-- dump date 20140619_063603 -- class Genbank::misc_feature -- table misc_feature_note -- id note 485916000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 485916000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 485916000003 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 485916000004 Walker A motif; other site 485916000005 ATP binding site [chemical binding]; other site 485916000006 Walker B motif; other site 485916000007 arginine finger; other site 485916000008 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 485916000009 DnaA box-binding interface [nucleotide binding]; other site 485916000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 485916000011 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 485916000012 putative DNA binding surface [nucleotide binding]; other site 485916000013 dimer interface [polypeptide binding]; other site 485916000014 beta-clamp/clamp loader binding surface; other site 485916000015 beta-clamp/translesion DNA polymerase binding surface; other site 485916000016 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 485916000017 RNA binding surface [nucleotide binding]; other site 485916000018 recombination protein F; Reviewed; Region: recF; PRK00064 485916000019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916000020 Walker A/P-loop; other site 485916000021 ATP binding site [chemical binding]; other site 485916000022 Q-loop/lid; other site 485916000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916000024 ABC transporter signature motif; other site 485916000025 Walker B; other site 485916000026 D-loop; other site 485916000027 H-loop/switch region; other site 485916000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 485916000029 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 485916000030 Mg2+ binding site [ion binding]; other site 485916000031 G-X-G motif; other site 485916000032 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 485916000033 anchoring element; other site 485916000034 dimer interface [polypeptide binding]; other site 485916000035 ATP binding site [chemical binding]; other site 485916000036 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 485916000037 active site 485916000038 putative metal-binding site [ion binding]; other site 485916000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 485916000040 DNA gyrase subunit A; Validated; Region: PRK05560 485916000041 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 485916000042 CAP-like domain; other site 485916000043 active site 485916000044 primary dimer interface [polypeptide binding]; other site 485916000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 485916000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 485916000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 485916000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 485916000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 485916000050 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 485916000051 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 485916000052 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 485916000053 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 485916000054 GDP-binding site [chemical binding]; other site 485916000055 ACT binding site; other site 485916000056 IMP binding site; other site 485916000057 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 485916000058 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 485916000059 ATP binding site [chemical binding]; other site 485916000060 putative Mg++ binding site [ion binding]; other site 485916000061 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 485916000062 nucleotide binding region [chemical binding]; other site 485916000063 ATP-binding site [chemical binding]; other site 485916000064 RQC domain; Region: RQC; pfam09382 485916000065 HRDC domain; Region: HRDC; pfam00570 485916000066 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 485916000067 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 485916000068 SecA binding site; other site 485916000069 Preprotein binding site; other site 485916000070 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 485916000071 putative active site [active] 485916000072 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 485916000073 Helix-turn-helix domain; Region: HTH_17; pfam12728 485916000074 PBP superfamily domain; Region: PBP_like; pfam12727 485916000075 LrgA family; Region: LrgA; pfam03788 485916000076 LrgB-like family; Region: LrgB; pfam04172 485916000077 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 485916000078 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 485916000079 putative DNA binding site [nucleotide binding]; other site 485916000080 putative Zn2+ binding site [ion binding]; other site 485916000081 AsnC family; Region: AsnC_trans_reg; pfam01037 485916000082 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 485916000083 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 485916000084 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 485916000085 B12 binding site [chemical binding]; other site 485916000086 cobalt ligand [ion binding]; other site 485916000087 Monomethylamine methyltransferase MtmB; Region: MtmB; pfam05369 485916000088 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 485916000089 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 485916000090 catalytic loop [active] 485916000091 iron binding site [ion binding]; other site 485916000092 pyrrolysyl-tRNA synthetase, C-terminal region; Region: PylS_Cterm; TIGR02367 485916000093 pyrrolysine biosynthesis radical SAM protein; Region: pyrrolys_PylB; TIGR03910 485916000094 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 485916000095 FeS/SAM binding site; other site 485916000096 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 485916000097 pyrrolysine biosynthesis protein PylC; Region: pyrrolys_PylC; TIGR03909 485916000098 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 485916000099 pyrrolysine biosynthesis protein PylD; Region: pyrrolys_PylD; TIGR03911 485916000100 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 485916000101 NAD(P) binding pocket [chemical binding]; other site 485916000102 pyrrolysyl-tRNA synthetase, N-terminal region; Region: PylS_Nterm; TIGR03912 485916000103 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 485916000104 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 485916000105 Nitrogen regulatory protein P-II; Region: P-II; smart00938 485916000106 Protein of unknown function DUF45; Region: DUF45; pfam01863 485916000107 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 485916000108 Predicted integral membrane protein [Function unknown]; Region: COG5658 485916000109 SdpI/YhfL protein family; Region: SdpI; pfam13630 485916000110 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 485916000111 dimerization interface [polypeptide binding]; other site 485916000112 putative DNA binding site [nucleotide binding]; other site 485916000113 putative Zn2+ binding site [ion binding]; other site 485916000114 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 485916000115 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 485916000116 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 485916000117 germination protein YpeB; Region: spore_YpeB; TIGR02889 485916000118 hypothetical protein; Validated; Region: PRK07682 485916000119 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 485916000120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916000121 homodimer interface [polypeptide binding]; other site 485916000122 catalytic residue [active] 485916000123 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 485916000124 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 485916000125 acyl-activating enzyme (AAE) consensus motif; other site 485916000126 AMP binding site [chemical binding]; other site 485916000127 active site 485916000128 CoA binding site [chemical binding]; other site 485916000129 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916000130 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916000131 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 485916000132 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 485916000133 dimer interface [polypeptide binding]; other site 485916000134 PYR/PP interface [polypeptide binding]; other site 485916000135 TPP binding site [chemical binding]; other site 485916000136 substrate binding site [chemical binding]; other site 485916000137 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 485916000138 TPP-binding site; other site 485916000139 4Fe-4S binding domain; Region: Fer4; cl02805 485916000140 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 485916000141 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 485916000142 PAS domain S-box; Region: sensory_box; TIGR00229 485916000143 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 485916000144 putative active site [active] 485916000145 heme pocket [chemical binding]; other site 485916000146 PAS domain S-box; Region: sensory_box; TIGR00229 485916000147 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 485916000148 putative active site [active] 485916000149 heme pocket [chemical binding]; other site 485916000150 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916000151 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916000152 metal binding site [ion binding]; metal-binding site 485916000153 active site 485916000154 I-site; other site 485916000155 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 485916000156 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485916000157 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916000158 active site 485916000159 phosphorylation site [posttranslational modification] 485916000160 intermolecular recognition site; other site 485916000161 dimerization interface [polypeptide binding]; other site 485916000162 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 485916000163 Walker A motif; other site 485916000164 ATP binding site [chemical binding]; other site 485916000165 Walker B motif; other site 485916000166 arginine finger; other site 485916000167 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 485916000168 PAS domain S-box; Region: sensory_box; TIGR00229 485916000169 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 485916000170 putative active site [active] 485916000171 heme pocket [chemical binding]; other site 485916000172 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 485916000173 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 485916000174 putative active site [active] 485916000175 heme pocket [chemical binding]; other site 485916000176 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 485916000177 putative active site [active] 485916000178 heme pocket [chemical binding]; other site 485916000179 PAS domain S-box; Region: sensory_box; TIGR00229 485916000180 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 485916000181 putative active site [active] 485916000182 heme pocket [chemical binding]; other site 485916000183 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 485916000184 dimer interface [polypeptide binding]; other site 485916000185 phosphorylation site [posttranslational modification] 485916000186 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 485916000187 ATP binding site [chemical binding]; other site 485916000188 Mg2+ binding site [ion binding]; other site 485916000189 G-X-G motif; other site 485916000190 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 485916000191 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 485916000192 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 485916000193 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 485916000194 active site 485916000195 HIGH motif; other site 485916000196 KMSK motif region; other site 485916000197 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 485916000198 tRNA binding surface [nucleotide binding]; other site 485916000199 anticodon binding site; other site 485916000200 XapX domain; Region: XapX; TIGR03510 485916000201 CTP synthetase; Validated; Region: pyrG; PRK05380 485916000202 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 485916000203 Catalytic site [active] 485916000204 active site 485916000205 UTP binding site [chemical binding]; other site 485916000206 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 485916000207 active site 485916000208 putative oxyanion hole; other site 485916000209 catalytic triad [active] 485916000210 Response regulator receiver domain; Region: Response_reg; pfam00072 485916000211 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916000212 active site 485916000213 phosphorylation site [posttranslational modification] 485916000214 intermolecular recognition site; other site 485916000215 dimerization interface [polypeptide binding]; other site 485916000216 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 485916000217 intersubunit interface [polypeptide binding]; other site 485916000218 active site 485916000219 zinc binding site [ion binding]; other site 485916000220 Na+ binding site [ion binding]; other site 485916000221 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 485916000222 active site 485916000223 intersubunit interactions; other site 485916000224 catalytic residue [active] 485916000225 transcription termination factor Rho; Provisional; Region: rho; PRK09376 485916000226 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 485916000227 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 485916000228 RNA binding site [nucleotide binding]; other site 485916000229 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 485916000230 multimer interface [polypeptide binding]; other site 485916000231 Walker A motif; other site 485916000232 ATP binding site [chemical binding]; other site 485916000233 Walker B motif; other site 485916000234 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 485916000235 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916000236 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916000237 Peptidase family M23; Region: Peptidase_M23; pfam01551 485916000238 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 485916000239 Radical SAM superfamily; Region: Radical_SAM; pfam04055 485916000240 FeS/SAM binding site; other site 485916000241 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 485916000242 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 485916000243 peptide chain release factor 1; Validated; Region: prfA; PRK00591 485916000244 This domain is found in peptide chain release factors; Region: PCRF; smart00937 485916000245 RF-1 domain; Region: RF-1; pfam00472 485916000246 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 485916000247 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 485916000248 S-adenosylmethionine binding site [chemical binding]; other site 485916000249 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 485916000250 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485916000251 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916000252 active site 485916000253 phosphorylation site [posttranslational modification] 485916000254 intermolecular recognition site; other site 485916000255 dimerization interface [polypeptide binding]; other site 485916000256 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 485916000257 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 485916000258 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 485916000259 FeS/SAM binding site; other site 485916000260 CXXX repeat peptide maturase; Region: CXXX_matur; TIGR04119 485916000261 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 485916000262 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 485916000263 TPR motif; other site 485916000264 TPR repeat; Region: TPR_11; pfam13414 485916000265 binding surface 485916000266 TPR repeat; Region: TPR_11; pfam13414 485916000267 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 485916000268 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 485916000269 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 485916000270 hinge; other site 485916000271 active site 485916000272 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 485916000273 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916000274 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 485916000275 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 485916000276 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485916000277 Cysteine-rich domain; Region: CCG; pfam02754 485916000278 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 485916000279 DsrC like protein; Region: DsrC; pfam04358 485916000280 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 485916000281 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 485916000282 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 485916000283 catalytic triad [active] 485916000284 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 485916000285 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 485916000286 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916000287 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 485916000288 TPR repeat; Region: TPR_11; pfam13414 485916000289 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 485916000290 binding surface 485916000291 TPR motif; other site 485916000292 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 485916000293 binding surface 485916000294 TPR motif; other site 485916000295 TPR repeat; Region: TPR_11; pfam13414 485916000296 HEAT repeats; Region: HEAT_2; pfam13646 485916000297 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 485916000298 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 485916000299 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 485916000300 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 485916000301 dimer interface [polypeptide binding]; other site 485916000302 PYR/PP interface [polypeptide binding]; other site 485916000303 TPP binding site [chemical binding]; other site 485916000304 substrate binding site [chemical binding]; other site 485916000305 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 485916000306 Domain of unknown function; Region: EKR; pfam10371 485916000307 4Fe-4S binding domain; Region: Fer4_6; pfam12837 485916000308 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 485916000309 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 485916000310 TPP-binding site [chemical binding]; other site 485916000311 dimer interface [polypeptide binding]; other site 485916000312 S-layer homology domain; Region: SLH; pfam00395 485916000313 S-layer homology domain; Region: SLH; pfam00395 485916000314 S-layer homology domain; Region: SLH; pfam00395 485916000315 Putative motility protein; Region: YjfB_motility; pfam14070 485916000316 GAF domain; Region: GAF_2; pfam13185 485916000317 GAF domain; Region: GAF; pfam01590 485916000318 PAS domain S-box; Region: sensory_box; TIGR00229 485916000319 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 485916000320 putative active site [active] 485916000321 heme pocket [chemical binding]; other site 485916000322 PAS domain S-box; Region: sensory_box; TIGR00229 485916000323 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 485916000324 putative active site [active] 485916000325 heme pocket [chemical binding]; other site 485916000326 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 485916000327 dimer interface [polypeptide binding]; other site 485916000328 phosphorylation site [posttranslational modification] 485916000329 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 485916000330 ATP binding site [chemical binding]; other site 485916000331 Mg2+ binding site [ion binding]; other site 485916000332 G-X-G motif; other site 485916000333 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 485916000334 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 485916000335 Walker A motif; other site 485916000336 ATP binding site [chemical binding]; other site 485916000337 Walker B motif; other site 485916000338 arginine finger; other site 485916000339 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 485916000340 hypothetical protein; Validated; Region: PRK00153 485916000341 recombination protein RecR; Reviewed; Region: recR; PRK00076 485916000342 RecR protein; Region: RecR; pfam02132 485916000343 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 485916000344 putative active site [active] 485916000345 putative metal-binding site [ion binding]; other site 485916000346 tetramer interface [polypeptide binding]; other site 485916000347 SigmaK-factor processing regulatory protein BofA; Region: BofA; pfam07441 485916000348 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 485916000349 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 485916000350 dimer interface [polypeptide binding]; other site 485916000351 PYR/PP interface [polypeptide binding]; other site 485916000352 TPP binding site [chemical binding]; other site 485916000353 substrate binding site [chemical binding]; other site 485916000354 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 485916000355 Domain of unknown function; Region: EKR; pfam10371 485916000356 4Fe-4S binding domain; Region: Fer4_6; pfam12837 485916000357 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 485916000358 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 485916000359 TPP-binding site [chemical binding]; other site 485916000360 dimer interface [polypeptide binding]; other site 485916000361 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 485916000362 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 485916000363 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 485916000364 homodimer interface [polypeptide binding]; other site 485916000365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916000366 catalytic residue [active] 485916000367 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 485916000368 thymidylate kinase; Validated; Region: tmk; PRK00698 485916000369 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 485916000370 TMP-binding site; other site 485916000371 ATP-binding site [chemical binding]; other site 485916000372 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 485916000373 DNA polymerase III subunit delta'; Validated; Region: PRK08485 485916000374 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 485916000375 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 485916000376 Protein of unknown function (DUF972); Region: DUF972; pfam06156 485916000377 Predicted methyltransferases [General function prediction only]; Region: COG0313 485916000378 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 485916000379 putative SAM binding site [chemical binding]; other site 485916000380 putative homodimer interface [polypeptide binding]; other site 485916000381 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 485916000382 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 485916000383 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 485916000384 active site 485916000385 HIGH motif; other site 485916000386 KMSKS motif; other site 485916000387 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 485916000388 tRNA binding surface [nucleotide binding]; other site 485916000389 anticodon binding site; other site 485916000390 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 485916000391 active site 485916000392 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 485916000393 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 485916000394 homodimer interface [polypeptide binding]; other site 485916000395 Walker A motif; other site 485916000396 ATP binding site [chemical binding]; other site 485916000397 hydroxycobalamin binding site [chemical binding]; other site 485916000398 Walker B motif; other site 485916000399 Domain of unknown function (DUF348); Region: DUF348; pfam03990 485916000400 Domain of unknown function (DUF348); Region: DUF348; pfam03990 485916000401 G5 domain; Region: G5; pfam07501 485916000402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 485916000403 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 485916000404 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 485916000405 Protein of unknown function (DUF458); Region: DUF458; pfam04308 485916000406 YabG peptidase U57; Region: Peptidase_U57; pfam05582 485916000407 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 485916000408 Domain of unknown function DUF20; Region: UPF0118; pfam01594 485916000409 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 485916000410 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 485916000411 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 485916000412 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 485916000413 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 485916000414 putative active site [active] 485916000415 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 485916000416 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 485916000417 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 485916000418 Walker A/P-loop; other site 485916000419 ATP binding site [chemical binding]; other site 485916000420 Q-loop/lid; other site 485916000421 ABC transporter signature motif; other site 485916000422 Walker B; other site 485916000423 D-loop; other site 485916000424 H-loop/switch region; other site 485916000425 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 485916000426 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 485916000427 dimer interface [polypeptide binding]; other site 485916000428 conserved gate region; other site 485916000429 ABC-ATPase subunit interface; other site 485916000430 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 485916000431 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 485916000432 dimer interface [polypeptide binding]; other site 485916000433 conserved gate region; other site 485916000434 putative PBP binding loops; other site 485916000435 ABC-ATPase subunit interface; other site 485916000436 PBP superfamily domain; Region: PBP_like_2; cl17296 485916000437 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 485916000438 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916000439 ABC transporter signature motif; other site 485916000440 Walker B; other site 485916000441 D-loop; other site 485916000442 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916000443 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 485916000444 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 485916000445 RHS Repeat; Region: RHS_repeat; pfam05593 485916000446 RHS Repeat; Region: RHS_repeat; cl11982 485916000447 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916000448 RHS Repeat; Region: RHS_repeat; pfam05593 485916000449 RHS Repeat; Region: RHS_repeat; pfam05593 485916000450 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916000451 Protein of unknown function (DUF3887); Region: DUF3887; pfam13026 485916000452 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916000453 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 485916000454 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916000455 Helix-turn-helix domain; Region: HTH_28; pfam13518 485916000456 Winged helix-turn helix; Region: HTH_29; pfam13551 485916000457 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916000458 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916000459 Helix-turn-helix domain; Region: HTH_28; pfam13518 485916000460 Winged helix-turn helix; Region: HTH_29; pfam13551 485916000461 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916000462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916000463 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916000464 RHS Repeat; Region: RHS_repeat; cl11982 485916000465 RHS Repeat; Region: RHS_repeat; pfam05593 485916000466 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916000467 Homeodomain-like domain; Region: HTH_23; pfam13384 485916000468 Winged helix-turn helix; Region: HTH_29; pfam13551 485916000469 Winged helix-turn helix; Region: HTH_33; pfam13592 485916000470 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916000471 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916000472 RHS Repeat; Region: RHS_repeat; cl11982 485916000473 RHS Repeat; Region: RHS_repeat; cl11982 485916000474 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 485916000475 Uncharacterized conserved protein [Function unknown]; Region: COG5464 485916000476 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916000477 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 485916000478 HicB family; Region: HicB; pfam05534 485916000479 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 485916000480 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 485916000481 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 485916000482 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916000483 RHS Repeat; Region: RHS_repeat; pfam05593 485916000484 RHS Repeat; Region: RHS_repeat; pfam05593 485916000485 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 485916000486 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916000487 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 485916000488 non-specific DNA binding site [nucleotide binding]; other site 485916000489 salt bridge; other site 485916000490 sequence-specific DNA binding site [nucleotide binding]; other site 485916000491 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 485916000492 Penicillinase repressor; Region: Pencillinase_R; pfam03965 485916000493 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 485916000494 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 485916000495 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 485916000496 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 485916000497 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 485916000498 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 485916000499 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 485916000500 Transcriptional regulator [Transcription]; Region: LysR; COG0583 485916000501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 485916000502 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 485916000503 putative dimerization interface [polypeptide binding]; other site 485916000504 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 485916000505 catalytic loop [active] 485916000506 iron binding site [ion binding]; other site 485916000507 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 485916000508 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 485916000509 4Fe-4S binding domain; Region: Fer4; pfam00037 485916000510 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 485916000511 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 485916000512 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 485916000513 dimer interface [polypeptide binding]; other site 485916000514 [2Fe-2S] cluster binding site [ion binding]; other site 485916000515 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 485916000516 SLBB domain; Region: SLBB; pfam10531 485916000517 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 485916000518 4Fe-4S binding domain; Region: Fer4; pfam00037 485916000519 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 485916000520 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 485916000521 dimer interface [polypeptide binding]; other site 485916000522 [2Fe-2S] cluster binding site [ion binding]; other site 485916000523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916000524 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 485916000525 ATP binding site [chemical binding]; other site 485916000526 Mg2+ binding site [ion binding]; other site 485916000527 G-X-G motif; other site 485916000528 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 485916000529 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 485916000530 putative dimer interface [polypeptide binding]; other site 485916000531 [2Fe-2S] cluster binding site [ion binding]; other site 485916000532 DRTGG domain; Region: DRTGG; pfam07085 485916000533 4Fe-4S binding domain; Region: Fer4; pfam00037 485916000534 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 485916000535 4Fe-4S binding domain; Region: Fer4; pfam00037 485916000536 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 485916000537 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 485916000538 Putative Fe-S cluster; Region: FeS; cl17515 485916000539 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 485916000540 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 485916000541 ATP binding site [chemical binding]; other site 485916000542 Mg2+ binding site [ion binding]; other site 485916000543 G-X-G motif; other site 485916000544 DRTGG domain; Region: DRTGG; pfam07085 485916000545 biotin synthase; Provisional; Region: PRK07094 485916000546 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 485916000547 FeS/SAM binding site; other site 485916000548 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 485916000549 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 485916000550 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 485916000551 FeS/SAM binding site; other site 485916000552 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 485916000553 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 485916000554 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 485916000555 G1 box; other site 485916000556 GTP/Mg2+ binding site [chemical binding]; other