785 homodimer interface [polypeptide binding]; other site 316058013786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058013787 catalytic residue [active] 316058013788 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 316058013789 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 316058013790 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 316058013791 active site 316058013792 Guanylyl transferase CofC like; Region: CofC; cl17472 316058013793 FO synthase; Reviewed; Region: fbiC; PRK09234 316058013794 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 316058013795 FeS/SAM binding site; other site 316058013796 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 316058013797 FeS/SAM binding site; other site 316058013798 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 316058013799 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058013800 TM-ABC transporter signature motif; other site 316058013801 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058013802 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 316058013803 TM-ABC transporter signature motif; other site 316058013804 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058013805 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058013806 Walker A/P-loop; other site 316058013807 ATP binding site [chemical binding]; other site 316058013808 Q-loop/lid; other site 316058013809 ABC transporter signature motif; other site 316058013810 Walker B; other site 316058013811 D-loop; other site 316058013812 H-loop/switch region; other site 316058013813 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058013814 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058013815 Walker A/P-loop; other site 316058013816 ATP binding site [chemical binding]; other site 316058013817 Q-loop/lid; other site 316058013818 ABC transporter signature motif; other site 316058013819 Walker B; other site 316058013820 D-loop; other site 316058013821 H-loop/switch region; other site 316058013822 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 316058013823 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 316058013824 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 316058013825 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 316058013826 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 316058013827 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 316058013828 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 316058013829 methylenetetrahydromethanopterin reductase; Provisional; Region: PRK02271 316058013830 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 316058013831 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316058013832 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 316058013833 putative DNA binding site [nucleotide binding]; other site 316058013834 putative Zn2+ binding site [ion binding]; other site 316058013835 Bacterial transcriptional regulator; Region: IclR; pfam01614 316058013836 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 316058013837 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 316058013838 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058013839 catalytic residue [active] 316058013840 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058013841 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 316058013842 ligand binding site [chemical binding]; other site 316058013843 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 316058013844 oligomeric interface; other site 316058013845 putative active site [active] 316058013846 homodimer interface [polypeptide binding]; other site 316058013847 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 316058013848 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316058013849 Response regulator receiver domain; Region: Response_reg; pfam00072 316058013850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058013851 active site 316058013852 phosphorylation site [posttranslational modification] 316058013853 intermolecular recognition site; other site 316058013854 dimerization interface [polypeptide binding]; other site 316058013855 PUCC protein; Region: PUCC; pfam03209 316058013856 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 316058013857 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316058013858 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058013859 active site 316058013860 phosphorylation site [posttranslational modification] 316058013861 intermolecular recognition site; other site 316058013862 dimerization interface [polypeptide binding]; other site 316058013863 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 316058013864 DNA binding residues [nucleotide binding] 316058013865 dimerization interface [polypeptide binding]; other site 316058013866 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 316058013867 GAF domain; Region: GAF; pfam01590 316058013868 Phytochrome region; Region: PHY; pfam00360 316058013869 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 316058013870 dimer interface [polypeptide binding]; other site 316058013871 phosphorylation site [posttranslational modification] 316058013872 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 316058013873 ATP binding site [chemical binding]; other site 316058013874 Mg2+ binding site [ion binding]; other site 316058013875 G-X-G motif; other site 316058013876 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 316058013877 GAF domain; Region: GAF; pfam01590 316058013878 Phytochrome region; Region: PHY; pfam00360 316058013879 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 316058013880 dimer interface [polypeptide binding]; other site 316058013881 phosphorylation site [posttranslational modification] 316058013882 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 316058013883 ATP binding site [chemical binding]; other site 316058013884 Mg2+ binding site [ion binding]; other site 316058013885 G-X-G motif; other site 316058013886 Response regulator receiver domain; Region: Response_reg; pfam00072 316058013887 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058013888 active site 316058013889 phosphorylation site [posttranslational modification] 316058013890 intermolecular recognition site; other site 316058013891 dimerization interface [polypeptide binding]; other site 316058013892 Response regulator receiver domain; Region: Response_reg; pfam00072 316058013893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058013894 active site 316058013895 phosphorylation site [posttranslational modification] 316058013896 intermolecular recognition site; other site 316058013897 dimerization interface [polypeptide binding]; other site 316058013898 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 316058013899 Histidine kinase; Region: HisKA_3; pfam07730 316058013900 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 316058013901 ATP binding site [chemical binding]; other site 316058013902 Mg2+ binding site [ion binding]; other site 316058013903 G-X-G motif; other site 316058013904 