site 485916000557 Switch I region; other site 485916000558 G2 box; other site 485916000559 Switch II region; other site 485916000560 G3 box; other site 485916000561 G4 box; other site 485916000562 G5 box; other site 485916000563 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 485916000564 Aspartase; Region: Aspartase; cd01357 485916000565 active sites [active] 485916000566 tetramer interface [polypeptide binding]; other site 485916000567 Probable transposase; Region: OrfB_IS605; pfam01385 485916000568 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916000569 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916000570 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 485916000571 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 485916000572 dimerization interface [polypeptide binding]; other site 485916000573 active site 485916000574 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916000575 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; cl02788 485916000576 catalytic residues [active] 485916000577 catalytic nucleophile [active] 485916000578 Recombinase; Region: Recombinase; pfam07508 485916000579 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916000580 Protein of unknown function (DUF2810); Region: DUF2810; cl08159 485916000581 Peptidase S7, Flavivirus NS3 serine protease; Region: Peptidase_S7; pfam00949 485916000582 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 485916000583 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 485916000584 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 485916000585 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916000586 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575 485916000587 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916000588 Protein of unknown function, DUF606; Region: DUF606; pfam04657 485916000589 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 485916000590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 485916000591 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 485916000592 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916000593 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 485916000594 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 485916000595 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 485916000596 Transcriptional regulators [Transcription]; Region: GntR; COG1802 485916000597 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485916000598 DNA-binding site [nucleotide binding]; DNA binding site 485916000599 FCD domain; Region: FCD; pfam07729 485916000600 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 485916000601 active site 485916000602 regulatory protein SpoVG; Reviewed; Region: PRK13259 485916000603 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 485916000604 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 485916000605 Substrate binding site; other site 485916000606 Mg++ binding site; other site 485916000607 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 485916000608 active site 485916000609 substrate binding site [chemical binding]; other site 485916000610 CoA binding site [chemical binding]; other site 485916000611 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 485916000612 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 485916000613 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916000614 active site 485916000615 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 485916000616 PRC-barrel domain; Region: PRC; pfam05239 485916000617 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 485916000618 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 485916000619 5S rRNA interface [nucleotide binding]; other site 485916000620 CTC domain interface [polypeptide binding]; other site 485916000621 L16 interface [polypeptide binding]; other site 485916000622 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 485916000623 putative active site [active] 485916000624 catalytic residue [active] 485916000625 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 485916000626 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 485916000627 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 485916000628 DEAD-like helicases superfamily; Region: DEXDc; smart00487 485916000629 ATP binding site [chemical binding]; other site 485916000630 putative Mg++ binding site [ion binding]; other site 485916000631 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 485916000632 nucleotide binding region [chemical binding]; other site 485916000633 ATP-binding site [chemical binding]; other site 485916000634 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 485916000635 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 485916000636 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 485916000637 ATP binding site [chemical binding]; other site 485916000638 putative Mg++ binding site [ion binding]; other site 485916000639 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 485916000640 nucleotide binding region [chemical binding]; other site 485916000641 ATP-binding site [chemical binding]; other site 485916000642 TRCF domain; Region: TRCF; pfam03461 485916000643 SurA N-terminal domain; Region: SurA_N; pfam09312 485916000644 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 485916000645 stage V sporulation protein T; Region: spore_V_T; TIGR02851 485916000646 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 485916000647 GAF domain; Region: GAF; cl17456 485916000648 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 485916000649 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 485916000650 putative SAM binding site [chemical binding]; other site 485916000651 putative homodimer interface [polypeptide binding]; other site 485916000652 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 485916000653 homodimer interface [polypeptide binding]; other site 485916000654 metal binding site [ion binding]; metal-binding site 485916000655 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 485916000656 homodimer interface [polypeptide binding]; other site 485916000657 active site 485916000658 putative chemical substrate binding site [chemical binding]; other site 485916000659 metal binding site [ion binding]; metal-binding site 485916000660 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 485916000661 IHF dimer interface [polypeptide binding]; other site 485916000662 IHF - DNA interface [nucleotide binding]; other site 485916000663 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]; Region: COG1188 485916000664 RNA binding surface [nucleotide binding]; other site 485916000665 Stage II sporulation protein; Region: SpoIID; pfam08486 485916000666 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 485916000667 YabP family; Region: YabP; cl06766 485916000668 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 485916000669 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 485916000670 Septum formation initiator; Region: DivIC; pfam04977 485916000671 hypothetical protein; Provisional; Region: PRK08582 485916000672 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 485916000673 RNA binding site [nucleotide binding]; other site 485916000674 exopolyphosphatase; Region: exo_poly_only; TIGR03706 485916000675 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 485916000676 stage II sporulation protein E; Region: spore_II_E; TIGR02865 485916000677 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 485916000678 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 485916000679 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 485916000680 Ligand Binding Site [chemical binding]; other site 485916000681 TilS substrate C-terminal domain; Region: TilS_C; smart00977 485916000682 FtsH Extracellular; Region: FtsH_ext; pfam06480 485916000683 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 485916000684 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 485916000685 Walker A motif; other site 485916000686 ATP binding site [chemical binding]; other site 485916000687 Walker B motif; other site 485916000688 arginine finger; other site 485916000689 Peptidase family M41; Region: Peptidase_M41; pfam01434 485916000690 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 485916000691 active site 485916000692 multimer interface [polypeptide binding]; other site 485916000693 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 485916000694 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 485916000695 Potassium binding sites [ion binding]; other site 485916000696 Cesium cation binding sites [ion binding]; other site 485916000697 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916000698 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916000699 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 485916000700 DNA binding residues [nucleotide binding] 485916000701 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916000702 Zn2+ binding site [ion binding]; other site 485916000703 Mg2+ binding site [ion binding]; other site 485916000704 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 485916000705 dihydropteroate synthase; Region: DHPS; TIGR01496 485916000706 substrate binding pocket [chemical binding]; other site 485916000707 dimer interface [polypeptide binding]; other site 485916000708 inhibitor binding site; inhibition site 485916000709 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 485916000710 homooctamer interface [polypeptide binding]; other site 485916000711 active site 485916000712 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 485916000713 catalytic center binding site [active] 485916000714 ATP binding site [chemical binding]; other site 485916000715 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 485916000716 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 485916000717 FeS/SAM binding site; other site 485916000718 Uncharacterized conserved protein [Function unknown]; Region: COG5495 485916000719 Rossmann-like domain; Region: Rossmann-like; pfam10727 485916000720 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 485916000721 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 485916000722 oligomerization interface [polypeptide binding]; other site 485916000723 active site 485916000724 metal binding site [ion binding]; metal-binding site 485916000725 pantoate--beta-alanine ligase; Region: panC; TIGR00018 485916000726 Pantoate-beta-alanine ligase; Region: PanC; cd00560 485916000727 active site 485916000728 ATP-binding site [chemical binding]; other site 485916000729 pantoate-binding site; other site 485916000730 HXXH motif; other site 485916000731 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 485916000732 tetramerization interface [polypeptide binding]; other site 485916000733 active site 485916000734 BioY family; Region: BioY; pfam02632 485916000735 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 485916000736 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 485916000737 putative DNA binding site [nucleotide binding]; other site 485916000738 putative Zn2+ binding site [ion binding]; other site 485916000739 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 485916000740 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 485916000741 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 485916000742 dimerization interface [polypeptide binding]; other site 485916000743 putative DNA binding site [nucleotide binding]; other site 485916000744 putative Zn2+ binding site [ion binding]; other site 485916000745 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 485916000746 nucleotide binding site [chemical binding]; other site 485916000747 Type III pantothenate kinase; Region: Pan_kinase; cl17198 485916000748 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 485916000749 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 485916000750 FMN binding site [chemical binding]; other site 485916000751 active site 485916000752 catalytic residues [active] 485916000753 substrate binding site [chemical binding]; other site 485916000754 Predicted dehydrogenase [General function prediction only]; Region: COG5322 485916000755 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 485916000756 NAD(P) binding pocket [chemical binding]; other site 485916000757 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 485916000758 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 485916000759 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 485916000760 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 485916000761 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 485916000762 dimer interface [polypeptide binding]; other site 485916000763 putative anticodon binding site; other site 485916000764 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 485916000765 motif 1; other site 485916000766 active site 485916000767 motif 2; other site 485916000768 motif 3; other site 485916000769 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 485916000770 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 485916000771 UvrB/uvrC motif; Region: UVR; pfam02151 485916000772 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 485916000773 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 485916000774 ADP binding site [chemical binding]; other site 485916000775 phosphagen binding site; other site 485916000776 substrate specificity loop; other site 485916000777 Clp protease ATP binding subunit; Region: clpC; CHL00095 485916000778 Clp amino terminal domain; Region: Clp_N; pfam02861 485916000779 Clp amino terminal domain; Region: Clp_N; pfam02861 485916000780 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 485916000781 Walker A motif; other site 485916000782 ATP binding site [chemical binding]; other site 485916000783 Walker B motif; other site 485916000784 arginine finger; other site 485916000785 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 485916000786 Walker A motif; other site 485916000787 ATP binding site [chemical binding]; other site 485916000788 Walker B motif; other site 485916000789 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 485916000790 DNA repair protein RadA; Provisional; Region: PRK11823 485916000791 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 485916000792 Walker A motif/ATP binding site; other site 485916000793 ATP binding site [chemical binding]; other site 485916000794 Walker B motif; other site 485916000795 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 485916000796 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 485916000797 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 485916000798 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 485916000799 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 485916000800 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 485916000801 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 485916000802 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 485916000803 putative active site [active] 485916000804 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 485916000805 substrate binding site; other site 485916000806 dimer interface; other site 485916000807 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 485916000808 homotrimer interaction site [polypeptide binding]; other site 485916000809 zinc binding site [ion binding]; other site 485916000810 CDP-binding sites; other site 485916000811 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 485916000812 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 485916000813 active site 485916000814 HIGH motif; other site 485916000815 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 485916000816 active site 485916000817 KMSKS motif; other site 485916000818 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 485916000819 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 485916000820 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 485916000821 trimer interface [polypeptide binding]; other site 485916000822 active site 485916000823 substrate binding site [chemical binding]; other site 485916000824 CoA binding site [chemical binding]; other site 485916000825 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 485916000826 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 485916000827 active site 485916000828 HIGH motif; other site 485916000829 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 485916000830 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 485916000831 KMSKS motif; other site 485916000832 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 485916000833 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 485916000834 active site 485916000835 metal binding site [ion binding]; metal-binding site 485916000836 dimerization interface [polypeptide binding]; other site 485916000837 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 485916000838 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 485916000839 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 485916000840 YacP-like NYN domain; Region: NYN_YacP; pfam05991 485916000841 RNA polymerase factor sigma-70; Validated; Region: PRK08295 485916000842 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916000843 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 485916000844 elongation factor Tu; Reviewed; Region: PRK00049 485916000845 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 485916000846 G1 box; other site 485916000847 GEF interaction site [polypeptide binding]; other site 485916000848 GTP/Mg2+ binding site [chemical binding]; other site 485916000849 Switch I region; other site 485916000850 G2 box; other site 485916000851 G3 box; other site 485916000852 Switch II region; other site 485916000853 G4 box; other site 485916000854 G5 box; other site 485916000855 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 485916000856 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 485916000857 Antibiotic Binding Site [chemical binding]; other site 485916000858 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 485916000859 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 485916000860 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 485916000861 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 485916000862 putative homodimer interface [polypeptide binding]; other site 485916000863 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 485916000864 heterodimer interface [polypeptide binding]; other site 485916000865 homodimer interface [polypeptide binding]; other site 485916000866 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 485916000867 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 485916000868 23S rRNA interface [nucleotide binding]; other site 485916000869 L7/L12 interface [polypeptide binding]; other site 485916000870 putative thiostrepton binding site; other site 485916000871 L25 interface [polypeptide binding]; other site 485916000872 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 485916000873 mRNA/rRNA interface [nucleotide binding]; other site 485916000874 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 485916000875 23S rRNA interface [nucleotide binding]; other site 485916000876 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 485916000877 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 485916000878 peripheral dimer interface [polypeptide binding]; other site 485916000879 core dimer interface [polypeptide binding]; other site 485916000880 L10 interface [polypeptide binding]; other site 485916000881 L11 interface [polypeptide binding]; other site 485916000882 putative EF-Tu interaction site [polypeptide binding]; other site 485916000883 putative EF-G interaction site [polypeptide binding]; other site 485916000884 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 485916000885 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 485916000886 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 485916000887 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 485916000888 RPB1 interaction site [polypeptide binding]; other site 485916000889 RPB10 interaction site [polypeptide binding]; other site 485916000890 RPB11 interaction site [polypeptide binding]; other site 485916000891 RPB3 interaction site [polypeptide binding]; other site 485916000892 RPB12 interaction site [polypeptide binding]; other site 485916000893 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 485916000894 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 485916000895 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 485916000896 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 485916000897 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 485916000898 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 485916000899 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 485916000900 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 485916000901 G-loop; other site 485916000902 DNA binding site [nucleotide binding] 485916000903 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 485916000904 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 485916000905 S17 interaction site [polypeptide binding]; other site 485916000906 S8 interaction site; other site 485916000907 16S rRNA interaction site [nucleotide binding]; other site 485916000908 streptomycin interaction site [chemical binding]; other site 485916000909 23S rRNA interaction site [nucleotide binding]; other site 485916000910 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 485916000911 30S ribosomal protein S7; Validated; Region: PRK05302 485916000912 elongation factor G; Reviewed; Region: PRK00007 485916000913 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 485916000914 G1 box; other site 485916000915 putative GEF interaction site [polypeptide binding]; other site 485916000916 GTP/Mg2+ binding site [chemical binding]; other site 485916000917 Switch I region; other site 485916000918 G2 box; other site 485916000919 G3 box; other site 485916000920 Switch II region; other site 485916000921 G4 box; other site 485916000922 G5 box; other site 485916000923 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 485916000924 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 485916000925 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 485916000926 elongation factor Tu; Reviewed; Region: PRK00049 485916000927 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 485916000928 G1 box; other site 485916000929 GEF interaction site [polypeptide binding]; other site 485916000930 GTP/Mg2+ binding site [chemical binding]; other site 485916000931 Switch I region; other site 485916000932 G2 box; other site 485916000933 G3 box; other site 485916000934 Switch II region; other site 485916000935 G4 box; other site 485916000936 G5 box; other site 485916000937 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 485916000938 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 485916000939 Antibiotic Binding Site [chemical binding]; other site 485916000940 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 485916000941 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 485916000942 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 485916000943 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 485916000944 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 485916000945 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 485916000946 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 485916000947 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 485916000948 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 485916000949 putative translocon binding site; other site 485916000950 protein-rRNA interface [nucleotide binding]; other site 485916000951 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 485916000952 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 485916000953 G-X-X-G motif; other site 485916000954 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 485916000955 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 485916000956 23S rRNA interface [nucleotide binding]; other site 485916000957 5S rRNA interface [nucleotide binding]; other site 485916000958 putative antibiotic binding site [chemical binding]; other site 485916000959 L25 interface [polypeptide binding]; other site 485916000960 L27 interface [polypeptide binding]; other site 485916000961 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 485916000962 23S rRNA interface [nucleotide binding]; other site 485916000963 putative translocon interaction site; other site 485916000964 signal recognition particle (SRP54) interaction site; other site 485916000965 L23 interface [polypeptide binding]; other site 485916000966 trigger factor interaction site; other site 485916000967 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 485916000968 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 485916000969 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 485916000970 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 485916000971 RNA binding site [nucleotide binding]; other site 485916000972 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 485916000973 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 485916000974 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 485916000975 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 485916000976 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 485916000977 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 485916000978 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 485916000979 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 485916000980 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 485916000981 5S rRNA interface [nucleotide binding]; other site 485916000982 23S rRNA interface [nucleotide binding]; other site 485916000983 L5 interface [polypeptide binding]; other site 485916000984 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 485916000985 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 485916000986 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 485916000987 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 485916000988 23S rRNA binding site [nucleotide binding]; other site 485916000989 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 485916000990 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 485916000991 SecY translocase; Region: SecY; pfam00344 485916000992 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 485916000993 active site 485916000994 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 485916000995 RNA binding site [nucleotide binding]; other site 485916000996 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 485916000997 rRNA binding site [nucleotide binding]; other site 485916000998 predicted 30S ribosome binding site; other site 485916000999 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 485916001000 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 485916001001 30S ribosomal protein S13; Region: bact_S13; TIGR03631 485916001002 30S ribosomal protein S11; Validated; Region: PRK05309 485916001003 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 485916001004 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 485916001005 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 485916001006 RNA binding surface [nucleotide binding]; other site 485916001007 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 485916001008 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 485916001009 alphaNTD - beta interaction site [polypeptide binding]; other site 485916001010 alphaNTD homodimer interface [polypeptide binding]; other site 485916001011 alphaNTD - beta' interaction site [polypeptide binding]; other site 485916001012 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 485916001013 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 485916001014 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 485916001015 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 485916001016 Walker A/P-loop; other site 485916001017 ATP binding site [chemical binding]; other site 485916001018 Q-loop/lid; other site 485916001019 ABC transporter signature motif; other site 485916001020 Walker B; other site 485916001021 D-loop; other site 485916001022 H-loop/switch region; other site 485916001023 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 485916001024 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 485916001025 Walker A/P-loop; other site 485916001026 ATP binding site [chemical binding]; other site 485916001027 Q-loop/lid; other site 485916001028 ABC transporter signature motif; other site 485916001029 Walker B; other site 485916001030 D-loop; other site 485916001031 H-loop/switch region; other site 485916001032 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 485916001033 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 485916001034 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 485916001035 dimerization interface 3.5A [polypeptide binding]; other site 485916001036 active site 485916001037 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 485916001038 23S rRNA interface [nucleotide binding]; other site 485916001039 L3 interface [polypeptide binding]; other site 485916001040 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 485916001041 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 485916001042 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 485916001043 active site 485916001044 metal binding site [ion binding]; metal-binding site 485916001045 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 485916001046 LysE type translocator; Region: LysE; cl00565 485916001047 hypothetical protein; Provisional; Region: PRK03881 485916001048 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 485916001049 AMMECR1; Region: AMMECR1; pfam01871 485916001050 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 485916001051 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 485916001052 FeS/SAM binding site; other site 485916001053 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 485916001054 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 485916001055 S-adenosylmethionine binding site [chemical binding]; other site 485916001056 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 485916001057 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 485916001058 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_21; cd08520 485916001059 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 485916001060 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 485916001061 dimer interface [polypeptide binding]; other site 485916001062 conserved gate region; other site 485916001063 putative PBP binding loops; other site 485916001064 ABC-ATPase subunit interface; other site 485916001065 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 485916001066 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 485916001067 dimer interface [polypeptide binding]; other site 485916001068 conserved gate region; other site 485916001069 putative PBP binding loops; other site 485916001070 ABC-ATPase subunit interface; other site 485916001071 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 485916001072 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485916001073 Walker A/P-loop; other site 485916001074 ATP binding site [chemical binding]; other site 485916001075 Q-loop/lid; other site 485916001076 ABC transporter signature motif; other site 485916001077 Walker B; other site 485916001078 D-loop; other site 485916001079 H-loop/switch region; other site 485916001080 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001081 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485916001082 Walker A/P-loop; other site 485916001083 ATP binding site [chemical binding]; other site 485916001084 Q-loop/lid; other site 485916001085 ABC transporter signature motif; other site 485916001086 Walker B; other site 485916001087 D-loop; other site 485916001088 H-loop/switch region; other site 485916001089 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001090 ferric uptake regulator; Provisional; Region: fur; PRK09462 485916001091 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 485916001092 metal binding site 2 [ion binding]; metal-binding site 485916001093 putative DNA binding helix; other site 485916001094 metal binding site 1 [ion binding]; metal-binding site 485916001095 dimer interface [polypeptide binding]; other site 485916001096 structural Zn2+ binding site [ion binding]; other site 485916001097 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 485916001098 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 485916001099 intersubunit interface [polypeptide binding]; other site 485916001100 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916001101 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 485916001102 Walker A/P-loop; other site 485916001103 ATP binding site [chemical binding]; other site 485916001104 Q-loop/lid; other site 485916001105 ABC transporter signature motif; other site 485916001106 Walker B; other site 485916001107 D-loop; other site 485916001108 H-loop/switch region; other site 485916001109 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 485916001110 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 485916001111 ABC-ATPase subunit interface; other site 485916001112 dimer interface [polypeptide binding]; other site 485916001113 putative PBP binding regions; other site 485916001114 Predicted permeases [General function prediction only]; Region: COG0701 485916001115 TIGR03943 family protein; Region: TIGR03943 485916001116 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 485916001117 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 485916001118 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 485916001119 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 485916001120 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 485916001121 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 485916001122 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 485916001123 homodimer interaction site [polypeptide binding]; other site 485916001124 cofactor binding site; other site 485916001125 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 485916001126 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 485916001127 P-loop; other site 485916001128 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 485916001129 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 485916001130 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_21; cd08520 485916001131 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 485916001132 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 485916001133 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 485916001134 ABC-ATPase subunit interface; other site 485916001135 putative PBP binding loops; other site 485916001136 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 485916001137 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 485916001138 dimer interface [polypeptide binding]; other site 485916001139 conserved gate region; other site 485916001140 putative PBP binding loops; other site 485916001141 ABC-ATPase subunit interface; other site 485916001142 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 485916001143 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485916001144 Walker A/P-loop; other site 485916001145 ATP binding site [chemical binding]; other site 485916001146 Q-loop/lid; other site 485916001147 ABC transporter signature motif; other site 485916001148 Walker B; other site 485916001149 D-loop; other site 485916001150 H-loop/switch region; other site 485916001151 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 485916001152 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485916001153 Walker A/P-loop; other site 485916001154 ATP binding site [chemical binding]; other site 485916001155 Q-loop/lid; other site 485916001156 ABC transporter signature motif; other site 485916001157 Walker B; other site 485916001158 D-loop; other site 485916001159 H-loop/switch region; other site 485916001160 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 485916001161 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485916001162 Walker A/P-loop; other site 485916001163 ATP binding site [chemical binding]; other site 485916001164 Q-loop/lid; other site 485916001165 ABC transporter signature motif; other site 485916001166 Walker B; other site 485916001167 D-loop; other site 485916001168 H-loop/switch region; other site 485916001169 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001170 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 485916001171 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485916001172 Walker A/P-loop; other site 485916001173 ATP binding site [chemical binding]; other site 485916001174 Q-loop/lid; other site 485916001175 ABC transporter signature motif; other site 485916001176 Walker B; other site 485916001177 D-loop; other site 485916001178 H-loop/switch region; other site 485916001179 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001180 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 485916001181 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 485916001182 dimer interface [polypeptide binding]; other site 485916001183 conserved gate region; other site 485916001184 putative PBP binding loops; other site 485916001185 ABC-ATPase subunit interface; other site 485916001186 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 485916001187 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 485916001188 dimer interface [polypeptide binding]; other site 485916001189 conserved gate region; other site 485916001190 putative PBP binding loops; other site 485916001191 ABC-ATPase subunit interface; other site 485916001192 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 485916001193 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 485916001194 substrate binding site [chemical binding]; other site 485916001195 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485916001196 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 485916001197 S-adenosylmethionine binding site [chemical binding]; other site 485916001198 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 485916001199 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485916001200 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 485916001201 Walker A/P-loop; other site 485916001202 ATP binding site [chemical binding]; other site 485916001203 Q-loop/lid; other site 485916001204 ABC transporter signature motif; other site 485916001205 Walker B; other site 485916001206 D-loop; other site 485916001207 H-loop/switch region; other site 485916001208 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916001209 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485916001210 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 485916001211 Walker A/P-loop; other site 485916001212 ATP binding site [chemical binding]; other site 485916001213 Q-loop/lid; other site 485916001214 ABC transporter signature motif; other site 485916001215 Walker B; other site 485916001216 D-loop; other site 485916001217 H-loop/switch region; other site 485916001218 peroxiredoxin; Provisional; Region: PRK13189 485916001219 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 485916001220 dimer interface [polypeptide binding]; other site 485916001221 decamer (pentamer of dimers) interface [polypeptide binding]; other site 485916001222 catalytic triad [active] 485916001223 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 485916001224 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916001225 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 485916001226 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 485916001227 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 485916001228 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 485916001229 S-adenosylmethionine binding site [chemical binding]; other site 485916001230 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 485916001231 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_3; cd08490 485916001232 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 485916001233 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 485916001234 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 485916001235 dimer interface [polypeptide binding]; other site 485916001236 conserved gate region; other site 485916001237 putative PBP binding loops; other site 485916001238 ABC-ATPase subunit interface; other site 485916001239 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 485916001240 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 485916001241 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 485916001242 dimer interface [polypeptide binding]; other site 485916001243 conserved gate region; other site 485916001244 putative PBP binding loops; other site 485916001245 ABC-ATPase subunit interface; other site 485916001246 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 485916001247 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485916001248 Walker A/P-loop; other site 485916001249 ATP binding site [chemical binding]; other site 485916001250 Q-loop/lid; other site 485916001251 ABC transporter signature motif; other site 485916001252 Walker B; other site 485916001253 D-loop; other site 485916001254 H-loop/switch region; other site 485916001255 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 485916001256 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 485916001257 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485916001258 Walker A/P-loop; other site 485916001259 ATP binding site [chemical binding]; other site 485916001260 Q-loop/lid; other site 485916001261 ABC transporter signature motif; other site 485916001262 Walker B; other site 485916001263 D-loop; other site 485916001264 H-loop/switch region; other site 485916001265 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001266 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 485916001267 methionine sulfoxide reductase B; Provisional; Region: PRK00222 485916001268 SelR domain; Region: SelR; pfam01641 485916001269 Jacalin-like plant lectin domain; Region: Jacalin; cd09612 485916001270 sugar binding site [chemical binding]; other site 485916001271 Jacalin-like lectin domain; Region: Jacalin_like; cd09302 485916001272 putative sugar binding site [chemical binding]; other site 485916001273 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 485916001274 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916001275 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916001276 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 485916001277 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 485916001278 ATP binding site [chemical binding]; other site 485916001279 Mg2+ binding site [ion binding]; other site 485916001280 G-X-G motif; other site 485916001281 Accessory gene regulator B; Region: AgrB; pfam04647 485916001282 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 485916001283 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485916001284 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001285 active site 485916001286 phosphorylation site [posttranslational modification] 485916001287 intermolecular recognition site; other site 485916001288 dimerization interface [polypeptide binding]; other site 485916001289 LytTr DNA-binding domain; Region: LytTR; pfam04397 485916001290 UNC-50 family; Region: UNC-50; pfam05216 485916001291 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 485916001292 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 485916001293 Walker A motif; other site 485916001294 ATP binding site [chemical binding]; other site 485916001295 Walker B motif; other site 485916001296 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485916001297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001298 active site 485916001299 phosphorylation site [posttranslational modification] 485916001300 intermolecular recognition site; other site 485916001301 dimerization interface [polypeptide binding]; other site 485916001302 LytTr DNA-binding domain; Region: LytTR; pfam04397 485916001303 Accessory gene regulator B; Region: AgrB; pfam04647 485916001304 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 485916001305 ATP binding site [chemical binding]; other site 485916001306 Mg2+ binding site [ion binding]; other site 485916001307 G-X-G motif; other site 485916001308 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 485916001309 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 485916001310 Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]; Region: NifH; COG1348 485916001311 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 485916001312 Nucleotide-binding sites [chemical binding]; other site 485916001313 Walker A motif; other site 485916001314 Switch I region of nucleotide binding site; other site 485916001315 Fe4S4 binding sites [ion binding]; other site 485916001316 Switch II region of nucleotide binding site; other site 485916001317 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 485916001318 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 485916001319 SseB protein; Region: SseB; cl06279 485916001320 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 485916001321 S-layer homology domain; Region: SLH; pfam00395 485916001322 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 485916001323 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 485916001324 putative active site [active] 485916001325 homotetrameric interface [polypeptide binding]; other site 485916001326 metal binding site [ion binding]; metal-binding site 485916001327 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 485916001328 Transposase IS200 like; Region: Y1_Tnp; pfam01797 485916001329 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916001330 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916001331 Probable transposase; Region: OrfB_IS605; pfam01385 485916001332 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916001333 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 485916001334 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 485916001335 S-layer homology domain; Region: SLH; pfam00395 485916001336 S-layer homology domain; Region: SLH; pfam00395 485916001337 Helix-turn-helix domain; Region: HTH_17; pfam12728 485916001338 Helix-turn-helix domain; Region: HTH_18; pfam12833 485916001339 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485916001340 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 485916001341 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485916001342 DNA binding residues [nucleotide binding] 485916001343 dimerization interface [polypeptide binding]; other site 485916001344 S-layer homology domain; Region: SLH; pfam00395 485916001345 S-layer homology domain; Region: SLH; pfam00395 485916001346 S-layer homology domain; Region: SLH; pfam00395 485916001347 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485916001348 Fn3 associated; Region: Fn3_assoc; pfam13287 485916001349 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916001350 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 485916001351 Predicted transcriptional regulators [Transcription]; Region: COG1733 485916001352 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 485916001353 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485916001354 active site 485916001355 nucleotide binding site [chemical binding]; other site 485916001356 HIGH motif; other site 485916001357 KMSKS motif; other site 485916001358 RNA polymerase factor sigma-70; Validated; Region: PRK06811 485916001359 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916001360 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 485916001361 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 485916001362 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 485916001363 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 485916001364 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916001365 Walker A/P-loop; other site 485916001366 ATP binding site [chemical binding]; other site 485916001367 Q-loop/lid; other site 485916001368 ABC transporter signature motif; other site 485916001369 Walker B; other site 485916001370 D-loop; other site 485916001371 H-loop/switch region; other site 485916001372 rod shape-determining protein MreB; Provisional; Region: PRK13927 485916001373 MreB and similar proteins; Region: MreB_like; cd10225 485916001374 nucleotide binding site [chemical binding]; other site 485916001375 Mg binding site [ion binding]; other site 485916001376 putative protofilament interaction site [polypeptide binding]; other site 485916001377 RodZ interaction site [polypeptide binding]; other site 485916001378 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 485916001379 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485916001380 Walker A/P-loop; other site 485916001381 ATP binding site [chemical binding]; other site 485916001382 Q-loop/lid; other site 485916001383 ABC transporter signature motif; other site 485916001384 Walker B; other site 485916001385 D-loop; other site 485916001386 H-loop/switch region; other site 485916001387 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 485916001388 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485916001389 Walker A/P-loop; other site 485916001390 ATP binding site [chemical binding]; other site 485916001391 Q-loop/lid; other site 485916001392 ABC transporter signature motif; other site 485916001393 Walker B; other site 485916001394 D-loop; other site 485916001395 H-loop/switch region; other site 485916001396 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001397 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 485916001398 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 485916001399 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 485916001400 putative PBP binding loops; other site 485916001401 dimer interface [polypeptide binding]; other site 485916001402 ABC-ATPase subunit interface; other site 485916001403 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 485916001404 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 485916001405 dimer interface [polypeptide binding]; other site 485916001406 conserved gate region; other site 485916001407 putative PBP binding loops; other site 485916001408 ABC-ATPase subunit interface; other site 485916001409 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 485916001410 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_3; cd08490 485916001411 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 485916001412 Methyltransferase domain; Region: Methyltransf_23; pfam13489 485916001413 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 485916001414 S-adenosylmethionine binding site [chemical binding]; other site 485916001415 MarR family; Region: MarR_2; pfam12802 485916001416 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916001417 MarR family; Region: MarR_2; cl17246 485916001418 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 485916001419 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916001420 Soluble P-type ATPase [General function prediction only]; Region: COG4087 485916001421 AAA domain; Region: AAA_14; pfam13173 485916001422 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 485916001423 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 485916001424 Transposase IS200 like; Region: Y1_Tnp; pfam01797 485916001425 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916001426 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916001427 Probable transposase; Region: OrfB_IS605; pfam01385 485916001428 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916001429 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 485916001430 Sm and related proteins; Region: Sm_like; cl00259 485916001431 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 485916001432 Domain of unknown function (DU1801); Region: DUF1801; cl17490 485916001433 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 485916001434 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916001435 DNA binding residues [nucleotide binding] 485916001436 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; cl02788 485916001437 catalytic residues [active] 485916001438 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916001439 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916001440 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 485916001441 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916001442 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916001443 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 485916001444 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 485916001445 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 485916001446 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 485916001447 EamA-like transporter family; Region: EamA; pfam00892 485916001448 EamA-like transporter family; Region: EamA; pfam00892 485916001449 Uncharacterized subfamily of S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase_like; cd11724 485916001450 putative SAM binding site [chemical binding]; other site 485916001451 putative homodimer interface [polypeptide binding]; other site 485916001452 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916001453 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916001454 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 485916001455 binding surface 485916001456 TPR repeat; Region: TPR_11; pfam13414 485916001457 TPR motif; other site 485916001458 TPR repeat; Region: TPR_11; pfam13414 485916001459 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 485916001460 TPR repeat; Region: TPR_11; pfam13414 485916001461 binding surface 485916001462 TPR motif; other site 485916001463 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 485916001464 binding surface 485916001465 TPR motif; other site 485916001466 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485916001467 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 485916001468 Radical SAM superfamily; Region: Radical_SAM; pfam04055 485916001469 FeS/SAM binding site; other site 485916001470 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 485916001471 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 485916001472 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 485916001473 Transposase IS200 like; Region: Y1_Tnp; pfam01797 485916001474 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 485916001475 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 485916001476 ABC-ATPase subunit interface; other site 485916001477 dimer interface [polypeptide binding]; other site 485916001478 putative PBP binding regions; other site 485916001479 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 485916001480 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 485916001481 Walker A/P-loop; other site 485916001482 ATP binding site [chemical binding]; other site 485916001483 Q-loop/lid; other site 485916001484 ABC transporter signature motif; other site 485916001485 Walker B; other site 485916001486 D-loop; other site 485916001487 H-loop/switch region; other site 485916001488 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485916001489 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 485916001490 S-adenosylmethionine binding site [chemical binding]; other site 485916001491 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916001492 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001493 active site 485916001494 phosphorylation site [posttranslational modification] 485916001495 intermolecular recognition site; other site 485916001496 dimerization interface [polypeptide binding]; other site 485916001497 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 485916001498 DNA binding site [nucleotide binding] 485916001499 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916001500 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 485916001501 dimer interface [polypeptide binding]; other site 485916001502 phosphorylation site [posttranslational modification] 485916001503 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 485916001504 ATP binding site [chemical binding]; other site 485916001505 Mg2+ binding site [ion binding]; other site 485916001506 G-X-G motif; other site 485916001507 VanZ like family; Region: VanZ; pfam04892 485916001508 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 485916001509 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 485916001510 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 485916001511 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 485916001512 dimer interface [polypeptide binding]; other site 485916001513 conserved gate region; other site 485916001514 ABC-ATPase subunit interface; other site 485916001515 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 485916001516 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 485916001517 dimer interface [polypeptide binding]; other site 485916001518 conserved gate region; other site 485916001519 putative PBP binding loops; other site 485916001520 ABC-ATPase subunit interface; other site 485916001521 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485916001522 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 485916001523 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 485916001524 Walker A/P-loop; other site 485916001525 ATP binding site [chemical binding]; other site 485916001526 Q-loop/lid; other site 485916001527 ABC transporter signature motif; other site 485916001528 Walker B; other site 485916001529 D-loop; other site 485916001530 H-loop/switch region; other site 485916001531 TOBE domain; Region: TOBE_2; pfam08402 485916001532 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 485916001533 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 485916001534 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485916001535 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916001536 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 485916001537 DNA binding residues [nucleotide binding] 485916001538 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 485916001539 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 485916001540 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 485916001541 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 485916001542 Walker A motif; other site 485916001543 ATP binding site [chemical binding]; other site 485916001544 Walker B motif; other site 485916001545 VanZ like family; Region: VanZ; cl01971 485916001546 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916001547 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916001548 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 485916001549 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 485916001550 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 485916001551 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 485916001552 Walker A/P-loop; other site 485916001553 ATP binding site [chemical binding]; other site 485916001554 Q-loop/lid; other site 485916001555 ABC transporter signature motif; other site 485916001556 Walker B; other site 485916001557 D-loop; other site 485916001558 H-loop/switch region; other site 485916001559 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 485916001560 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 485916001561 dimer interface [polypeptide binding]; other site 485916001562 conserved gate region; other site 485916001563 putative PBP binding loops; other site 485916001564 ABC-ATPase subunit interface; other site 485916001565 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 485916001566 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 485916001567 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 485916001568 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 485916001569 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 485916001570 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 485916001571 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 485916001572 TrkA-N domain; Region: TrkA_N; pfam02254 485916001573 TrkA-C domain; Region: TrkA_C; pfam02080 485916001574 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916001575 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485916001576 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 485916001577 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916001578 HlyD family secretion protein; Region: HlyD_3; pfam13437 485916001579 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485916001580 Protein export membrane protein; Region: SecD_SecF; cl14618 485916001581 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916001582 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 485916001583 dinuclear metal binding motif [ion binding]; other site 485916001584 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916001585 Haemolysin XhlA; Region: XhlA; pfam10779 485916001586 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 485916001587 Protein of unknown function; Region: DUF3658; pfam12395 485916001588 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 485916001589 metal binding site 2 [ion binding]; metal-binding site 485916001590 putative DNA binding helix; other site 485916001591 metal binding site 1 [ion binding]; metal-binding site 485916001592 dimer interface [polypeptide binding]; other site 485916001593 structural Zn2+ binding site [ion binding]; other site 485916001594 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; cl00234 485916001595 catalytic residues [active] 485916001596 4Fe-4S binding domain; Region: Fer4; pfam00037 485916001597 S-adenosylmethionine synthetase; Validated; Region: PRK05250 485916001598 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 485916001599 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 485916001600 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 485916001601 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 485916001602 FAD binding site [chemical binding]; other site 485916001603 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 485916001604 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485916001605 DNA binding residues [nucleotide binding] 485916001606 dimer interface [polypeptide binding]; other site 485916001607 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 485916001608 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916001609 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485916001610 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 485916001611 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 485916001612 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 485916001613 dimer interface [polypeptide binding]; other site 485916001614 conserved gate region; other site 485916001615 putative PBP binding loops; other site 485916001616 ABC-ATPase subunit interface; other site 485916001617 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 485916001618 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 485916001619 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 485916001620 dimer interface [polypeptide binding]; other site 485916001621 conserved gate region; other site 485916001622 putative PBP binding loops; other site 485916001623 ABC-ATPase subunit interface; other site 485916001624 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485916001625 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 485916001626 Walker A/P-loop; other site 485916001627 ATP binding site [chemical binding]; other site 485916001628 Q-loop/lid; other site 485916001629 ABC transporter signature motif; other site 485916001630 Walker B; other site 485916001631 D-loop; other site 485916001632 H-loop/switch region; other site 485916001633 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001634 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 485916001635 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 485916001636 Walker A/P-loop; other site 485916001637 ATP binding site [chemical binding]; other site 485916001638 Q-loop/lid; other site 485916001639 ABC transporter signature motif; other site 485916001640 Walker B; other site 485916001641 D-loop; other site 485916001642 H-loop/switch region; other site 485916001643 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001644 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 485916001645 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 485916001646 substrate binding site [chemical binding]; other site 485916001647 Methyltransferase domain; Region: Methyltransf_23; pfam13489 485916001648 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 485916001649 S-adenosylmethionine binding site [chemical binding]; other site 485916001650 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916001651 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485916001652 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 485916001653 Walker A/P-loop; other site 485916001654 ATP binding site [chemical binding]; other site 485916001655 Q-loop/lid; other site 485916001656 ABC transporter signature motif; other site 485916001657 Walker B; other site 485916001658 D-loop; other site 485916001659 H-loop/switch region; other site 485916001660 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916001661 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485916001662 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 485916001663 Walker A/P-loop; other site 485916001664 ATP binding site [chemical binding]; other site 485916001665 Q-loop/lid; other site 485916001666 ABC transporter signature motif; other site 485916001667 Walker B; other site 485916001668 D-loop; other site 485916001669 H-loop/switch region; other site 485916001670 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916001671 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 485916001672 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 485916001673 intersubunit interface [polypeptide binding]; other site 485916001674 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 485916001675 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 485916001676 dimerization interface [polypeptide binding]; other site 485916001677 putative DNA binding site [nucleotide binding]; other site 485916001678 Transcriptional regulators [Transcription]; Region: MarR; COG1846 485916001679 putative Zn2+ binding site [ion binding]; other site 485916001680 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 485916001681 ABC-2 type transporter; Region: ABC2_membrane; cl17235 485916001682 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 485916001683 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916001684 Walker A/P-loop; other site 485916001685 ATP binding site [chemical binding]; other site 485916001686 Q-loop/lid; other site 485916001687 ABC transporter signature motif; other site 485916001688 Walker B; other site 485916001689 D-loop; other site 485916001690 H-loop/switch region; other site 485916001691 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 485916001692 active site 485916001693 SAM binding site [chemical binding]; other