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058013905 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058013906 active site 316058013907 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 316058013908 enoyl-CoA hydratase; Provisional; Region: PRK06688 316058013909 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 316058013910 substrate binding site [chemical binding]; other site 316058013911 oxyanion hole (OAH) forming residues; other site 316058013912 trimer interface [polypeptide binding]; other site 316058013913 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 316058013914 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 316058013915 putative active site [active] 316058013916 putative metal binding site [ion binding]; other site 316058013917 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 316058013918 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 316058013919 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 316058013920 putative active site [active] 316058013921 Zn binding site [ion binding]; other site 316058013922 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 316058013923 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 316058013924 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 316058013925 TPP-binding site; other site 316058013926 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 316058013927 PYR/PP interface [polypeptide binding]; other site 316058013928 dimer interface [polypeptide binding]; other site 316058013929 TPP binding site [chemical binding]; other site 316058013930 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316058013931 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 316058013932 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 316058013933 RNA binding surface [nucleotide binding]; other site 316058013934 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 316058013935 multidrug efflux protein; Reviewed; Region: PRK01766 316058013936 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 316058013937 cation binding site [ion binding]; other site 316058013938 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 316058013939 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 316058013940 S-adenosylmethionine binding site [chemical binding]; other site 316058013941 Cell division protein ZapA; Region: ZapA; pfam05164 316058013942 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 316058013943 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 316058013944 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 316058013945 TPP-binding site [chemical binding]; other site 316058013946 dimer interface [polypeptide binding]; other site 316058013947 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 316058013948 PYR/PP interface [polypeptide binding]; other site 316058013949 dimer interface [polypeptide binding]; other site 316058013950 TPP binding site [chemical binding]; other site 316058013951 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316058013952 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 316058013953 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 316058013954 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 316058013955 Phosphoglycerate kinase; Region: PGK; pfam00162 316058013956 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 316058013957 substrate binding site [chemical binding]; other site 316058013958 hinge regions; other site 316058013959 ADP binding site [chemical binding]; other site 316058013960 catalytic site [active] 316058013961 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 316058013962 PemK-like protein; Region: PemK; pfam02452 316058013963 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 316058013964 active site 316058013965 intersubunit interface [polypeptide binding]; other site 316058013966 catalytic residue [active] 316058013967 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 316058013968 thiamine phosphate binding site [chemical binding]; other site 316058013969 pyrophosphate binding site [ion binding]; other site 316058013970 active site 316058013971 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316058013972 Sel1-like repeats; Region: SEL1; smart00671 316058013973 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316058013974 Sel1-like repeats; Region: SEL1; smart00671 316058013975 Sel1-like repeats; Region: SEL1; smart00671 316058013976 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 316058013977 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 316058013978 active site 316058013979 dimerization interface [polypeptide binding]; other site 316058013980 putative protease; Provisional; Region: PRK15447 316058013981 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 316058013982 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 316058013983 Peptidase family U32; Region: Peptidase_U32; pfam01136 316058013984 SCP-2 sterol transfer family; Region: SCP2; cl01225 316058013985 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 316058013986 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 316058013987 Flavoprotein; Region: Flavoprotein; pfam02441 316058013988 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 316058013989 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 316058013990 salt bridge; other site 316058013991 non-specific DNA binding site [nucleotide binding]; other site 316058013992 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 316058013993 sequence-specific DNA binding site [nucleotide binding]; other site 316058013994 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 316058013995 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 316058013996 S-adenosylmethionine binding site [chemical binding]; other site 316058013997 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 316058013998 hypothetical protein; Validated; Region: PRK09039 316058013999 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316058014000 ligand binding site [chemical binding]; other site 316058014001 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 316058014002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316058014003 Coenzyme A binding pocket [chemical binding]; other site 316058014004 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 316058014005 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316058014006 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316058014007 Walker A/P-loop; other site 316058014008 ATP binding site [chemical binding]; other site 316058014009 Q-loop/lid; other site 316058014010 ABC transporter signature motif; other site 316058014011 Walker B; other site 316058014012 D-loop; other site 316058014013 H-loop/switch region; other site 316058014014 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 316058014015 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 316058014016 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 316058014017 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 316058014018 