site 485916001694 homodimer interface [polypeptide binding]; other site 485916001695 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 485916001696 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 485916001697 intersubunit interface [polypeptide binding]; other site 485916001698 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 485916001699 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 485916001700 Walker A/P-loop; other site 485916001701 ATP binding site [chemical binding]; other site 485916001702 Q-loop/lid; other site 485916001703 ABC transporter signature motif; other site 485916001704 Walker B; other site 485916001705 D-loop; other site 485916001706 H-loop/switch region; other site 485916001707 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 485916001708 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 485916001709 dimer interface [polypeptide binding]; other site 485916001710 ABC-ATPase subunit interface; other site 485916001711 putative PBP binding regions; other site 485916001712 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 485916001713 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 485916001714 active site 485916001715 C-terminal domain interface [polypeptide binding]; other site 485916001716 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 485916001717 active site 485916001718 N-terminal domain interface [polypeptide binding]; other site 485916001719 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 485916001720 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 485916001721 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 485916001722 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 485916001723 S-layer homology domain; Region: SLH; pfam00395 485916001724 S-layer homology domain; Region: SLH; pfam00395 485916001725 S-layer homology domain; Region: SLH; pfam00395 485916001726 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 485916001727 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 485916001728 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916001729 Cobalt transport protein; Region: CbiQ; cl00463 485916001730 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 485916001731 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 485916001732 Walker A/P-loop; other site 485916001733 ATP binding site [chemical binding]; other site 485916001734 Q-loop/lid; other site 485916001735 ABC transporter signature motif; other site 485916001736 Walker B; other site 485916001737 D-loop; other site 485916001738 H-loop/switch region; other site 485916001739 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 485916001740 Walker A/P-loop; other site 485916001741 ATP binding site [chemical binding]; other site 485916001742 Q-loop/lid; other site 485916001743 ABC transporter signature motif; other site 485916001744 Walker B; other site 485916001745 D-loop; other site 485916001746 H-loop/switch region; other site 485916001747 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 485916001748 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 485916001749 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 485916001750 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 485916001751 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 485916001752 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 485916001753 heterotetramer interface [polypeptide binding]; other site 485916001754 active site pocket [active] 485916001755 cleavage site 485916001756 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 485916001757 feedback inhibition sensing region; other site 485916001758 homohexameric interface [polypeptide binding]; other site 485916001759 nucleotide binding site [chemical binding]; other site 485916001760 N-acetyl-L-glutamate binding site [chemical binding]; other site 485916001761 acetylornithine aminotransferase; Provisional; Region: PRK02627 485916001762 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 485916001763 inhibitor-cofactor binding pocket; inhibition site 485916001764 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916001765 catalytic residue [active] 485916001766 ornithine carbamoyltransferase; Provisional; Region: PRK00779 485916001767 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 485916001768 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 485916001769 argininosuccinate synthase; Provisional; Region: PRK13820 485916001770 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 485916001771 ANP binding site [chemical binding]; other site 485916001772 Substrate Binding Site II [chemical binding]; other site 485916001773 Substrate Binding Site I [chemical binding]; other site 485916001774 argininosuccinate lyase; Provisional; Region: PRK00855 485916001775 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 485916001776 active sites [active] 485916001777 tetramer interface [polypeptide binding]; other site 485916001778 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 485916001779 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916001780 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916001781 putative metal binding site [ion binding]; other site 485916001782 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916001783 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916001784 putative metal binding site [ion binding]; other site 485916001785 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916001786 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916001787 putative metal binding site [ion binding]; other site 485916001788 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 485916001789 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 485916001790 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 485916001791 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 485916001792 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 485916001793 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 485916001794 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 485916001795 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916001796 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 485916001797 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 485916001798 homodimer interface [polypeptide binding]; other site 485916001799 substrate-cofactor binding pocket; other site 485916001800 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916001801 catalytic residue [active] 485916001802 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 485916001803 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 485916001804 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 485916001805 PYR/PP interface [polypeptide binding]; other site 485916001806 dimer interface [polypeptide binding]; other site 485916001807 TPP binding site [chemical binding]; other site 485916001808 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 485916001809 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 485916001810 TPP-binding site [chemical binding]; other site 485916001811 dimer interface [polypeptide binding]; other site 485916001812 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 485916001813 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 485916001814 putative valine binding site [chemical binding]; other site 485916001815 dimer interface [polypeptide binding]; other site 485916001816 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 485916001817 ketol-acid reductoisomerase; Provisional; Region: PRK05479 485916001818 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 485916001819 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 485916001820 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 485916001821 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 485916001822 PYR/PP interface [polypeptide binding]; other site 485916001823 dimer interface [polypeptide binding]; other site 485916001824 TPP binding site [chemical binding]; other site 485916001825 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 485916001826 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 485916001827 TPP-binding site [chemical binding]; other site 485916001828 dimer interface [polypeptide binding]; other site 485916001829 2-isopropylmalate synthase; Validated; Region: PRK00915 485916001830 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 485916001831 active site 485916001832 catalytic residues [active] 485916001833 metal binding site [ion binding]; metal-binding site 485916001834 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 485916001835 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 485916001836 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 485916001837 substrate binding site [chemical binding]; other site 485916001838 ligand binding site [chemical binding]; other site 485916001839 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 485916001840 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 485916001841 substrate binding site [chemical binding]; other site 485916001842 tartrate dehydrogenase; Region: TTC; TIGR02089 485916001843 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 485916001844 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 485916001845 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 485916001846 active site 485916001847 catalytic residues [active] 485916001848 metal binding site [ion binding]; metal-binding site 485916001849 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 485916001850 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 485916001851 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 485916001852 FeS/SAM binding site; other site 485916001853 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 485916001854 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 485916001855 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 485916001856 FeS/SAM binding site; other site 485916001857 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 485916001858 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 485916001859 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916001860 Coenzyme A binding pocket [chemical binding]; other site 485916001861 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 485916001862 Uncharacterized conserved protein [Function unknown]; Region: COG1624 485916001863 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 485916001864 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 485916001865 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 485916001866 active site 485916001867 substrate binding site [chemical binding]; other site 485916001868 metal binding site [ion binding]; metal-binding site 485916001869 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 485916001870 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 485916001871 glutaminase active site [active] 485916001872 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 485916001873 dimer interface [polypeptide binding]; other site 485916001874 active site 485916001875 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 485916001876 dimer interface [polypeptide binding]; other site 485916001877 active site 485916001878 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 485916001879 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 485916001880 active site 485916001881 NTP binding site [chemical binding]; other site 485916001882 metal binding triad [ion binding]; metal-binding site 485916001883 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 485916001884 HD domain; Region: HD; pfam01966 485916001885 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 485916001886 Uncharacterized conserved protein [Function unknown]; Region: COG0432 485916001887 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 485916001888 active site 1 [active] 485916001889 dimer interface [polypeptide binding]; other site 485916001890 hexamer interface [polypeptide binding]; other site 485916001891 active site 2 [active] 485916001892 Uncharacterized conserved protein [Function unknown]; Region: COG2006 485916001893 Domain of unknown function (DUF362); Region: DUF362; pfam04015 485916001894 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916001895 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 485916001896 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 485916001897 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 485916001898 putative binding surface; other site 485916001899 active site 485916001900 P2 response regulator binding domain; Region: P2; pfam07194 485916001901 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 485916001902 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 485916001903 ATP binding site [chemical binding]; other site 485916001904 Mg2+ binding site [ion binding]; other site 485916001905 G-X-G motif; other site 485916001906 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 485916001907 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 485916001908 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 485916001909 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 485916001910 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 485916001911 dimerization interface [polypeptide binding]; other site 485916001912 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916001913 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916001914 dimer interface [polypeptide binding]; other site 485916001915 putative CheW interface [polypeptide binding]; other site 485916001916 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 485916001917 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 485916001918 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 485916001919 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 485916001920 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001921 active site 485916001922 phosphorylation site [posttranslational modification] 485916001923 intermolecular recognition site; other site 485916001924 dimerization interface [polypeptide binding]; other site 485916001925 CheB methylesterase; Region: CheB_methylest; pfam01339 485916001926 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 485916001927 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 485916001928 putative active site [active] 485916001929 heme pocket [chemical binding]; other site 485916001930 PAS domain; Region: PAS; smart00091 485916001931 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916001932 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 485916001933 dimer interface [polypeptide binding]; other site 485916001934 phosphorylation site [posttranslational modification] 485916001935 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 485916001936 ATP binding site [chemical binding]; other site 485916001937 Mg2+ binding site [ion binding]; other site 485916001938 G-X-G motif; other site 485916001939 Response regulator receiver domain; Region: Response_reg; pfam00072 485916001940 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001941 active site 485916001942 phosphorylation site [posttranslational modification] 485916001943 intermolecular recognition site; other site 485916001944 dimerization interface [polypeptide binding]; other site 485916001945 Response regulator receiver domain; Region: Response_reg; pfam00072 485916001946 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001947 active site 485916001948 phosphorylation site [posttranslational modification] 485916001949 intermolecular recognition site; other site 485916001950 dimerization interface [polypeptide binding]; other site 485916001951 S-layer homology domain; Region: SLH; pfam00395 485916001952 S-layer homology domain; Region: SLH; pfam00395 485916001953 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 485916001954 Trp docking motif [polypeptide binding]; other site 485916001955 active site 485916001956 PQQ-like domain; Region: PQQ_2; pfam13360 485916001957 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 485916001958 nucleotide binding site/active site [active] 485916001959 HIT family signature motif; other site 485916001960 catalytic residue [active] 485916001961 Origin of replication binding protein; Region: Herpes_ori_bp; pfam02399 485916001962 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485916001963 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 485916001964 dimerization interface [polypeptide binding]; other site 485916001965 DNA binding residues [nucleotide binding] 485916001966 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 485916001967 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 485916001968 putative metal binding site [ion binding]; other site 485916001969 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 485916001970 putative metal binding site [ion binding]; other site 485916001971 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 485916001972 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 485916001973 putative metal binding site [ion binding]; other site 485916001974 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 485916001975 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 485916001976 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 485916001977 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 485916001978 Catalytic site [active] 485916001979 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 485916001980 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 485916001981 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 485916001982 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916001983 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 485916001984 non-specific DNA binding site [nucleotide binding]; other site 485916001985 salt bridge; other site 485916001986 sequence-specific DNA binding site [nucleotide binding]; other site 485916001987 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 485916001988 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916001989 Coenzyme A binding pocket [chemical binding]; other site 485916001990 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 485916001991 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 485916001992 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 485916001993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916001994 Coenzyme A binding pocket [chemical binding]; other site 485916001995 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 485916001996 hypothetical protein; Provisional; Region: PRK06761 485916001997 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 485916001998 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 485916001999 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 485916002000 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 485916002001 putative active site [active] 485916002002 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 485916002003 nucleotide binding site/active site [active] 485916002004 HIT family signature motif; other site 485916002005 catalytic residue [active] 485916002006 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 485916002007 dimerization interface [polypeptide binding]; other site 485916002008 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916002009 dimer interface [polypeptide binding]; other site 485916002010 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 485916002011 putative CheW interface [polypeptide binding]; other site 485916002012 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 485916002013 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 485916002014 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 485916002015 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 485916002016 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485916002017 ligand binding site [chemical binding]; other site 485916002018 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 485916002019 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 485916002020 putative binding surface; other site 485916002021 active site 485916002022 P2 response regulator binding domain; Region: P2; pfam07194 485916002023 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 485916002024 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 485916002025 ATP binding site [chemical binding]; other site 485916002026 Mg2+ binding site [ion binding]; other site 485916002027 G-X-G motif; other site 485916002028 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 485916002029 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 485916002030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916002031 active site 485916002032 phosphorylation site [posttranslational modification] 485916002033 intermolecular recognition site; other site 485916002034 dimerization interface [polypeptide binding]; other site 485916002035 CheB methylesterase; Region: CheB_methylest; pfam01339 485916002036 putative transposase; Provisional; Region: PRK09857 485916002037 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916002038 potential frameshift: common BLAST hit: gi|134300278|ref|YP_001113774.1| response regulator receiver modulated CheB methylesterase 485916002039 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916002040 active site 485916002041 phosphorylation site [posttranslational modification] 485916002042 intermolecular recognition site; other site 485916002043 CheB methylesterase; Region: CheB_methylest; pfam01339 485916002044 flagellin; Provisional; Region: PRK12807 485916002045 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 485916002046 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 485916002047 flagellar capping protein; Validated; Region: fliD; PRK07737 485916002048 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 485916002049 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 485916002050 Flagellar protein FliS; Region: FliS; cl00654 485916002051 FlaG protein; Region: FlaG; pfam03646 485916002052 Global regulator protein family; Region: CsrA; pfam02599 485916002053 flagellar assembly protein FliW; Provisional; Region: PRK13285 485916002054 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 485916002055 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 485916002056 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 485916002057 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 485916002058 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 485916002059 FlgN protein; Region: FlgN; pfam05130 485916002060 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 485916002061 S-layer homology domain; Region: SLH; pfam00395 485916002062 Uncharacterized conserved protein [Function unknown]; Region: COG5464 485916002063 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 485916002064 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 485916002065 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 485916002066 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 485916002067 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 485916002068 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 485916002069 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 485916002070 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 485916002071 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 485916002072 FliG C-terminal domain; Region: FliG_C; pfam01706 485916002073 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 485916002074 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 485916002075 Flagellar assembly protein FliH; Region: FliH; pfam02108 485916002076 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 485916002077 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 485916002078 Walker A motif/ATP binding site; other site 485916002079 Walker B motif; other site 485916002080 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 485916002081 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 485916002082 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 485916002083 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 485916002084 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 485916002085 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 485916002086 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 485916002087 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 485916002088 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 485916002089 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 485916002090 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 485916002091 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 485916002092 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 485916002093 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 485916002094 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 485916002095 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 485916002096 FHIPEP family; Region: FHIPEP; pfam00771 485916002097 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 485916002098 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 485916002099 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 485916002100 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 485916002101 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 485916002102 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 485916002103 Flagellar protein YcgR; Region: YcgR_2; pfam12945 485916002104 PilZ domain; Region: PilZ; pfam07238 485916002105 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 485916002106 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916002107 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 485916002108 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 485916002109 DNA binding residues [nucleotide binding] 485916002110 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 485916002111 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 485916002112 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 485916002113 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 485916002114 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 485916002115 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 485916002116 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 485916002117 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 485916002118 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 485916002119 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 485916002120 CheC-like family; Region: CheC; pfam04509 485916002121 CheC-like family; Region: CheC; pfam04509 485916002122 Response regulator receiver domain; Region: Response_reg; pfam00072 485916002123 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916002124 active site 485916002125 phosphorylation site [posttranslational modification] 485916002126 intermolecular recognition site; other site 485916002127 dimerization interface [polypeptide binding]; other site 485916002128 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 485916002129 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 485916002130 flagellar motor switch protein; Reviewed; Region: PRK06782 485916002131 CheC-like family; Region: CheC; pfam04509 485916002132 CheC-like family; Region: CheC; pfam04509 485916002133 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 485916002134 Uncharacterized conserved protein [Function unknown]; Region: COG4198 485916002135 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 485916002136 PIN domain; Region: PIN_3; cl17397 485916002137 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 485916002138 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 485916002139 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 485916002140 homodimer interface [polypeptide binding]; other site 485916002141 metal binding site [ion binding]; metal-binding site 485916002142 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916002143 active site 485916002144 GMP synthase; Reviewed; Region: guaA; PRK00074 485916002145 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 485916002146 AMP/PPi binding site [chemical binding]; other site 485916002147 candidate oxyanion hole; other site 485916002148 catalytic triad [active] 485916002149 potential glutamine specificity residues [chemical binding]; other site 485916002150 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 485916002151 ATP Binding subdomain [chemical binding]; other site 485916002152 Ligand Binding sites [chemical binding]; other site 485916002153 Dimerization subdomain; other site 485916002154 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916002155 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916002156 metal binding site [ion binding]; metal-binding site 485916002157 active site 485916002158 I-site; other site 485916002159 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 485916002160 AIR carboxylase; Region: AIRC; pfam00731 485916002161 adenylosuccinate lyase; Provisional; Region: PRK07380 485916002162 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 485916002163 tetramer interface [polypeptide binding]; other site 485916002164 active site 485916002165 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 485916002166 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 485916002167 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 485916002168 ATP binding site [chemical binding]; other site 485916002169 active site 485916002170 substrate binding site [chemical binding]; other site 485916002171 amidophosphoribosyltransferase; Provisional; Region: PRK05793 485916002172 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 485916002173 active site 485916002174 tetramer interface [polypeptide binding]; other site 485916002175 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916002176 active site 485916002177 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 485916002178 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 485916002179 dimerization interface [polypeptide binding]; other site 485916002180 putative ATP binding site [chemical binding]; other site 485916002181 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 485916002182 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 485916002183 active site 485916002184 substrate binding site [chemical binding]; other site 485916002185 cosubstrate binding site; other site 485916002186 catalytic site [active] 485916002187 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 485916002188 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 485916002189 purine monophosphate binding site [chemical binding]; other site 485916002190 dimer interface [polypeptide binding]; other site 485916002191 putative catalytic residues [active] 485916002192 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 485916002193 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 485916002194 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 485916002195 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 485916002196 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 485916002197 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 485916002198 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 485916002199 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485916002200 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916002201 Winged helix-turn helix; Region: HTH_29; pfam13551 485916002202 Homeodomain-like domain; Region: HTH_32; pfam13565 485916002203 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916002204 Trp repressor protein; Region: Trp_repressor; cl17266 485916002205 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 485916002206 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 485916002207 dimer interface [polypeptide binding]; other site 485916002208 motif 1; other site 485916002209 active site 485916002210 motif 2; other site 485916002211 motif 3; other site 485916002212 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 485916002213 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 485916002214 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 485916002215 DNA binding residues [nucleotide binding] 485916002216 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 485916002217 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; cl02788 485916002218 catalytic residues [active] 485916002219 catalytic nucleophile [active] 485916002220 histidinol dehydrogenase; Region: hisD; TIGR00069 485916002221 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 485916002222 NAD binding site [chemical binding]; other site 485916002223 dimerization interface [polypeptide binding]; other site 485916002224 product binding site; other site 485916002225 substrate binding site [chemical binding]; other site 485916002226 zinc binding site [ion binding]; other site 485916002227 catalytic residues [active] 485916002228 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 485916002229 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 485916002230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916002231 homodimer interface [polypeptide binding]; other site 485916002232 catalytic residue [active] 485916002233 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 485916002234 putative active site pocket [active] 485916002235 4-fold oligomerization interface [polypeptide binding]; other site 485916002236 metal binding residues [ion binding]; metal-binding site 485916002237 3-fold/trimer interface [polypeptide binding]; other site 485916002238 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 485916002239 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 485916002240 putative active site [active] 485916002241 oxyanion strand; other site 485916002242 catalytic triad [active] 485916002243 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 485916002244 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 485916002245 catalytic residues [active] 485916002246 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 485916002247 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 485916002248 substrate binding site [chemical binding]; other site 485916002249 glutamase interaction surface [polypeptide binding]; other site 485916002250 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 485916002251 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 485916002252 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 485916002253 metal binding site [ion binding]; metal-binding site 485916002254 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 485916002255 Part of AAA domain; Region: AAA_19; pfam13245 485916002256 Family description; Region: UvrD_C_2; pfam13538 485916002257 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 485916002258 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 485916002259 heme-binding site [chemical binding]; other site 485916002260 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916002261 putative CheW interface [polypeptide binding]; other site 485916002262 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 485916002263 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 485916002264 nucleotide binding pocket [chemical binding]; other site 485916002265 K-X-D-G motif; other site 485916002266 catalytic site [active] 485916002267 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 485916002268 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 485916002269 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 485916002270 Dimer interface [polypeptide binding]; other site 485916002271 BRCT sequence motif; other site 485916002272 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 485916002273 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 485916002274 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 485916002275 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 485916002276 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 485916002277 GatB domain; Region: GatB_Yqey; smart00845 485916002278 PAS domain S-box; Region: sensory_box; TIGR00229 485916002279 GAF domain; Region: GAF; pfam01590 485916002280 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485916002281 GAF domain; Region: GAF_2; pfam13185 485916002282 GAF domain; Region: GAF; cl17456 485916002283 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 485916002284 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 485916002285 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 485916002286 putative active site [active] 485916002287 heme pocket [chemical binding]; other site 485916002288 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 485916002289 putative active site [active] 485916002290 heme pocket [chemical binding]; other site 485916002291 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916002292 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916002293 metal binding site [ion binding]; metal-binding site 485916002294 active site 485916002295 I-site; other site 485916002296 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 485916002297 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 485916002298 xanthine permease; Region: pbuX; TIGR03173 485916002299 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 485916002300 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 485916002301 intersubunit interface [polypeptide binding]; other site 485916002302 active site 485916002303 catalytic residue [active] 485916002304 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 485916002305 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 485916002306 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 485916002307 hinge; other site 485916002308 active site 485916002309 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 485916002310 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 485916002311 Tetramer interface [polypeptide binding]; other site 485916002312 active site 485916002313 FMN-binding site [chemical binding]; other site 485916002314 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 485916002315 active site 485916002316 dimer interface [polypeptide binding]; other site 485916002317 metal binding site [ion binding]; metal-binding site 485916002318 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 485916002319 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916002320 Walker A/P-loop; other site 485916002321 ATP binding site [chemical binding]; other site 485916002322 ABC transporter signature motif; other site 485916002323 Walker B; other site 485916002324 D-loop; other site 485916002325 H-loop/switch region; other site 485916002326 ABC transporter; Region: ABC_tran_2; pfam12848 485916002327 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485916002328 Spore germination protein; Region: Spore_permease; cl17796 485916002329 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 485916002330 Domain of unknown function (DUF378); Region: DUF378; pfam04070 485916002331 SET domain; Region: SET; pfam00856 485916002332 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 485916002333 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 485916002334 active site 485916002335 catalytic residues [active] 485916002336 metal binding site [ion binding]; metal-binding site 485916002337 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 485916002338 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916002339 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 485916002340 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 485916002341 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 485916002342 active site 485916002343 Substrate binding site; other site 485916002344 Mg++ binding site; other site 485916002345 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 485916002346 N-terminal domain interface [polypeptide binding]; other site 485916002347 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 485916002348 putative trimer interface [polypeptide binding]; other site 485916002349 sulfate 1 binding site; other site 485916002350 putative CoA binding site [chemical binding]; other site 485916002351 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 485916002352 GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an...; Region: MPG1_transferase; cd05805 485916002353 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485916002354 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916002355 active site 485916002356 phosphorylation site [posttranslational modification] 485916002357 intermolecular recognition site; other site 485916002358 dimerization interface [polypeptide binding]; other site 485916002359 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 485916002360 Walker A motif; other site 485916002361 ATP binding site [chemical binding]; other site 485916002362 Walker B motif; other site 485916002363 arginine finger; other site 485916002364 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 485916002365 HAMP domain; Region: HAMP; pfam00672 485916002366 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 485916002367 dimer interface [polypeptide binding]; other site 485916002368 phosphorylation site [posttranslational modification] 485916002369 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 485916002370 ATP binding site [chemical binding]; other site 485916002371 Mg2+ binding site [ion binding]; other site 485916002372 G-X-G motif; other site 485916002373 hydrogenase 4 subunit B; Validated; Region: PRK06521 485916002374 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 485916002375 NADH dehydrogenase; Region: NADHdh; cl00469 485916002376 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 485916002377 hydrogenase 4 subunit F; Validated; Region: PRK06458 485916002378 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 485916002379 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 485916002380 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 485916002381 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 485916002382 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 485916002383 4Fe-4S binding domain; Region: Fer4; pfam00037 485916002384 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 485916002385 PemK-like protein; Region: PemK; pfam02452 485916002386 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 485916002387 Uncharacterized conserved protein [Function unknown]; Region: COG1543 485916002388 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 485916002389 active site 485916002390 substrate binding site [chemical binding]; other site 485916002391 catalytic site [active] 485916002392 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 485916002393 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 485916002394 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 485916002395 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 485916002396 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 485916002397 minor groove reading motif; other site 485916002398 helix-hairpin-helix signature motif; other site 485916002399 substrate binding pocket [chemical binding]; other site 485916002400 active site 485916002401 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 485916002402 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 485916002403 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 485916002404 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 485916002405 Walker A motif; other site 485916002406 ATP binding site [chemical binding]; other site 485916002407 Walker B motif; other site 485916002408 arginine finger; other site 485916002409 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 485916002410 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 485916002411 PAS domain; Region: PAS; smart00091 485916002412 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 485916002413 putative active site [active] 485916002414 heme pocket [chemical binding]; other site 485916002415 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 485916002416 Walker A motif; other site 485916002417 ATP binding site [chemical binding]; other site 485916002418 Walker B motif; other site 485916002419 arginine finger; other site 485916002420 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 485916002421 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 485916002422 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 485916002423 active site 485916002424 PHP Thumb interface [polypeptide binding]; other site 485916002425 metal binding site [ion binding]; metal-binding site 485916002426 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 485916002427 generic binding surface I; other site 485916002428 generic binding surface II; other site 485916002429 transcription attenuation protein MtrB; Provisional; Region: PRK13251 485916002430 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 485916002431 Ribosomal protein L37e; Region: Ribosomal_L37e; cl00932 485916002432 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 485916002433 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 485916002434 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 485916002435 6-phosphofructokinase; Provisional; Region: PRK03202 485916002436 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 485916002437 active site 485916002438 ADP/pyrophosphate binding site [chemical binding]; other site 485916002439 dimerization interface [polypeptide binding]; other site 485916002440 allosteric effector site; other site 485916002441 fructose-1,6-bisphosphate binding site; other site 485916002442 pyruvate kinase; Provisional; Region: PRK06354 485916002443 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 485916002444 domain interfaces; other site 485916002445 active site 485916002446 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 485916002447 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 485916002448 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 485916002449 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_4; cd04501 485916002450 active site 485916002451 catalytic triad [active] 485916002452 oxyanion hole [active] 485916002453 glycogen branching enzyme; Provisional; Region: PRK12313 485916002454 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 485916002455 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 485916002456 active site 485916002457 catalytic site [active] 485916002458 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 485916002459 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 485916002460 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 485916002461 ligand binding site; other site 485916002462 oligomer interface; other site 485916002463 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 485916002464 dimer interface [polypeptide binding]; other site 485916002465 N-terminal domain interface [polypeptide binding]; other site 485916002466 sulfate 1 binding site; other site 485916002467 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 485916002468 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 485916002469 ligand binding site; other site 485916002470 oligomer interface; other site 485916002471 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 485916002472 dimer interface [polypeptide binding]; other site 485916002473 N-terminal domain interface [polypeptide binding]; other site 485916002474 sulfate 1 binding site; other site 485916002475 glycogen synthase; Provisional; Region: glgA; PRK00654 485916002476 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 485916002477 ADP-binding pocket [chemical binding]; other site 485916002478 homodimer interface [polypeptide binding]; other site 485916002479 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 485916002480 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 485916002481 dimer interface [polypeptide binding]; other site 485916002482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916002483 catalytic residue [active] 485916002484 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 485916002485 flavoprotein, HI0933 family; Region: TIGR00275 485916002486 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 485916002487 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 485916002488 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 485916002489 active site 485916002490 motif I; other site 485916002491 motif II; other site 485916002492 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 485916002493 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 485916002494 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916002495 Probable transposase; Region: OrfB_IS605; pfam01385 485916002496 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916002497 Cupin domain; Region: Cupin_2; pfam07883 485916002498 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916002499 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916002500 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 485916002501 non-specific DNA binding site [nucleotide binding]; other site 485916002502 salt bridge; other site 485916002503 sequence-specific DNA binding site [nucleotide binding]; other site 485916002504 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 485916002505 AAA domain; Region: AAA_18; pfam13238 485916002506 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 485916002507 non-specific DNA binding site [nucleotide binding]; other site 485916002508 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 485916002509 salt bridge; other site 485916002510 sequence-specific DNA binding site [nucleotide binding]; other site 485916002511 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916002512 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 485916002513 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916002514 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 485916002515 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 485916002516 DNA binding residues [nucleotide binding] 485916002517 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; cl02788 485916002518 catalytic residues [active] 485916002519 catalytic nucleophile [active] 485916002520 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916002521 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485916002522 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 485916002523 S-adenosylmethionine binding site [chemical binding]; other site 485916002524 Putative zinc-finger; Region: zf-HC2; pfam13490 485916002525 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485916002526 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916002527 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 485916002528 DNA binding residues [nucleotide binding] 485916002529 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916002530 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916002531 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 485916002532 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916002533 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916002534 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 485916002535 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916002536 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 485916002537 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916002538 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 485916002539 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 485916002540 dimer interface [polypeptide binding]; other site 485916002541 active site 485916002542 heme binding site [chemical binding]; other site 485916002543 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 485916002544 RHS Repeat; Region: RHS_repeat; pfam05593 485916002545 RHS Repeat; Region: RHS_repeat; cl11982 485916002546 RHS Repeat; Region: RHS_repeat; pfam05593 485916002547 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916002548 RHS Repeat; Region: RHS_repeat; cl11982 485916002549 RHS Repeat; Region: RHS_repeat; pfam05593 485916002550 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916002551 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916002552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 485916002553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 485916002554 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 485916002555 putative dimerization interface [polypeptide binding]; other site 485916002556 selenophosphate synthetase; Provisional; Region: PRK00943 485916002557 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 485916002558 dimerization interface [polypeptide binding]; other site 485916002559 putative ATP binding site [chemical binding]; other site 485916002560 Uncharacterized conserved protein [Function unknown]; Region: COG1751 485916002561 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 485916002562 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 485916002563 putative active site [active] 485916002564 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 485916002565 non-specific DNA binding site [nucleotide binding]; other site 485916002566 salt bridge; other site 485916002567 sequence-specific DNA binding site [nucleotide binding]; other site 485916002568 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 485916002569 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 485916002570 Catalytic site [active] 485916002571 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916002572 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 485916002573 active site residue [active] 485916002574 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 485916002575 putative FMN binding site [chemical binding]; other site 485916002576 DNA methylase; Region: N6_N4_Mtase; cl17433 485916002577 phosphomannomutase CpsG; Provisional; Region: PRK15414 485916002578 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 485916002579 active site 485916002580 substrate binding site [chemical binding]; other site 485916002581 metal binding site [ion binding]; metal-binding site 485916002582 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916002583 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916002584 Probable transposase; Region: OrfB_IS605; pfam01385 485916002585 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916002586 Transposase IS200 like; Region: Y1_Tnp; pfam01797 485916002587 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 485916002588 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 485916002589 ATP binding site [chemical binding]; other site 485916002590 Mg2+ binding site [ion binding]; other site 485916002591 G-X-G motif; other site 485916002592 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 485916002593 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 485916002594 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 485916002595 Prephenate dehydratase; Region: PDT; pfam00800 485916002596 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 485916002597 putative L-Phe binding site [chemical binding]; other site 485916002598 Chorismate mutase type II; Region: CM_2; smart00830 485916002599 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 485916002600 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 485916002601 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 485916002602 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 485916002603 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 485916002604 glutamine binding [chemical binding]; other site 485916002605 catalytic triad [active] 485916002606 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 485916002607 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 485916002608 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 485916002609 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 485916002610 active site 485916002611 ribulose/triose binding site [chemical binding]; other site 485916002612 phosphate binding site [ion binding]; other site 485916002613 substrate (anthranilate) binding pocket [chemical binding]; other site 485916002614 product (indole) binding pocket [chemical binding]; other site 485916002615 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 485916002616 active site 485916002617 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 485916002618 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 485916002619 substrate binding site [chemical binding]; other site 485916002620 active site 485916002621 catalytic residues [active] 485916002622 heterodimer interface [polypeptide binding]; other site 485916002623 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 485916002624 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 485916002625 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 485916002626 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cd09754 485916002627 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cl09909 485916002628 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 485916002629 CRISPR-associated autoregulator DevR family; Region: cas_MJ0381; TIGR01875 485916002630 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 485916002631 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 485916002632 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 485916002633 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 485916002634 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 485916002635 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 485916002636 Homeodomain-like domain; Region: HTH_23; pfam13384 485916002637 Winged helix-turn helix; Region: HTH_29; pfam13551 485916002638 Winged helix-turn helix; Region: HTH_33; pfam13592 485916002639 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916002640 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916002641 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916002642 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916002643 Cache domain; Region: Cache_1; pfam02743 485916002644 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 485916002645 dimerization interface [polypeptide binding]; other site 485916002646 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 485916002647 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 485916002648 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 485916002649 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 485916002650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916002651 homodimer interface [polypeptide binding]; other site 485916002652 catalytic residue [active] 485916002653 AMP-binding domain protein; Validated; Region: PRK08315 485916002654 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 485916002655 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 485916002656 acyl-activating enzyme (AAE) consensus motif; other site 485916002657 acyl-activating enzyme (AAE) consensus motif; other site 485916002658 putative AMP binding site [chemical binding]; other site 485916002659 putative active site [active] 485916002660 putative CoA binding site [chemical binding]; other site 485916002661 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 485916002662 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 485916002663 H+ Antiporter protein; Region: 2A0121; TIGR00900 485916002664 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 485916002665 anti sigma factor interaction site; other site 485916002666 regulatory phosphorylation site [posttranslational modification]; other site 485916002667 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 485916002668 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 485916002669 ATP binding site [chemical binding]; other site 485916002670 Mg2+ binding site [ion binding]; other site 485916002671 G-X-G motif; other site 485916002672 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 485916002673 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 485916002674 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916002675 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 485916002676 DNA binding residues [nucleotide binding] 485916002677 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 485916002678 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 485916002679 NHLM bacteriocin system secretion protein; Region: NHLM_micro_HlyD; TIGR03794 485916002680 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485916002681 HlyD family secretion protein; Region: HlyD_3; pfam13437 485916002682 NHLM bacteriocin system ABC transporter, peptidase/ATP-binding protein; Region: NHLM_micro_ABC1; TIGR03796 485916002683 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_C39D; cd02420 485916002684 putative active site [active] 485916002685 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485916002686 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916002687 Walker A/P-loop; other site 485916002688 ATP binding site [chemical binding]; other site 485916002689 Q-loop/lid; other site 485916002690 ABC transporter signature motif; other site 485916002691 Walker B; other site 485916002692 D-loop; other site 485916002693 H-loop/switch region; other site 485916002694 NHLM bacteriocin system ABC transporter, ATP-binding protein; Region: NHLM_micro_ABC2; TIGR03797 485916002695 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485916002696 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916002697 Walker A/P-loop; other site 485916002698 ATP binding site [chemical binding]; other site 485916002699 Q-loop/lid; other site 485916002700 ABC transporter signature motif; other site 485916002701 Walker B; other site 485916002702 D-loop; other site 485916002703 H-loop/switch region; other site 485916002704 nif11-like leader peptide domain; Region: ocin_TIGR03798 485916002705 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 485916002706 nif11-like peptide radical SAM maturase; Region: rSAM_nif11; TIGR04064 485916002707 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 485916002708 FeS/SAM binding site; other site 485916002709 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 485916002710 nif11-like peptide radical SAM maturase; Region: rSAM_nif11; TIGR04064 485916002711 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 485916002712 nif11-like leader peptide domain; Region: ocin_TIGR03798 485916002713 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 485916002714 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 485916002715 substrate binding pocket [chemical binding]; other site 485916002716 membrane-bound complex binding site; other site 485916002717 hinge residues; other site 485916002718 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 485916002719 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 485916002720 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 485916002721 putative active site [active] 485916002722 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916002723 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916002724 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 485916002725 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 485916002726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916002727 catalytic residue [active] 485916002728 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 485916002729 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 485916002730 FMN binding site [chemical binding]; other site 485916002731 substrate binding site [chemical binding]; other site 485916002732 putative catalytic residue [active] 485916002733 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 485916002734 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 485916002735 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 485916002736 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 485916002737 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 485916002738 FOG: CBS domain [General function prediction only]; Region: COG0517 485916002739 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 485916002740 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 485916002741 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 485916002742 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 485916002743 sensory histidine kinase AtoS; Provisional; Region: PRK11360 485916002744 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 485916002745 putative active site [active] 485916002746 heme pocket [chemical binding]; other site 485916002747 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 485916002748 dimer interface [polypeptide binding]; other site 485916002749 phosphorylation site [posttranslational modification] 485916002750 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 485916002751 ATP binding site [chemical binding]; other site 485916002752 Mg2+ binding site [ion binding]; other site 485916002753 G-X-G motif; other site 485916002754 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485916002755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916002756 active site 485916002757 phosphorylation site [posttranslational modification] 485916002758 intermolecular recognition site; other site 485916002759 dimerization interface [polypeptide binding]; other site 485916002760 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 485916002761 Walker A motif; other site 485916002762 ATP binding site [chemical binding]; other site 485916002763 Walker B motif; other site 485916002764 arginine finger; other site 485916002765 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 485916002766 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 485916002767 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 485916002768 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 485916002769 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 485916002770 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 485916002771 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 485916002772 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 485916002773 active site 485916002774 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 485916002775 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485916002776 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916002777 active site 485916002778 dimerization interface [polypeptide binding]; other site 485916002779 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 485916002780 Walker A motif; other site 485916002781 ATP binding site [chemical binding]; other site 485916002782 Walker B motif; other site 485916002783 arginine finger; other site 485916002784 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 485916002785 CBS domain; Region: CBS; pfam00571 485916002786 FOG: CBS domain [General function prediction only]; Region: COG0517 485916002787 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 485916002788 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 485916002789 Sulfate transporter family; Region: Sulfate_transp; pfam00916 485916002790 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 485916002791 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 485916002792 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 485916002793 Transcriptional regulator PadR-like family; Region: PadR; cl17335 485916002794 Predicted transcriptional regulators [Transcription]; Region: COG1695 485916002795 