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 316058014019 NAD(P) binding site [chemical binding]; other site 316058014020 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 316058014021 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 316058014022 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 316058014023 PAS fold; Region: PAS_3; pfam08447 316058014024 putative active site [active] 316058014025 heme pocket [chemical binding]; other site 316058014026 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058014027 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058014028 metal binding site [ion binding]; metal-binding site 316058014029 active site 316058014030 I-site; other site 316058014031 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 316058014032 Methyltransferase domain; Region: Methyltransf_23; pfam13489 316058014033 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 316058014034 putative catalytic site [active] 316058014035 putative metal binding site [ion binding]; other site 316058014036 putative phosphate binding site [ion binding]; other site 316058014037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058014038 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 316058014039 hypothetical protein; Validated; Region: PRK00228 316058014040 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 316058014041 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058014042 transcriptional regulator; Provisional; Region: PRK10632 316058014043 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 316058014044 putative effector binding pocket; other site 316058014045 dimerization interface [polypeptide binding]; other site 316058014046 Pirin-related protein [General function prediction only]; Region: COG1741 316058014047 Pirin; Region: Pirin; pfam02678 316058014048 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 316058014049 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 316058014050 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 316058014051 EthD domain; Region: EthD; cl17553 316058014052 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 316058014053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058014054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058014055 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 316058014056 putative effector binding pocket; other site 316058014057 dimerization interface [polypeptide binding]; other site 316058014058 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316058014059 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 316058014060 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316058014061 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 316058014062 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 316058014063 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 316058014064 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 316058014065 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316058014066 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058014067 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058014068 Response regulator receiver domain; Region: Response_reg; pfam00072 316058014069 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058014070 active site 316058014071 phosphorylation site [posttranslational modification] 316058014072 intermolecular recognition site; other site 316058014073 dimerization interface [polypeptide binding]; other site 316058014074 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 316058014075 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 316058014076 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 316058014077 active site 316058014078 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058014079 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 316058014080 dimerization interface [polypeptide binding]; other site 316058014081 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 316058014082 Transglycosylase SLT domain; Region: SLT_2; pfam13406 316058014083 murein hydrolase B; Provisional; Region: PRK10760; cl17906 316058014084 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316058014085 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 316058014086 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 316058014087 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 316058014088 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058014089 catalytic residue [active] 316058014090 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 316058014091 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 316058014092 active site 316058014093 DNA binding site [nucleotide binding] 316058014094 Int/Topo IB signature motif; other site 316058014095 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 316058014096 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 316058014097 dimer interface [polypeptide binding]; other site 316058014098 active site 316058014099 catalytic residue [active] 316058014100 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 316058014101 active site 316058014102 oxyanion hole [active] 316058014103 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 316058014104 catalytic triad [active] 316058014105 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 316058014106 classical (c) SDRs; Region: SDR_c; cd05233 316058014107 NAD(P) binding site [chemical binding]; other site 316058014108 active site 316058014109 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316058014110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058014111 NAD(P) binding site [chemical binding]; other site 316058014112 active site 316058014113 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 316058014114 putative active site [active] 316058014115 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 316058014116 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316058014117 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316058014118 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 316058014119 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 316058014120 active site 316058014121 dimer interface [polypeptide binding]; other site 316058014122 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 316058014123 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 316058014124 active site 316058014125 FMN binding site [chemical binding]; other site 316058014126 substrate binding site [chemical binding]; other site 316058014127 3Fe-4S cluster binding site [ion binding]; other site 316058014128 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 316058014129 domain interface; other site 316058014130 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 316058014131 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 316058014132 putative dimer interface [polypeptide binding]; other site 316058014133 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 316058014134 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316058014135 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 