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 485916002796 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 485916002797 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 485916002798 Ligand Binding Site [chemical binding]; other site 485916002799 Carbonic anhydrase; Region: Pro_CA; smart00947 485916002800 active site clefts [active] 485916002801 zinc binding site [ion binding]; other site 485916002802 dimer interface [polypeptide binding]; other site 485916002803 Flagellin N-methylase; Region: FliB; pfam03692 485916002804 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 485916002805 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 485916002806 protein binding site [polypeptide binding]; other site 485916002807 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485916002808 Cysteine-rich domain; Region: CCG; pfam02754 485916002809 Cysteine-rich domain; Region: CCG; pfam02754 485916002810 FAD binding domain; Region: FAD_binding_4; pfam01565 485916002811 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 485916002812 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 485916002813 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 485916002814 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 485916002815 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 485916002816 PhoU domain; Region: PhoU; pfam01895 485916002817 PhoU domain; Region: PhoU; pfam01895 485916002818 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 485916002819 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 485916002820 catalytic residue [active] 485916002821 putative FPP diphosphate binding site; other site 485916002822 putative FPP binding hydrophobic cleft; other site 485916002823 dimer interface [polypeptide binding]; other site 485916002824 putative IPP diphosphate binding site; other site 485916002825 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 485916002826 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 485916002827 Glyco_18 domain; Region: Glyco_18; smart00636 485916002828 active site 485916002829 Virulence protein [General function prediction only]; Region: COG3943 485916002830 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 485916002831 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 485916002832 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 485916002833 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 485916002834 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 485916002835 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 485916002836 metal binding site 2 [ion binding]; metal-binding site 485916002837 putative DNA binding helix; other site 485916002838 metal binding site 1 [ion binding]; metal-binding site 485916002839 dimer interface [polypeptide binding]; other site 485916002840 structural Zn2+ binding site [ion binding]; other site 485916002841 Methyltransferase domain; Region: Methyltransf_23; pfam13489 485916002842 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 485916002843 S-adenosylmethionine binding site [chemical binding]; other site 485916002844 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 485916002845 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 485916002846 Prephenate dehydrogenase; Region: PDH; pfam02153 485916002847 prephenate dehydrogenase; Validated; Region: PRK08507 485916002848 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 485916002849 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 485916002850 sensory histidine kinase AtoS; Provisional; Region: PRK11360 485916002851 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 485916002852 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 485916002853 phosphorylation site [posttranslational modification] 485916002854 dimer interface [polypeptide binding]; other site 485916002855 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 485916002856 ATP binding site [chemical binding]; other site 485916002857 Mg2+ binding site [ion binding]; other site 485916002858 G-X-G motif; other site 485916002859 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485916002860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916002861 active site 485916002862 phosphorylation site [posttranslational modification] 485916002863 intermolecular recognition site; other site 485916002864 dimerization interface [polypeptide binding]; other site 485916002865 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 485916002866 Walker A motif; other site 485916002867 ATP binding site [chemical binding]; other site 485916002868 Walker B motif; other site 485916002869 arginine finger; other site 485916002870 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 485916002871 FOG: CBS domain [General function prediction only]; Region: COG0517 485916002872 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 485916002873 FOG: CBS domain [General function prediction only]; Region: COG0517 485916002874 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 485916002875 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 485916002876 dimerization interface [polypeptide binding]; other site 485916002877 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916002878 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916002879 dimer interface [polypeptide binding]; other site 485916002880 putative CheW interface [polypeptide binding]; other site 485916002881 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 485916002882 Nitrogen regulatory protein P-II; Region: P-II; smart00938 485916002883 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 485916002884 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 485916002885 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 485916002886 Nitrogen regulatory protein P-II; Region: P-II; smart00938 485916002887 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 485916002888 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 485916002889 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 485916002890 active site 485916002891 catalytic residues [active] 485916002892 metal binding site [ion binding]; metal-binding site 485916002893 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 485916002894 nitrogenase iron protein; Region: nifH; TIGR01287 485916002895 Nucleotide-binding sites [chemical binding]; other site 485916002896 Walker A motif; other site 485916002897 Switch I region of nucleotide binding site; other site 485916002898 Fe4S4 binding sites [ion binding]; other site 485916002899 Switch II region of nucleotide binding site; other site 485916002900 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 485916002901 Nitrogen regulatory protein P-II; Region: P-II; smart00938 485916002902 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 485916002903 Nitrogen regulatory protein P-II; Region: P-II; smart00938 485916002904 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 485916002905 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 485916002906 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 485916002907 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 485916002908 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 485916002909 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 485916002910 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 485916002911 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 485916002912 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 485916002913 Radical SAM superfamily; Region: Radical_SAM; pfam04055 485916002914 FeS/SAM binding site; other site 485916002915 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 485916002916 dimer interface [polypeptide binding]; other site 485916002917 [2Fe-2S] cluster binding site [ion binding]; other site 485916002918 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; cl17112 485916002919 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 485916002920 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 485916002921 active site 485916002922 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 485916002923 dimer interface [polypeptide binding]; other site 485916002924 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 485916002925 Ligand Binding Site [chemical binding]; other site 485916002926 Molecular Tunnel; other site 485916002927 NAD synthetase; Provisional; Region: PRK13981 485916002928 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 485916002929 multimer interface [polypeptide binding]; other site 485916002930 active site 485916002931 catalytic triad [active] 485916002932 protein interface 1 [polypeptide binding]; other site 485916002933 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 485916002934 homodimer interface [polypeptide binding]; other site 485916002935 NAD binding pocket [chemical binding]; other site 485916002936 ATP binding pocket [chemical binding]; other site 485916002937 Mg binding site [ion binding]; other site 485916002938 active-site loop [active] 485916002939 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 485916002940 histidinol-phosphatase; Provisional; Region: PRK07328 485916002941 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 485916002942 active site 485916002943 dimer interface [polypeptide binding]; other site 485916002944 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 485916002945 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 485916002946 catalytic triad [active] 485916002947 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 485916002948 HlyD family secretion protein; Region: HlyD_3; pfam13437 485916002949 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485916002950 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 485916002951 Walker A/P-loop; other site 485916002952 ATP binding site [chemical binding]; other site 485916002953 Q-loop/lid; other site 485916002954 ABC transporter signature motif; other site 485916002955 Walker B; other site 485916002956 D-loop; other site 485916002957 H-loop/switch region; other site 485916002958 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485916002959 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 485916002960 FtsX-like permease family; Region: FtsX; pfam02687 485916002961 Helix-turn-helix domain; Region: HTH_28; pfam13518 485916002962 Winged helix-turn helix; Region: HTH_29; pfam13551 485916002963 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916002964 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916002965 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 485916002966 cell division protein MraZ; Reviewed; Region: PRK00326 485916002967 MraZ protein; Region: MraZ; pfam02381 485916002968 MraZ protein; Region: MraZ; pfam02381 485916002969 MraW methylase family; Region: Methyltransf_5; pfam01795 485916002970 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 485916002971 Cell division protein FtsL; Region: FtsL; cl11433 485916002972 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 485916002973 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 485916002974 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 485916002975 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 485916002976 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 485916002977 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 485916002978 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 485916002979 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916002980 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485916002981 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 485916002982 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 485916002983 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916002984 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485916002985 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 485916002986 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 485916002987 Mg++ binding site [ion binding]; other site 485916002988 putative catalytic motif [active] 485916002989 putative substrate binding site [chemical binding]; other site 485916002990 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 485916002991 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916002992 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485916002993 cell division protein FtsW; Region: ftsW; TIGR02614 485916002994 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 485916002995 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 485916002996 active site 485916002997 homodimer interface [polypeptide binding]; other site 485916002998 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 485916002999 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 485916003000 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916003001 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485916003002 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 485916003003 FAD binding domain; Region: FAD_binding_4; pfam01565 485916003004 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 485916003005 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 485916003006 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 485916003007 hinge; other site 485916003008 active site 485916003009 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 485916003010 Cell division protein FtsQ; Region: FtsQ; pfam03799 485916003011 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 485916003012 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 485916003013 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 485916003014 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 485916003015 cell division protein FtsA; Region: ftsA; TIGR01174 485916003016 Cell division protein FtsA; Region: FtsA; smart00842 485916003017 Cell division protein FtsA; Region: FtsA; pfam14450 485916003018 cell division protein FtsZ; Validated; Region: PRK09330 485916003019 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 485916003020 nucleotide binding site [chemical binding]; other site 485916003021 SulA interaction site; other site 485916003022 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 485916003023 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 485916003024 sporulation sigma factor SigE; Reviewed; Region: PRK08301 485916003025 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916003026 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 485916003027 DNA binding residues [nucleotide binding] 485916003028 sporulation sigma factor SigG; Reviewed; Region: PRK08215 485916003029 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916003030 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 485916003031 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 485916003032 DNA binding residues [nucleotide binding] 485916003033 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 485916003034 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 485916003035 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 485916003036 ATP cone domain; Region: ATP-cone; pfam03477 485916003037 ATP cone domain; Region: ATP-cone; pfam03477 485916003038 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 485916003039 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 485916003040 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 485916003041 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 485916003042 protein-splicing catalytic site; other site 485916003043 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 485916003044 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 485916003045 FeS/SAM binding site; other site 485916003046 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916003047 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 485916003048 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 485916003049 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 485916003050 Beta-Casp domain; Region: Beta-Casp; smart01027 485916003051 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 485916003052 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 485916003053 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 485916003054 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916003055 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916003056 active site 485916003057 phosphorylation site [posttranslational modification] 485916003058 intermolecular recognition site; other site 485916003059 dimerization interface [polypeptide binding]; other site 485916003060 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 485916003061 DNA binding site [nucleotide binding] 485916003062 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 485916003063 Reticulon; Region: Reticulon; pfam02453 485916003064 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 485916003065 dimerization interface [polypeptide binding]; other site 485916003066 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 485916003067 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 485916003068 putative active site [active] 485916003069 heme pocket [chemical binding]; other site 485916003070 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 485916003071 dimer interface [polypeptide binding]; other site 485916003072 phosphorylation site [posttranslational modification] 485916003073 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 485916003074 ATP binding site [chemical binding]; other site 485916003075 Mg2+ binding site [ion binding]; other site 485916003076 G-X-G motif; other site 485916003077 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 485916003078 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 485916003079 Walker A/P-loop; other site 485916003080 ATP binding site [chemical binding]; other site 485916003081 Q-loop/lid; other site 485916003082 ABC transporter signature motif; other site 485916003083 Walker B; other site 485916003084 D-loop; other site 485916003085 H-loop/switch region; other site 485916003086 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 485916003087 PhoU domain; Region: PhoU; pfam01895 485916003088 PhoU domain; Region: PhoU; pfam01895 485916003089 HlyD family secretion protein; Region: HlyD_2; pfam12700 485916003090 putative membrane fusion protein; Region: TIGR02828 485916003091 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 485916003092 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 485916003093 catalytic residue [active] 485916003094 Protein of unknown function (DUF552); Region: DUF552; pfam04472 485916003095 pyrroline-5-carboxylate reductase; Region: PLN02688 485916003096 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 485916003097 YGGT family; Region: YGGT; pfam02325 485916003098 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 485916003099 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 485916003100 DivIVA protein; Region: DivIVA; pfam05103 485916003101 DivIVA domain; Region: DivI1A_domain; TIGR03544 485916003102 Uncharacterized conserved protein [Function unknown]; Region: COG1872 485916003103 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 485916003104 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485916003105 active site 485916003106 HIGH motif; other site 485916003107 nucleotide binding site [chemical binding]; other site 485916003108 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 485916003109 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 485916003110 active site 485916003111 KMSKS motif; other site 485916003112 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 485916003113 tRNA binding surface [nucleotide binding]; other site 485916003114 anticodon binding site; other site 485916003115 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 485916003116 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 485916003117 spore coat protein YutH; Region: spore_yutH; TIGR02905 485916003118 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 485916003119 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 485916003120 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 485916003121 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916003122 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 485916003123 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 485916003124 putative active site [active] 485916003125 putative metal binding site [ion binding]; other site 485916003126 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 485916003127 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 485916003128 dimer interface [polypeptide binding]; other site 485916003129 conserved gate region; other site 485916003130 putative PBP binding loops; other site 485916003131 ABC-ATPase subunit interface; other site 485916003132 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 485916003133 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 485916003134 dimer interface [polypeptide binding]; other site 485916003135 conserved gate region; other site 485916003136 putative PBP binding loops; other site 485916003137 ABC-ATPase subunit interface; other site 485916003138 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 485916003139 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 485916003140 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 485916003141 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 485916003142 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 485916003143 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 485916003144 hypothetical protein; Validated; Region: PRK00110 485916003145 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 485916003146 dimanganese center [ion binding]; other site 485916003147 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916003148 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916003149 Asp23 family; Region: Asp23; pfam03780 485916003150 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 485916003151 active site 485916003152 putative DNA-binding cleft [nucleotide binding]; other site 485916003153 dimer interface [polypeptide binding]; other site 485916003154 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 485916003155 RuvA N terminal domain; Region: RuvA_N; pfam01330 485916003156 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 485916003157 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 485916003158 Walker A motif; other site 485916003159 ATP binding site [chemical binding]; other site 485916003160 Walker B motif; other site 485916003161 arginine finger; other site 485916003162 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 485916003163 Amino acid permease; Region: AA_permease_2; pfam13520 485916003164 Amino acid permease; Region: AA_permease_2; pfam13520 485916003165 MutS domain III; Region: MutS_III; pfam05192 485916003166 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 485916003167 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 485916003168 Walker A/P-loop; other site 485916003169 ATP binding site [chemical binding]; other site 485916003170 Q-loop/lid; other site 485916003171 ABC transporter signature motif; other site 485916003172 Walker B; other site 485916003173 D-loop; other site 485916003174 H-loop/switch region; other site 485916003175 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 485916003176 Ligand Binding Site [chemical binding]; other site 485916003177 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 485916003178 Stage II sporulation protein; Region: SpoIID; pfam08486 485916003179 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 485916003180 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 485916003181 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 485916003182 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 485916003183 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 485916003184 Preprotein translocase subunit; Region: YajC; pfam02699 485916003185 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916003186 Zn2+ binding site [ion binding]; other site 485916003187 Mg2+ binding site [ion binding]; other site 485916003188 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 485916003189 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 485916003190 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 485916003191 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 485916003192 Protein export membrane protein; Region: SecD_SecF; pfam02355 485916003193 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 485916003194 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 485916003195 Cation efflux family; Region: Cation_efflux; pfam01545 485916003196 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 485916003197 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916003198 Outer spore coat protein E (CotE); Region: CotE; pfam10628 485916003199 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 485916003200 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 485916003201 active site 485916003202 ATP binding site [chemical binding]; other site 485916003203 substrate binding site [chemical binding]; other site 485916003204 Outer spore coat protein E (CotE); Region: CotE; pfam10628 485916003205 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916003206 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916003207 active site 485916003208 metal binding site [ion binding]; metal-binding site 485916003209 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916003210 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 485916003211 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 485916003212 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 485916003213 WbqC-like protein family; Region: WbqC; pfam08889 485916003214 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 485916003215 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 485916003216 inhibitor-cofactor binding pocket; inhibition site 485916003217 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916003218 catalytic residue [active] 485916003219 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 485916003220 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 485916003221 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 485916003222 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 485916003223 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 485916003224 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485916003225 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485916003226 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 485916003227 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 485916003228 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 485916003229 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; cl00397 485916003230 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 485916003231 PDGLE domain; Region: PDGLE; pfam13190 485916003232 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 485916003233 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13647 485916003234 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 485916003235 Walker A/P-loop; other site 485916003236 ATP binding site [chemical binding]; other site 485916003237 Q-loop/lid; other site 485916003238 ABC transporter signature motif; other site 485916003239 Walker B; other site 485916003240 D-loop; other site 485916003241 H-loop/switch region; other site 485916003242 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 485916003243 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 485916003244 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916003245 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 485916003246 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 485916003247 catalytic triad [active] 485916003248 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 485916003249 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 485916003250 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 485916003251 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 485916003252 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 485916003253 SpoVR like protein; Region: SpoVR; pfam04293 485916003254 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 485916003255 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 485916003256 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 485916003257 TIGR04076 family protein; Region: TIGR04076 485916003258 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 485916003259 putative active site [active] 485916003260 putative catalytic site [active] 485916003261 NodB motif; other site 485916003262 Zn binding site [ion binding]; other site 485916003263 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 485916003264 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 485916003265 active site 485916003266 metal binding site [ion binding]; metal-binding site 485916003267 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 485916003268 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 485916003269 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 485916003270 ssDNA binding site; other site 485916003271 generic binding surface II; other site 485916003272 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 485916003273 ATP binding site [chemical binding]; other site 485916003274 putative Mg++ binding site [ion binding]; other site 485916003275 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 485916003276 nucleotide binding region [chemical binding]; other site 485916003277 ATP-binding site [chemical binding]; other site 485916003278 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 485916003279 germination protease; Provisional; Region: PRK12362 485916003280 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 485916003281 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 485916003282 S-adenosylmethionine binding site [chemical binding]; other site 485916003283 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 485916003284 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 485916003285 active site 485916003286 (T/H)XGH motif; other site 485916003287 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 485916003288 propionate/acetate kinase; Provisional; Region: PRK12379 485916003289 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 485916003290 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 485916003291 Nucleoside recognition; Region: Gate; pfam07670 485916003292 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 485916003293 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 485916003294 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 485916003295 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 485916003296 HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PaaI; COG2050 485916003297 putative phosphate acyltransferase; Provisional; Region: PRK05331 485916003298 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 485916003299 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 485916003300 dimer interface [polypeptide binding]; other site 485916003301 active site 485916003302 CoA binding pocket [chemical binding]; other site 485916003303 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 485916003304 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 485916003305 FMN binding site [chemical binding]; other site 485916003306 substrate binding site [chemical binding]; other site 485916003307 putative catalytic residue [active] 485916003308 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 485916003309 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 485916003310 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 485916003311 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 485916003312 NAD(P) binding site [chemical binding]; other site 485916003313 homotetramer interface [polypeptide binding]; other site 485916003314 homodimer interface [polypeptide binding]; other site 485916003315 active site 485916003316 acyl carrier protein; Provisional; Region: acpP; PRK00982 485916003317 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 485916003318 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 485916003319 dimer interface [polypeptide binding]; other site 485916003320 active site 485916003321 ribonuclease III; Reviewed; Region: rnc; PRK00102 485916003322 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 485916003323 dimerization interface [polypeptide binding]; other site 485916003324 active site 485916003325 metal binding site [ion binding]; metal-binding site 485916003326 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 485916003327 dsRNA binding site [nucleotide binding]; other site 485916003328 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 485916003329 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 485916003330 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 485916003331 P loop; other site 485916003332 GTP binding site [chemical binding]; other site 485916003333 5'-methylthioadenosine phosphorylase; Validated; Region: PRK08666 485916003334 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 485916003335 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 485916003336 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 485916003337 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 485916003338 homotetramer interface [polypeptide binding]; other site 485916003339 ligand binding site [chemical binding]; other site 485916003340 catalytic site [active] 485916003341 NAD binding site [chemical binding]; other site 485916003342 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 485916003343 intersubunit interface [polypeptide binding]; other site 