316058014136 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 316058014137 active site 316058014138 tetramer interface; other site 316058014139 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058014140 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058014141 metal binding site [ion binding]; metal-binding site 316058014142 active site 316058014143 I-site; other site 316058014144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5338 316058014145 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 316058014146 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 316058014147 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 316058014148 putative active site [active] 316058014149 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 316058014150 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 316058014151 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 316058014152 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 316058014153 ferrochelatase; Reviewed; Region: hemH; PRK00035 316058014154 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 316058014155 C-terminal domain interface [polypeptide binding]; other site 316058014156 active site 316058014157 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 316058014158 active site 316058014159 N-terminal domain interface [polypeptide binding]; other site 316058014160 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 316058014161 High-affinity nickel-transport protein; Region: NicO; cl00964 316058014162 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 316058014163 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 316058014164 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 316058014165 active site 316058014166 Zn binding site [ion binding]; other site 316058014167 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 316058014168 dimer interface [polypeptide binding]; other site 316058014169 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 316058014170 active site 316058014171 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316058014172 catalytic residues [active] 316058014173 substrate binding site [chemical binding]; other site 316058014174 Predicted acetyltransferase [General function prediction only]; Region: COG3153 316058014175 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 316058014176 homotrimer interaction site [polypeptide binding]; other site 316058014177 putative active site [active] 316058014178 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 316058014179 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 316058014180 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 316058014181 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 316058014182 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 316058014183 MgtC family; Region: MgtC; pfam02308 316058014184 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 316058014185 FOG: WD40 repeat [General function prediction only]; Region: COG2319 316058014186 structural tetrad; other site 316058014187 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 316058014188 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 316058014189 P-loop, Walker A motif; other site 316058014190 Base recognition motif; other site 316058014191 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 316058014192 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 316058014193 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 316058014194 metal binding site [ion binding]; metal-binding site 316058014195 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 316058014196 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 316058014197 ABC-ATPase subunit interface; other site 316058014198 dimer interface [polypeptide binding]; other site 316058014199 putative PBP binding regions; other site 316058014200 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 316058014201 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 316058014202 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316058014203 HAMP domain; Region: HAMP; pfam00672 316058014204 dimerization interface [polypeptide binding]; other site 316058014205 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316058014206 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316058014207 dimer interface [polypeptide binding]; other site 316058014208 putative CheW interface [polypeptide binding]; other site 316058014209 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316058014210 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 316058014211 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 316058014212 substrate-cofactor binding pocket; other site 316058014213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058014214 catalytic residue [active] 316058014215 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 316058014216 Na binding site [ion binding]; other site 316058014217 PAS fold; Region: PAS_7; pfam12860 316058014218 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058014219 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 316058014220 dimer interface [polypeptide binding]; other site 316058014221 phosphorylation site [posttranslational modification] 316058014222 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 316058014223 ATP binding site [chemical binding]; other site 316058014224 Mg2+ binding site [ion binding]; other site 316058014225 G-X-G motif; other site 316058014226 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058014227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058014228 active site 316058014229 phosphorylation site [posttranslational modification] 316058014230 intermolecular recognition site; other site 316058014231 dimerization interface [polypeptide binding]; other site 316058014232 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316058014233 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058014234 active site 316058014235 phosphorylation site [posttranslational modification] 316058014236 intermolecular recognition site; other site 316058014237 dimerization interface [polypeptide binding]; other site 316058014238 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 316058014239 DNA binding residues [nucleotide binding] 316058014240 dimerization interface [polypeptide binding]; other site 316058014241 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 316058014242 putative substrate translocation pore; other site 316058014243 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 316058014244 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 316058014245 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 316058014246 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 316058014247 putative catalytic residue [active] 316058014248 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 316058014249 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 316058014250 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 316058014251 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 316058014252 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 316058014253 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 316058014254 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 316058014255 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 316058014256 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 316058014257 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 316058014258 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 316058014259 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 316058014260 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316058014261 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 316058014262 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 316058014263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316058014264 catalytic residue [active] 316058014265 YcfA-like protein; Region: YcfA; pfam07927 316058014266 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 316058014267 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 316058014268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 316058014269 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 316058014270 Subunit III/VIIa interface [polypeptide binding]; other site 316058014271 Phospholipid binding site [chemical binding]; other site 316058014272 Subunit I/III interface [polypeptide binding]; other site 316058014273 Subunit III/VIb interface [polypeptide binding]; other site 316058014274 Subunit III/VIa interface; other site 316058014275 Subunit III/Vb interface [polypeptide binding]; other site 316058014276 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 316058014277 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 316058014278 UbiA prenyltransferase family; Region: UbiA; pfam01040 316058014279 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 316058014280 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 316058014281 Subunit I/III interface [polypeptide binding]; other site 316058014282 D-pathway; other site 316058014283 Subunit I/VIIc interface [polypeptide binding]; other site 316058014284 Subunit I/IV interface [polypeptide binding]; other site 316058014285 Subunit I/II interface [polypeptide binding]; other site 316058014286 Low-spin heme (heme a) binding site [chemical binding]; other site 316058014287 Subunit I/VIIa interface [polypeptide binding]; other site 316058014288 Subunit I/VIa interface [polypeptide binding]; other site 316058014289 Dimer interface; other site 316058014290 Putative water exit pathway; other site 316058014291 Binuclear center (heme a3/CuB) [ion binding]; other site 316058014292 K-pathway; other site 316058014293 Subunit I/Vb interface [polypeptide binding]; other site 316058014294 Putative proton exit pathway; other site 316058014295 Subunit I/VIb interface; other site 316058014296 Subunit I/VIc interface [polypeptide binding]; other site 316058014297 Electron transfer pathway; other site 316058014298 Subunit I/VIIIb interface [polypeptide binding]; other site 316058014299 Subunit I/VIIb interface [polypeptide binding]; other site 316058014300 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 316058014301 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 316058014302 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 316058014303 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 316058014304 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 316058014305 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316058014306 MarR family; Region: MarR_2; cl17246 316058014307 protease TldD; Provisional; Region: tldD; PRK10735 316058014308 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 316058014309 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 316058014310 Catalytic site [active] 316058014311 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 316058014312 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 316058014313 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 316058014314 catalytic residues [active] 316058014315 PAN domain; Region: PAN_4; pfam14295 316058014316 putative binding site; other site 316058014317 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 316058014318 putative binding site; other site 316058014319 glutamate--cysteine ligase; Region: PLN02611 316058014320 MarR family; Region: MarR_2; pfam12802 316058014321 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316058014322 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 316058014323 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 316058014324 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 316058014325 dimerization interface [polypeptide binding]; other site 316058014326 DPS ferroxidase diiron center [ion binding]; other site 316058014327 ion pore; other site 316058014328 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 316058014329 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316058014330 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316058014331 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 316058014332 dimerization interface [polypeptide binding]; other site 316058014333 glutathionine S-transferase; Provisional; Region: PRK10542 316058014334 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 316058014335 C-terminal domain interface [polypeptide binding]; other site 316058014336 GSH binding site (G-site) [chemical binding]; other site 316058014337 dimer interface [polypeptide binding]; other site 316058014338 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 316058014339 dimer interface [polypeptide binding]; other site 316058014340 N-terminal domain interface [polypeptide binding]; other site 316058014341 substrate binding pocket (H-site) [chemical binding]; other site 316058014342 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 316058014343 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 316058014344 substrate binding site [chemical binding]; other site 316058014345 oxyanion hole (OAH) forming residues; other site 316058014346 trimer interface [polypeptide binding]; other site 316058014347 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 316058014348 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316058014349 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 316058014350 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 316058014351 dimer interface [polypeptide binding]; other site 316058014352 active site 316058014353 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 316058014354 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 316058014355 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 316058014356 FAD binding site [chemical binding]; other site 316058014357 substrate binding site [chemical binding]; other site 316058014358 catalytic residues [active] 316058014359 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 316058014360 SnoaL-like domain; Region: SnoaL_2; pfam12680 316058014361 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316058014362 