485916003344 active site 485916003345 Zn2+ binding site [ion binding]; other site 485916003346 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 485916003347 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 485916003348 active site 485916003349 putative substrate binding pocket [chemical binding]; other site 485916003350 intracellular protease, PfpI family; Region: PfpI; TIGR01382 485916003351 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 485916003352 proposed catalytic triad [active] 485916003353 conserved cys residue [active] 485916003354 Transposase IS200 like; Region: Y1_Tnp; pfam01797 485916003355 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 485916003356 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 485916003357 inhibitor-cofactor binding pocket; inhibition site 485916003358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916003359 catalytic residue [active] 485916003360 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 485916003361 DNA binding residues [nucleotide binding] 485916003362 signal recognition particle protein; Provisional; Region: PRK10867 485916003363 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 485916003364 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 485916003365 P loop; other site 485916003366 GTP binding site [chemical binding]; other site 485916003367 Signal peptide binding domain; Region: SRP_SPB; pfam02978 485916003368 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 485916003369 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 485916003370 hypothetical protein; Provisional; Region: PRK00468 485916003371 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 485916003372 RimM N-terminal domain; Region: RimM; pfam01782 485916003373 PRC-barrel domain; Region: PRC; pfam05239 485916003374 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 485916003375 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 485916003376 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 485916003377 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 485916003378 Catalytic site [active] 485916003379 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 485916003380 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 485916003381 GTP/Mg2+ binding site [chemical binding]; other site 485916003382 G4 box; other site 485916003383 G5 box; other site 485916003384 G1 box; other site 485916003385 Switch I region; other site 485916003386 G2 box; other site 485916003387 G3 box; other site 485916003388 Switch II region; other site 485916003389 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 485916003390 RNA/DNA hybrid binding site [nucleotide binding]; other site 485916003391 active site 485916003392 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 485916003393 NADH dehydrogenase subunit B; Validated; Region: PRK06411 485916003394 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 485916003395 NADH dehydrogenase subunit D; Provisional; Region: PRK12322 485916003396 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 485916003397 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 485916003398 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 485916003399 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 485916003400 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916003401 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 485916003402 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 485916003403 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 485916003404 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 485916003405 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 485916003406 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 485916003407 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 485916003408 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 485916003409 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 485916003410 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 485916003411 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 485916003412 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 485916003413 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 485916003414 hypothetical protein; Reviewed; Region: PRK12497 485916003415 Uncharacterized conserved protein [Function unknown]; Region: COG1284 485916003416 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 485916003417 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 485916003418 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 485916003419 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 485916003420 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 485916003421 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 485916003422 Walker A motif; other site 485916003423 ATP binding site [chemical binding]; other site 485916003424 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 485916003425 Ferredoxin [Energy production and conversion]; Region: COG1146 485916003426 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916003427 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 485916003428 DNA protecting protein DprA; Region: dprA; TIGR00732 485916003429 DNA topoisomerase I; Validated; Region: PRK05582 485916003430 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 485916003431 active site 485916003432 interdomain interaction site; other site 485916003433 putative metal-binding site [ion binding]; other site 485916003434 nucleotide binding site [chemical binding]; other site 485916003435 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 485916003436 domain I; other site 485916003437 DNA binding groove [nucleotide binding] 485916003438 phosphate binding site [ion binding]; other site 485916003439 domain II; other site 485916003440 domain III; other site 485916003441 nucleotide binding site [chemical binding]; other site 485916003442 catalytic site [active] 485916003443 domain IV; other site 485916003444 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 485916003445 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 485916003446 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 485916003447 Glucose inhibited division protein A; Region: GIDA; pfam01134 485916003448 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 485916003449 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 485916003450 active site 485916003451 DNA binding site [nucleotide binding] 485916003452 Int/Topo IB signature motif; other site 485916003453 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 485916003454 active site 485916003455 HslU subunit interaction site [polypeptide binding]; other site 485916003456 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 485916003457 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 485916003458 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 485916003459 Walker A motif; other site 485916003460 ATP binding site [chemical binding]; other site 485916003461 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 485916003462 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 485916003463 transcriptional repressor CodY; Validated; Region: PRK04158 485916003464 CodY GAF-like domain; Region: CodY; pfam06018 485916003465 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 485916003466 Clp protease; Region: CLP_protease; pfam00574 485916003467 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 485916003468 oligomer interface [polypeptide binding]; other site 485916003469 active site residues [active] 485916003470 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 485916003471 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 485916003472 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 485916003473 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 485916003474 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 485916003475 P loop nucleotide binding; other site 485916003476 switch II; other site 485916003477 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 485916003478 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 485916003479 switch II; other site 485916003480 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 485916003481 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 485916003482 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916003483 Walker A/P-loop; other site 485916003484 ATP binding site [chemical binding]; other site 485916003485 Q-loop/lid; other site 485916003486 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485916003487 ABC transporter signature motif; other site 485916003488 Walker B; other site 485916003489 D-loop; other site 485916003490 H-loop/switch region; other site 485916003491 ABC transporter; Region: ABC_tran_2; pfam12848 485916003492 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485916003493 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916003494 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916003495 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916003496 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916003497 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485916003498 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916003499 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 485916003500 DNA binding residues [nucleotide binding] 485916003501 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 485916003502 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 485916003503 catalytic residues [active] 485916003504 catalytic nucleophile [active] 485916003505 Coat F domain; Region: Coat_F; pfam07875 485916003506 stage V sporulation protein T; Region: spore_V_T; TIGR02851 485916003507 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 485916003508 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 485916003509 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 485916003510 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 485916003511 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 485916003512 putative active site [active] 485916003513 catalytic site [active] 485916003514 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 485916003515 putative active site [active] 485916003516 catalytic site [active] 485916003517 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 485916003518 Mechanosensitive ion channel; Region: MS_channel; pfam00924 485916003519 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 485916003520 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 485916003521 substrate binding pocket [chemical binding]; other site 485916003522 chain length determination region; other site 485916003523 substrate-Mg2+ binding site; other site 485916003524 catalytic residues [active] 485916003525 aspartate-rich region 1; other site 485916003526 active site lid residues [active] 485916003527 aspartate-rich region 2; other site 485916003528 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 485916003529 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 485916003530 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 485916003531 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 485916003532 tRNA; other site 485916003533 putative tRNA binding site [nucleotide binding]; other site 485916003534 putative NADP binding site [chemical binding]; other site 485916003535 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 485916003536 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 485916003537 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; cd00494 485916003538 domain interfaces; other site 485916003539 active site 485916003540 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 485916003541 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 485916003542 active site 485916003543 SAM binding site [chemical binding]; other site 485916003544 homodimer interface [polypeptide binding]; other site 485916003545 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 485916003546 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 485916003547 active site 485916003548 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 485916003549 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 485916003550 FeS/SAM binding site; other site 485916003551 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 485916003552 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 485916003553 dimer interface [polypeptide binding]; other site 485916003554 active site 485916003555 Schiff base residues; other site 485916003556 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 485916003557 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 485916003558 FeS/SAM binding site; other site 485916003559 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 485916003560 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 485916003561 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 485916003562 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 485916003563 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 485916003564 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 485916003565 inhibitor-cofactor binding pocket; inhibition site 485916003566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916003567 catalytic residue [active] 485916003568 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 485916003569 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 485916003570 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 485916003571 CoA binding domain; Region: CoA_binding; pfam02629 485916003572 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 485916003573 MoxR-like ATPases [General function prediction only]; Region: COG0714 485916003574 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 485916003575 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 485916003576 Walker A motif; other site 485916003577 ATP binding site [chemical binding]; other site 485916003578 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 485916003579 Flagellin N-methylase; Region: FliB; pfam03692 485916003580 4Fe-4S binding domain; Region: Fer4; cl02805 485916003581 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 485916003582 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 485916003583 P-loop; other site 485916003584 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 485916003585 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 485916003586 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 485916003587 ACS interaction site; other site 485916003588 CODH interaction site; other site 485916003589 cubane metal cluster (B-cluster) [ion binding]; other site 485916003590 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 485916003591 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 485916003592 Acetyl-CoA synthase (ACS), also known as acetyl-CoA decarbonylase, is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA. ACS forms a heterotetramer with carbon monoxide dehydrogenase (CODH)...; Region: ACS_2; cd01917 485916003593 CODH interaction site; other site 485916003594 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 485916003595 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 485916003596 Putative Fe-S cluster; Region: FeS; cl17515 485916003597 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 485916003598 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 485916003599 catalytic loop [active] 485916003600 iron binding site [ion binding]; other site 485916003601 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 485916003602 nucleotide binding site [chemical binding]; other site 485916003603 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 485916003604 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 485916003605 P-loop; other site 485916003606 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 485916003607 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 485916003608 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 485916003609 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 485916003610 substrate binding pocket [chemical binding]; other site 485916003611 dimer interface [polypeptide binding]; other site 485916003612 inhibitor binding site; inhibition site 485916003613 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 485916003614 4Fe-4S binding domain; Region: Fer4; pfam00037 485916003615 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 485916003616 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003617 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 485916003618 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485916003619 Ferredoxin [Energy production and conversion]; Region: COG1146 485916003620 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 485916003621 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 485916003622 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 485916003623 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 485916003624 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 485916003625 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 485916003626 FAD binding pocket [chemical binding]; other site 485916003627 FAD binding motif [chemical binding]; other site 485916003628 phosphate binding motif [ion binding]; other site 485916003629 beta-alpha-beta structure motif; other site 485916003630 NAD binding pocket [chemical binding]; other site 485916003631 Iron coordination center [ion binding]; other site 485916003632 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485916003633 Cysteine-rich domain; Region: CCG; pfam02754 485916003634 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 485916003635 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 485916003636 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 485916003637 FAD binding site [chemical binding]; other site 485916003638 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 485916003639 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 485916003640 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 485916003641 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 485916003642 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 485916003643 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 485916003644 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 485916003645 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 485916003646 Walker A motif; other site 485916003647 ATP binding site [chemical binding]; other site 485916003648 Walker B motif; other site 485916003649 arginine finger; other site 485916003650 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 485916003651 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 485916003652 active site 485916003653 putative homodimer interface [polypeptide binding]; other site 485916003654 SAM binding site [chemical binding]; other site 485916003655 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 485916003656 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 485916003657 S-adenosylmethionine binding site [chemical binding]; other site 485916003658 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 485916003659 active site 485916003660 SAM binding site [chemical binding]; other site 485916003661 homodimer interface [polypeptide binding]; other site 485916003662 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 485916003663 active site 485916003664 SAM binding site [chemical binding]; other site 485916003665 homodimer interface [polypeptide binding]; other site 485916003666 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 485916003667 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 485916003668 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 485916003669 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 485916003670 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 485916003671 active site 485916003672 SAM binding site [chemical binding]; other site 485916003673 homodimer interface [polypeptide binding]; other site 485916003674 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 485916003675 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 485916003676 Precorrin-8X methylmutase; Region: CbiC; pfam02570 485916003677 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485916003678 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916003679 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 485916003680 Transglycosylase; Region: Transgly; pfam00912 485916003681 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 485916003682 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 485916003683 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 485916003684 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916003685 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 485916003686 Restriction endonuclease; Region: Mrr_cat; pfam04471 485916003687 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 485916003688 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 485916003689 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 485916003690 inhibitor-cofactor binding pocket; inhibition site 485916003691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916003692 catalytic residue [active] 485916003693 Restriction endonuclease; Region: Mrr_cat; pfam04471 485916003694 Protein of unknown function (DUF445); Region: DUF445; pfam04286 485916003695 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 485916003696 aspartate aminotransferase; Provisional; Region: PRK06836 485916003697 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 485916003698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916003699 homodimer interface [polypeptide binding]; other site 485916003700 catalytic residue [active] 485916003701 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 485916003702 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 485916003703 putative NAD(P) binding site [chemical binding]; other site 485916003704 active site 485916003705 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 485916003706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 485916003707 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916003708 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916003709 PAS fold; Region: PAS; pfam00989 485916003710 PAS domain; Region: PAS; smart00091 485916003711 putative active site [active] 485916003712 heme pocket [chemical binding]; other site 485916003713 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 485916003714 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 485916003715 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 485916003716 ATP binding site [chemical binding]; other site 485916003717 putative Mg++ binding site [ion binding]; other site 485916003718 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 485916003719 nucleotide binding region [chemical binding]; other site 485916003720 ATP-binding site [chemical binding]; other site 485916003721 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 485916003722 DNA protecting protein DprA; Region: dprA; TIGR00732 485916003723 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 485916003724 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 485916003725 active site 485916003726 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 485916003727 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 485916003728 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 485916003729 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 485916003730 putative NADP binding site [chemical binding]; other site 485916003731 active site 485916003732 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 485916003733 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]; Region: COG2108 485916003734 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 485916003735 FeS/SAM binding site; other site 485916003736 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 485916003737 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 485916003738 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 485916003739 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 485916003740 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 485916003741 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 485916003742 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 485916003743 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 485916003744 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485916003745 DNA binding residues [nucleotide binding] 485916003746 putative dimer interface [polypeptide binding]; other site 485916003747 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 485916003748 Uncharacterized conserved protein [Function unknown]; Region: COG2006 485916003749 4Fe-4S binding domain; Region: Fer4; pfam00037 485916003750 4Fe-4S binding domain; Region: Fer4; pfam00037 485916003751 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916003752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916003753 active site 485916003754 phosphorylation site [posttranslational modification] 485916003755 intermolecular recognition site; other site 485916003756 dimerization interface [polypeptide binding]; other site 485916003757 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 485916003758 DNA binding site [nucleotide binding] 485916003759 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916003760 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 485916003761 dimerization interface [polypeptide binding]; other site 485916003762 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 485916003763 dimer interface [polypeptide binding]; other site 485916003764 phosphorylation site [posttranslational modification] 485916003765 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 485916003766 ATP binding site [chemical binding]; other site 485916003767 Mg2+ binding site [ion binding]; other site 485916003768 G-X-G motif; other site 485916003769 adenylate kinase; Reviewed; Region: adk; PRK00279 485916003770 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 485916003771 AMP-binding site [chemical binding]; other site 485916003772 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 485916003773 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485916003774 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 485916003775 S-adenosylmethionine binding site [chemical binding]; other site 485916003776 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 485916003777 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 485916003778 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485916003779 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485916003780 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 485916003781 dimer interface [polypeptide binding]; other site 485916003782 substrate binding site [chemical binding]; other site 485916003783 metal binding site [ion binding]; metal-binding site 485916003784 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 485916003785 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 485916003786 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 485916003787 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 485916003788 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 485916003789 carboxyltransferase (CT) interaction site; other site 485916003790 biotinylation site [posttranslational modification]; other site 485916003791 metal-dependent hydrolase; Provisional; Region: PRK00685 485916003792 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 485916003793 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916003794 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916003795 active site 485916003796 metal binding site [ion binding]; metal-binding site 485916003797 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 485916003798 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 485916003799 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 485916003800 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 485916003801 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 485916003802 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 485916003803 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 485916003804 Cysteine-rich domain; Region: CCG; pfam02754 485916003805 Cysteine-rich domain; Region: CCG; pfam02754 485916003806 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003807 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 485916003808 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003809 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003810 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485916003811 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 485916003812 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 485916003813 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 485916003814 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 485916003815 Cysteine-rich domain; Region: CCG; pfam02754 485916003816 Cysteine-rich domain; Region: CCG; pfam02754 485916003817 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003818 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485916003819 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 485916003820 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 485916003821 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 485916003822 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 485916003823 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 485916003824 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 485916003825 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 485916003826 FAD binding pocket [chemical binding]; other site 485916003827 FAD binding motif [chemical binding]; other site 485916003828 phosphate binding motif [ion binding]; other site 485916003829 beta-alpha-beta structure motif; other site 485916003830 NAD binding pocket [chemical binding]; other site 485916003831 Iron coordination center [ion binding]; other site 485916003832 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 485916003833 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916003834 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 485916003835 DNA binding residues [nucleotide binding] 485916003836 Putative zinc-finger; Region: zf-HC2; pfam13490 485916003837 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 485916003838 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 485916003839 homodecamer interface [polypeptide binding]; other site 485916003840 GTP cyclohydrolase I; Provisional; Region: PLN03044 485916003841 active site 485916003842 putative catalytic site residues [active] 485916003843 zinc binding site [ion binding]; other site 485916003844 GTP-CH-I/GFRP interaction surface; other site 485916003845 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 485916003846 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 485916003847 stage V sporulation protein B; Region: spore_V_B; TIGR02900 485916003848 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 485916003849 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 485916003850 elongation factor G; Reviewed; Region: PRK12740 485916003851 G1 box; other site 485916003852 putative GEF interaction site [polypeptide binding]; other site 485916003853 GTP/Mg2+ binding site [chemical binding]; other site 485916003854 Switch I region; other site 485916003855 G2 box; other site 485916003856 G3 box; other site 485916003857 Switch II region; other site 485916003858 G4 box; other site 485916003859 G5 box; other site 485916003860 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 485916003861 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 485916003862 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 485916003863 Domain of unknown function (DUF202); Region: DUF202; pfam02656 485916003864 PilZ domain; Region: PilZ; pfam07238 485916003865 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916003866 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916003867 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916003868 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 485916003869 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 485916003870 RNA/DNA hybrid binding site [nucleotide binding]; other site 485916003871 active site 485916003872 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 485916003873 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 485916003874 dimerization interface [polypeptide binding]; other site 485916003875 domain crossover interface; other site 485916003876 redox-dependent activation switch; other site 485916003877 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 485916003878 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 485916003879 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916003880 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 485916003881 dimerization interface [polypeptide binding]; other site 485916003882 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 485916003883 dimer interface [polypeptide binding]; other site 485916003884 phosphorylation site [posttranslational modification] 485916003885 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 485916003886 ATP binding site [chemical binding]; other site 485916003887 Mg2+ binding site [ion binding]; other site 485916003888 G-X-G motif; other site 485916003889 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916003890 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916003891 active site 485916003892 phosphorylation site [posttranslational modification] 485916003893 intermolecular recognition site; other site 485916003894 dimerization