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316058014363 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316058014364 Sel1-like repeats; Region: SEL1; smart00671 316058014365 Sel1-like repeats; Region: SEL1; smart00671 316058014366 Sel1-like repeats; Region: SEL1; smart00671 316058014367 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 316058014368 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 316058014369 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 316058014370 putative active site [active] 316058014371 putative metal binding site [ion binding]; other site 316058014372 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 316058014373 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 316058014374 putative Mg++ binding site [ion binding]; other site 316058014375 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 316058014376 nucleotide binding region [chemical binding]; other site 316058014377 ATP-binding site [chemical binding]; other site 316058014378 DEAD/H associated; Region: DEAD_assoc; pfam08494 316058014379 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 316058014380 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058014381 putative ligand binding site [chemical binding]; other site 316058014382 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316058014383 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316058014384 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 316058014385 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316058014386 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 316058014387 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 316058014388 active site 316058014389 DNA binding site [nucleotide binding] 316058014390 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 316058014391 DNA binding site [nucleotide binding] 316058014392 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 316058014393 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 316058014394 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 316058014395 active site clefts [active] 316058014396 zinc binding site [ion binding]; other site 316058014397 dimer interface [polypeptide binding]; other site 316058014398 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 316058014399 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 316058014400 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 316058014401 quinone interaction residues [chemical binding]; other site 316058014402 active site 316058014403 catalytic residues [active] 316058014404 FMN binding site [chemical binding]; other site 316058014405 substrate binding site [chemical binding]; other site 316058014406 Protein of unknown function (DUF952); Region: DUF952; pfam06108 316058014407 Predicted transcriptional regulator [Transcription]; Region: COG2932 316058014408 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 316058014409 Catalytic site [active] 316058014410 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 316058014411 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 316058014412 active site 316058014413 zinc binding site [ion binding]; other site 316058014414 Caspase domain; Region: Peptidase_C14; pfam00656 316058014415 Staphylococcal nuclease homologues; Region: SNc; smart00318 316058014416 Catalytic site; other site 316058014417 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 316058014418 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 316058014419 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316058014420 catalytic residue [active] 316058014421 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 316058014422 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 316058014423 putative ligand binding site [chemical binding]; other site 316058014424 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058014425 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058014426 Walker A/P-loop; other site 316058014427 ATP binding site [chemical binding]; other site 316058014428 Q-loop/lid; other site 316058014429 ABC transporter signature motif; other site 316058014430 Walker B; other site 316058014431 D-loop; other site 316058014432 H-loop/switch region; other site 316058014433 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058014434 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 316058014435 TM-ABC transporter signature motif; other site 316058014436 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058014437 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058014438 Walker A/P-loop; other site 316058014439 ATP binding site [chemical binding]; other site 316058014440 Q-loop/lid; other site 316058014441 ABC transporter signature motif; other site 316058014442 Walker B; other site 316058014443 D-loop; other site 316058014444 H-loop/switch region; other site 316058014445 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 316058014446 TM-ABC transporter signature motif; other site 316058014447 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 316058014448 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 316058014449 heat shock protein HtpX; Provisional; Region: PRK01345 316058014450 Cytochrome P450; Region: p450; cl12078 316058014451 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 316058014452 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316058014453 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 316058014454 NAD(P) binding site [chemical binding]; other site 316058014455 active site 316058014456 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058014457 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058014458 metal binding site [ion binding]; metal-binding site 316058014459 active site 316058014460 I-site; other site 316058014461 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 316058014462 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 316058014463 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 316058014464 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058014465 active site 316058014466 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 316058014467 PAS domain; Region: PAS; smart00091 316058014468 PAS fold; Region: PAS_7; pfam12860 316058014469 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 316058014470 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316058014471 metal binding site [ion binding]; metal-binding site 316058014472 active site 316058014473 I-site; other site 316058014474 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 316058014475 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 316058014476 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 316058014477 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316058014478 Soluble P-type ATPase [General function prediction only]; Region: COG4087 316058014479 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 316058014480 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 316058014481 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 316058014482 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 316058014483 Ligand Binding Site [chemical binding]; other site 316058014484 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 316058014485 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 316058014486 dimer interface [polypeptide binding]; other site 316058014487 phosphorylation site [posttranslational modification] 316058014488 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 316058014489 ATP binding site [chemical binding]; other site 316058014490 Mg2+ binding site [ion binding]; other site 316058014491 G-X-G motif; other site 316058014492 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316058014493 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058014494 active site 316058014495 phosphorylation site [posttranslational modification] 316058014496 intermolecular recognition site; other site 316058014497 dimerization interface [polypeptide binding]; other site 316058014498 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 316058014499 DNA binding site [nucleotide binding] 316058014500 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 316058014501 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 316058014502 hypothetical protein; Provisional; Region: PRK11770 316058014503 Domain of unknown function (DUF307); Region: DUF307; pfam03733 316058014504 Domain of unknown function (DUF307); Region: DUF307; pfam03733 316058014505 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 316058014506 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 316058014507 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 316058014508 substrate binding site [chemical binding]; other site 316058014509 oxyanion hole (OAH) forming residues; other site 316058014510 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 316058014511 substrate binding site [chemical binding]; other site 316058014512 trimer interface [polypeptide binding]; other site 316058014513 oxyanion hole (OAH) forming residues; other site 316058014514 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316058014515 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 316058014516 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 316058014517 dimer interface [polypeptide binding]; other site 316058014518 acyl-activating enzyme (AAE) consensus motif; other site 316058014519 putative active site [active] 316058014520 putative AMP binding site [chemical binding]; other site 316058014521 putative CoA binding site [chemical binding]; other site 316058014522 chemical substrate binding site [chemical binding]; other site 316058014523 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 316058014524 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 316058014525 non-specific DNA binding site [nucleotide binding]; other site 316058014526 salt bridge; other site 316058014527 sequence-specific DNA binding site [nucleotide binding]; other site 316058014528 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 316058014529 ADP binding site [chemical binding]; other site 316058014530 magnesium binding site [ion binding]; other site 316058014531 putative shikimate binding site; other site 316058014532 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 316058014533 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316058014534 Walker A/P-loop; other site 316058014535 ATP binding site [chemical binding]; other site 316058014536 Q-loop/lid; other site 316058014537 ABC transporter signature motif; other site 316058014538 Walker B; other site 316058014539 D-loop; other site 316058014540 H-loop/switch region; other site 316058014541 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 316058014542 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316058014543 Walker A/P-loop; other site 316058014544 ATP binding site [chemical binding]; other site 316058014545 Q-loop/lid; other site 316058014546 ABC transporter signature motif; other site 316058014547 Walker B; other site 316058014548 D-loop; other site 316058014549 H-loop/switch region; other site 316058014550 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 316058014551 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 316058014552 TM-ABC transporter signature motif; other site 316058014553 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 316058014554 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 316058014555 TM-ABC transporter signature motif; other site 316058014556 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058014557 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 316058014558 putative ligand binding site [chemical binding]; other site 316058014559 PilZ domain; Region: PilZ; pfam07238 316058014560 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 316058014561 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 316058014562 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 316058014563 dimerization interface [polypeptide binding]; other site 316058014564 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058014565 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 316058014566 ATP binding site [chemical binding]; other site 316058014567 G-X-G motif; other site 316058014568 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 316058014569 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058014570 active site 316058014571 phosphorylation site [posttranslational modification] 316058014572 intermolecular recognition site; other site 316058014573 dimerization interface [polypeptide binding]; other site 316058014574 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 316058014575 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058014576 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 316058014577 dimer interface [polypeptide binding]; other site 316058014578 phosphorylation site [posttranslational modification] 316058014579 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 316058014580 ATP binding site [chemical binding]; other site 316058014581 Mg2+ binding site [ion binding]; other site 316058014582 G-X-G motif; other site 316058014583 osmolarity response regulator; Provisional; Region: ompR; PRK09468 316058014584 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058014585 active site 316058014586 phosphorylation site [posttranslational modification] 316058014587 intermolecular recognition site; other site 316058014588 dimerization interface [polypeptide binding]; other site 316058014589 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 316058014590 DNA binding site [nucleotide binding] 316058014591 RNA polymerase sigma factor; Provisional; Region: PRK12515 316058014592 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316058014593 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 316058014594 DNA binding residues [nucleotide binding] 316058014595 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 316058014596 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 316058014597 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 316058014598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 316058014599 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316058014600 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 316058014601 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 316058014602 substrate binding pocket [chemical binding]; other site 316058014603 membrane-bound complex binding site; other site 316058014604 hinge residues; other site 316058014605 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 316058014606 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 316058014607 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316058014608 active site 316058014609 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 316058014610 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316058014611 active site 316058014612 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 316058014613 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_12; cd07255 316058014614 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 316058014615 putative metal binding site [ion binding]; other site 316058014616 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 316058014617 putative substrate translocation pore; other site 316058014618 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 316058014619 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 316058014620 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316058014621 putative substrate translocation pore; other site 316058014622 Protein of unknown function (DUF938); Region: DUF938; pfam06080 316058014623 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 316058014624 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 316058014625 N-terminal plug; other site 316058014626 ligand-binding site [chemical binding]; other site 316058014627 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 316058014628 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058014629 putative ligand binding site [chemical binding]; other site 316058014630 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 316058014631 D-galactonate transporter; Region: 2A0114; TIGR00893 316058014632 putative substrate translocation pore; other site 316058014633 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 316058014634 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316058014635 Walker A/P-loop; other site 316058014636 ATP binding site [chemical binding]; other site 316058014637 Q-loop/lid; other site 316058014638 ABC transporter signature motif; other site 316058014639 Walker B; other site 316058014640 D-loop; other site 316058014641 H-loop/switch region; other site 316058014642 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 316058014643 FtsX-like permease family; Region: FtsX; pfam02687 316058014644 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 316058014645 MAPEG family; Region: MAPEG; pfam01124 316058014646 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 316058014647 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 316058014648 putative ligand binding site [chemical binding]; other site 316058014649 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 316058014650 heat shock protein 90; Provisional; Region: PRK05218 316058014651 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 316058014652 ATP binding site [chemical binding]; other site 316058014653 Mg2+ binding site [ion binding]; other site 316058014654 G-X-G motif; other site 316058014655 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316058014656 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 316058014657 ATP binding site [chemical binding]; other site 316058014658 Mg2+ binding site [ion binding]; other site 316058014659 G-X-G motif; other site 316058014660 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 316058014661 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 316058014662 active site 316058014663 phosphorylation site [posttranslational modification] 316058014664 intermolecular recognition site; other site 316058014665 dimerization interface [polypeptide binding]; other site 316058014666 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 316058014667 DNA binding site [nucleotide binding] 316058014668 Predicted membrane protein [Function unknown]; Region: COG3212 316058014669 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 316058014670 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 316058014671 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 316058014672 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 316058014673 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 316058014674 active site 316058014675 dimer interface [polypeptide binding]; other site 316058014676 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 316058014677 metal binding site [ion binding]; metal-binding site 316058014678 acyl-CoA synthetase; Provisional; Region: PRK13391 316058014679 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 316058014680 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 316058014681 acyl-activating enzyme (AAE) consensus motif; other site 316058014682 acyl-activating enzyme (AAE) consensus motif; other site 316058014683 putative AMP binding site [chemical binding]; other site 316058014684 putative active site [active] 316058014685 putative CoA binding site [chemical binding]; other site 316058014686 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 316058014687 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 316058014688 ATP binding site [chemical binding]; other site 316058014689 putative Mg++ binding site [ion binding]; other site 316058014690 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 316058014691 nucleotide binding region [chemical binding]; other site 316058014692 ATP-binding site [chemical binding]; other site 316058014693 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 316058014694 HRDC domain; Region: HRDC; pfam00570 316058014695 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 316058014696 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 316058014697 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 316058014698 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 316058014699 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 316058014700 acyl-activating enzyme (AAE) consensus motif; other site 316058014701 putative AMP binding site [chemical binding]; other site 316058014702 putative active site [active] 316058014703 putative CoA binding site [chemical binding]; other site 316058014704 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316058014705 Zn2+ binding site [ion binding]; other site 316058014706 Mg2+ binding site [ion binding]; other site 316058014707 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 316058014708 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 316058014709 SLBB domain; Region: SLBB; pfam10531 316058014710 methionine sulfoxide reductase A; Provisional; Region: PRK00058 316058014711 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239