interface [polypeptide binding]; other site 485916003895 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 485916003896 DNA binding site [nucleotide binding] 485916003897 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 485916003898 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 485916003899 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 485916003900 protein binding site [polypeptide binding]; other site 485916003901 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003902 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485916003903 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916003904 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 485916003905 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 485916003906 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 485916003907 N-acetyl-D-glucosamine binding site [chemical binding]; other site 485916003908 catalytic residue [active] 485916003909 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916003910 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 485916003911 DNA binding site [nucleotide binding] 485916003912 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 485916003913 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 485916003914 CoenzymeA binding site [chemical binding]; other site 485916003915 subunit interaction site [polypeptide binding]; other site 485916003916 PHB binding site; other site 485916003917 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 485916003918 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 485916003919 acyl-activating enzyme (AAE) consensus motif; other site 485916003920 AMP binding site [chemical binding]; other site 485916003921 active site 485916003922 CoA binding site [chemical binding]; other site 485916003923 DNA methylase; Region: N6_N4_Mtase; pfam01555 485916003924 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 485916003925 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 485916003926 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 485916003927 NurA domain; Region: NurA; pfam09376 485916003928 HerA helicase [Replication, recombination, and repair]; Region: COG0433 485916003929 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 485916003930 active site 485916003931 metal binding site [ion binding]; metal-binding site 485916003932 DNA binding site [nucleotide binding] 485916003933 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916003934 Walker A/P-loop; other site 485916003935 ATP binding site [chemical binding]; other site 485916003936 AAA domain; Region: AAA_21; pfam13304 485916003937 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916003938 ABC transporter signature motif; other site 485916003939 Walker B; other site 485916003940 D-loop; other site 485916003941 H-loop/switch region; other site 485916003942 Uncharacterized conserved protein [Function unknown]; Region: COG5663 485916003943 CGGC domain; Region: CGGC; pfam08821 485916003944 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 485916003945 putative active site [active] 485916003946 putative metal binding site [ion binding]; other site 485916003947 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 485916003948 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 485916003949 Helix-turn-helix domain; Region: HTH_36; pfam13730 485916003950 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 485916003951 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 485916003952 Walker A motif; other site 485916003953 ATP binding site [chemical binding]; other site 485916003954 Walker B motif; other site 485916003955 Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Region: RpsA; COG0539 485916003956 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 485916003957 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 485916003958 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 485916003959 active site 485916003960 metal binding site [ion binding]; metal-binding site 485916003961 interdomain interaction site; other site 485916003962 Domain of unknown function (DUF3854); Region: DUF3854; pfam12965 485916003963 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 485916003964 hypothetical protein; Reviewed; Region: PRK00024 485916003965 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 485916003966 MPN+ (JAMM) motif; other site 485916003967 Zinc-binding site [ion binding]; other site 485916003968 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 485916003969 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 485916003970 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 485916003971 active site 485916003972 catalytic residues [active] 485916003973 DNA binding site [nucleotide binding] 485916003974 Int/Topo IB signature motif; other site 485916003975 DEAD-like helicases superfamily; Region: DEXDc; smart00487 485916003976 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 485916003977 ATP binding site [chemical binding]; other site 485916003978 putative Mg++ binding site [ion binding]; other site 485916003979 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 485916003980 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 485916003981 nucleotide binding region [chemical binding]; other site 485916003982 ATP-binding site [chemical binding]; other site 485916003983 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 485916003984 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 485916003985 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 485916003986 ATP binding site [chemical binding]; other site 485916003987 putative Mg++ binding site [ion binding]; other site 485916003988 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 485916003989 ATP-binding site [chemical binding]; other site 485916003990 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 485916003991 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 485916003992 Part of AAA domain; Region: AAA_19; pfam13245 485916003993 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 485916003994 Family description; Region: UvrD_C_2; pfam13538 485916003995 Helix-turn-helix domain; Region: HTH_28; pfam13518 485916003996 Winged helix-turn helix; Region: HTH_29; pfam13551 485916003997 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916003998 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916003999 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916004000 Walker A/P-loop; other site 485916004001 ATP binding site [chemical binding]; other site 485916004002 AAA domain; Region: AAA_21; pfam13304 485916004003 DNA methylase; Region: N6_N4_Mtase; cl17433 485916004004 Protein of unknown function DUF262; Region: DUF262; pfam03235 485916004005 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916004006 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916004007 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 485916004008 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 485916004009 active site 485916004010 DNA binding site [nucleotide binding] 485916004011 Int/Topo IB signature motif; other site 485916004012 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 485916004013 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 485916004014 active site 485916004015 DNA binding site [nucleotide binding] 485916004016 Int/Topo IB signature motif; other site 485916004017 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 485916004018 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 485916004019 active site 485916004020 DNA binding site [nucleotide binding] 485916004021 Int/Topo IB signature motif; other site 485916004022 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 485916004023 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 485916004024 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 485916004025 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 485916004026 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 485916004027 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 485916004028 Transposase domain (DUF772); Region: DUF772; pfam05598 485916004029 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 485916004030 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 485916004031 SynChlorMet cassette radical SAM/SPASM protein ScmE; Region: SCM_rSAM_ScmE; TIGR04250 485916004032 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 485916004033 FeS/SAM binding site; other site 485916004034 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 485916004035 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 485916004036 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 485916004037 ATP binding site [chemical binding]; other site 485916004038 putative Mg++ binding site [ion binding]; other site 485916004039 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 485916004040 nucleotide binding region [chemical binding]; other site 485916004041 ATP-binding site [chemical binding]; other site 485916004042 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 485916004043 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485916004044 DNA-binding site [nucleotide binding]; DNA binding site 485916004045 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 485916004046 Creatinine amidohydrolase; Region: Creatininase; pfam02633 485916004047 Homeodomain-like domain; Region: HTH_23; pfam13384 485916004048 Winged helix-turn helix; Region: HTH_29; pfam13551 485916004049 Winged helix-turn helix; Region: HTH_33; pfam13592 485916004050 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916004051 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916004052 Helix-turn-helix domain; Region: HTH_17; pfam12728 485916004053 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916004054 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 485916004055 non-specific DNA binding site [nucleotide binding]; other site 485916004056 salt bridge; other site 485916004057 sequence-specific DNA binding site [nucleotide binding]; other site 485916004058 Domain of unknown function (DUF955); Region: DUF955; pfam06114 485916004059 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 485916004060 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 485916004061 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 485916004062 ATP binding site [chemical binding]; other site 485916004063 putative Mg++ binding site [ion binding]; other site 485916004064 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 485916004065 nucleotide binding region [chemical binding]; other site 485916004066 ATP-binding site [chemical binding]; other site 485916004067 C-terminal putative phospholipase D-like domain of uncharacterized prokaryotic HKD family nucleases fused to DEAD/DEAH box helicases; Region: PLDc_C_DEXD_like; cd09126 485916004068 PLD-like domain; Region: PLDc_2; pfam13091 485916004069 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 485916004070 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 485916004071 Divergent AAA domain; Region: AAA_4; pfam04326 485916004072 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 485916004073 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916004074 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916004075 Probable transposase; Region: OrfB_IS605; pfam01385 485916004076 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916004077 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 485916004078 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 485916004079 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 485916004080 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 485916004081 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 485916004082 Methyltransferase domain; Region: Methyltransf_23; pfam13489 485916004083 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 485916004084 S-adenosylmethionine binding site [chemical binding]; other site 485916004085 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 485916004086 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 485916004087 cell division protein MraZ; Reviewed; Region: PRK00326 485916004088 S-layer homology domain; Region: SLH; pfam00395 485916004089 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 485916004090 YodL-like; Region: YodL; pfam14191 485916004091 SpoVG; Region: SpoVG; pfam04026 485916004092 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 485916004093 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 485916004094 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 485916004095 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 485916004096 Walker A motif; other site 485916004097 ATP binding site [chemical binding]; other site 485916004098 Walker B motif; other site 485916004099 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 485916004100 Protein of unknown function (DUF3852); Region: DUF3852; pfam12963 485916004101 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 485916004102 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 485916004103 cofactor binding site; other site 485916004104 DNA binding site [nucleotide binding] 485916004105 substrate interaction site [chemical binding]; other site 485916004106 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 485916004107 AAA-like domain; Region: AAA_10; pfam12846 485916004108 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 485916004109 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 485916004110 putative active site pocket [active] 485916004111 dimerization interface [polypeptide binding]; other site 485916004112 putative catalytic residue [active] 485916004113 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 485916004114 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 485916004115 Sel1-like repeats; Region: SEL1; smart00671 485916004116 Sel1-like repeats; Region: SEL1; smart00671 485916004117 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 485916004118 Sel1-like repeats; Region: SEL1; smart00671 485916004119 Sel1-like repeats; Region: SEL1; smart00671 485916004120 Sel1-like repeats; Region: SEL1; smart00671 485916004121 Sel1-like repeats; Region: SEL1; smart00671 485916004122 Sel1-like repeats; Region: SEL1; smart00671 485916004123 CHC2 zinc finger; Region: zf-CHC2; cl17510 485916004124 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 485916004125 Toprim-like; Region: Toprim_2; pfam13155 485916004126 active site 485916004127 metal binding site [ion binding]; metal-binding site 485916004128 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 485916004129 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 485916004130 Walker A motif; other site 485916004131 ATP binding site [chemical binding]; other site 485916004132 Walker B motif; other site 485916004133 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485916004134 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916004135 DNA binding residues [nucleotide binding] 485916004136 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916004137 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 485916004138 DNA binding residues [nucleotide binding] 485916004139 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 485916004140 H+ Antiporter protein; Region: 2A0121; TIGR00900 485916004141 putative substrate translocation pore; other site 485916004142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916004143 Walker A/P-loop; other site 485916004144 ATP binding site [chemical binding]; other site 485916004145 Q-loop/lid; other site 485916004146 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 485916004147 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916004148 AAA domain; Region: AAA_21; pfam13304 485916004149 Walker A/P-loop; other site 485916004150 ATP binding site [chemical binding]; other site 485916004151 Q-loop/lid; other site 485916004152 ABC transporter signature motif; other site 485916004153 Walker B; other site 485916004154 D-loop; other site 485916004155 H-loop/switch region; other site 485916004156 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 485916004157 non-specific DNA binding site [nucleotide binding]; other site 485916004158 salt bridge; other site 485916004159 sequence-specific DNA binding site [nucleotide binding]; other site 485916004160 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916004161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 485916004162 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916004163 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485916004164 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 485916004165 DNA binding residues [nucleotide binding] 485916004166 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916004167 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 485916004168 catalytic residues [active] 485916004169 catalytic nucleophile [active] 485916004170 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916004171 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 485916004172 catalytic residues [active] 485916004173 catalytic nucleophile [active] 485916004174 Recombinase; Region: Recombinase; pfam07508 485916004175 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916004176 Recombinase; Region: Recombinase; pfam07508 485916004177 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916004178 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916004179 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 485916004180 catalytic residues [active] 485916004181 catalytic nucleophile [active] 485916004182 Recombinase; Region: Recombinase; pfam07508 485916004183 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916004184 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916004185 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 485916004186 catalytic residues [active] 485916004187 catalytic nucleophile [active] 485916004188 Recombinase; Region: Recombinase; pfam07508 485916004189 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916004190 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 485916004191 non-specific DNA binding site [nucleotide binding]; other site 485916004192 salt bridge; other site 485916004193 sequence-specific DNA binding site [nucleotide binding]; other site 485916004194 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 485916004195 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 485916004196 cofactor binding site; other site 485916004197 DNA binding site [nucleotide binding] 485916004198 substrate interaction site [chemical binding]; other site 485916004199 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 485916004200 Catalytic GIY-YIG domain of type II restriction enzyme R.Cfr42I and similar proteins; Region: GIY-YIG_RE_Cfr42I; cd10453 485916004201 GIY-YIG motif/motif A; other site 485916004202 putative active site [active] 485916004203 putative metal binding site [ion binding]; other site 485916004204 SEC-C motif; Region: SEC-C; pfam02810 485916004205 SAP domain; Region: SAP; pfam02037 485916004206 SEC-C motif; Region: SEC-C; pfam02810 485916004207 Divergent AAA domain; Region: AAA_4; pfam04326 485916004208 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 485916004209 additional DNA contacts [nucleotide binding]; other site 485916004210 mismatch recognition site; other site 485916004211 active site 485916004212 zinc binding site [ion binding]; other site 485916004213 DNA intercalation site [nucleotide binding]; other site 485916004214 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 485916004215 Divergent AAA domain; Region: AAA_4; pfam04326 485916004216 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 485916004217 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 485916004218 nucleotide binding region [chemical binding]; other site 485916004219 ATP-binding site [chemical binding]; other site 485916004220 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 485916004221 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916004222 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 485916004223 non-specific DNA binding site [nucleotide binding]; other site 485916004224 salt bridge; other site 485916004225 sequence-specific DNA binding site [nucleotide binding]; other site 485916004226 Domain of unknown function (DUF955); Region: DUF955; pfam06114 485916004227 Part of AAA domain; Region: AAA_19; pfam13245 485916004228 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 485916004229 Family description; Region: UvrD_C_2; pfam13538 485916004230 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 485916004231 Family description; Region: UvrD_C_2; pfam13538 485916004232 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916004233 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916004234 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 485916004235 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 485916004236 active site 485916004237 NAD binding site [chemical binding]; other site 485916004238 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 485916004239 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 485916004240 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 485916004241 Rubredoxin; Region: Rubredoxin; pfam00301 485916004242 iron binding site [ion binding]; other site 485916004243 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916004244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004245 active site 485916004246 phosphorylation site [posttranslational modification] 485916004247 intermolecular recognition site; other site 485916004248 dimerization interface [polypeptide binding]; other site 485916004249 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 485916004250 DNA binding site [nucleotide binding] 485916004251 PAS domain; Region: PAS; smart00091 485916004252 PAS fold; Region: PAS_4; pfam08448 485916004253 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 485916004254 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 485916004255 putative active site [active] 485916004256 heme pocket [chemical binding]; other site 485916004257 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 485916004258 dimer interface [polypeptide binding]; other site 485916004259 phosphorylation site [posttranslational modification] 485916004260 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 485916004261 ATP binding site [chemical binding]; other site 485916004262 Mg2+ binding site [ion binding]; other site 485916004263 G-X-G motif; other site 485916004264 Response regulator receiver domain; Region: Response_reg; pfam00072 485916004265 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004266 active site 485916004267 phosphorylation site [posttranslational modification] 485916004268 intermolecular recognition site; other site 485916004269 dimerization interface [polypeptide binding]; other site 485916004270 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485916004271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004272 active site 485916004273 phosphorylation site [posttranslational modification] 485916004274 intermolecular recognition site; other site 485916004275 dimerization interface [polypeptide binding]; other site 485916004276 Response regulator receiver domain; Region: Response_reg; pfam00072 485916004277 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004278 active site 485916004279 phosphorylation site [posttranslational modification] 485916004280 intermolecular recognition site; other site 485916004281 dimerization interface [polypeptide binding]; other site 485916004282 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 485916004283 putative binding surface; other site 485916004284 active site 485916004285 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 485916004286 iron binding site [ion binding]; other site 485916004287 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 485916004288 diiron binding motif [ion binding]; other site 485916004289 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 485916004290 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 485916004291 non-heme iron binding site [ion binding]; other site 485916004292 dimer interface [polypeptide binding]; other site 485916004293 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 485916004294 non-heme iron binding site [ion binding]; other site 485916004295 dimer interface [polypeptide binding]; other site 485916004296 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 485916004297 Ligand Binding Site [chemical binding]; other site 485916004298 Uncharacterized conserved protein [Function unknown]; Region: COG1633 485916004299 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 485916004300 diiron binding motif [ion binding]; other site 485916004301 Rubredoxin [Energy production and conversion]; Region: COG1773 485916004302 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 485916004303 iron binding site [ion binding]; other site 485916004304 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916004305 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 485916004306 dimer interface [polypeptide binding]; other site 485916004307 phosphorylation site [posttranslational modification] 485916004308 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 485916004309 ATP binding site [chemical binding]; other site 485916004310 Mg2+ binding site [ion binding]; other site 485916004311 G-X-G motif; other site 485916004312 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 485916004313 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 485916004314 NodB motif; other site 485916004315 active site 485916004316 catalytic site [active] 485916004317 Cd binding site [ion binding]; other site 485916004318 CAAX protease self-immunity; Region: Abi; pfam02517 485916004319 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 485916004320 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 485916004321 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 485916004322 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916004323 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485916004324 HlyD family secretion protein; Region: HlyD_3; pfam13437 485916004325 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485916004326 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 485916004327 Walker A/P-loop; other site 485916004328 ATP binding site [chemical binding]; other site 485916004329 Q-loop/lid; other site 485916004330 ABC transporter signature motif; other site 485916004331 Walker B; other site 485916004332 D-loop; other site 485916004333 H-loop/switch region; other site 485916004334 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916004335 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 485916004336 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916004337 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 485916004338 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 485916004339 Cache domain; Region: Cache_1; pfam02743 485916004340 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 485916004341 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 485916004342 dimerization interface [polypeptide binding]; other site 485916004343 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 485916004344 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 485916004345 putative active site [active] 485916004346 heme pocket [chemical binding]; other site 485916004347 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 485916004348 dimer interface [polypeptide binding]; other site 485916004349 phosphorylation site [posttranslational modification] 485916004350 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 485916004351 ATP binding site [chemical binding]; other site 485916004352 Mg2+ binding site [ion binding]; other site 485916004353 G-X-G motif; other site 485916004354 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485916004355 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004356 active site 485916004357 phosphorylation site [posttranslational modification] 485916004358 intermolecular recognition site; other site 485916004359 dimerization interface [polypeptide binding]; other site 485916004360 Response regulator receiver domain; Region: Response_reg; pfam00072 485916004361 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004362 active site 485916004363 phosphorylation site [posttranslational modification] 485916004364 intermolecular recognition site; other site 485916004365 dimerization interface [polypeptide binding]; other site 485916004366 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 485916004367 putative binding surface; other site 485916004368 active site 485916004369 Response regulator receiver domain; Region: Response_reg; pfam00072 485916004370 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004371 active site 485916004372 phosphorylation site [posttranslational modification] 485916004373 intermolecular recognition site; other site 485916004374 dimerization interface [polypeptide binding]; other site 485916004375 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916004376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916004377 metal binding site [ion binding]; metal-binding site 485916004378 active site 485916004379 I-site; other site 485916004380 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 485916004381 non-specific DNA binding site [nucleotide binding]; other site 485916004382 salt bridge; other site 485916004383 sequence-specific DNA binding site [nucleotide binding]; other site 485916004384 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 485916004385 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 485916004386 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 485916004387 putative NAD(P) binding site [chemical binding]; other site 485916004388 catalytic Zn binding site [ion binding]; other site 485916004389 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 485916004390 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 485916004391 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 485916004392 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 485916004393 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916004394 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 485916004395 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 485916004396 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 485916004397 Walker A/P-loop; other site 485916004398 ATP binding site [chemical binding]; other site 485916004399 Q-loop/lid; other site 485916004400 ABC transporter signature motif; other site 485916004401 Walker B; other site 485916004402 D-loop; other site 485916004403 H-loop/switch region; other site 485916004404 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 485916004405 putative carbohydrate binding site [chemical binding]; other site 485916004406 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 485916004407 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 485916004408 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 485916004409 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 485916004410 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 485916004411 FeS/SAM binding site; other site 485916004412 Uncharacterized conserved protein [Function unknown]; Region: COG2006 485916004413 Domain of unknown function (DUF362); Region: DUF362; pfam04015 485916004414 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 485916004415 active site 485916004416 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 485916004417 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 485916004418 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 485916004419 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 485916004420 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 485916004421 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 485916004422 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916004423 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 485916004424 active site 485916004425 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 485916004426 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 485916004427 hybrid cluster protein; Provisional; Region: PRK05290 485916004428 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 485916004429 ACS interaction site; other site 485916004430 CODH interaction site; other site 485916004431 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 485916004432 hybrid metal cluster; other site 485916004433 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 485916004434 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 485916004435 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 485916004436 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 485916004437 FAD binding pocket [chemical binding]; other site 485916004438 FAD binding motif [chemical binding]; other site 485916004439 phosphate binding motif [ion binding]; other site 485916004440 beta-alpha-beta structure motif; other site 485916004441 NAD binding pocket [chemical binding]; other site 485916004442 Iron coordination center [ion binding]; other site 485916004443 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 485916004444 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916004445 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916004446 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916004447 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916004448 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 485916004449 Predicted transcriptional regulator [Transcription]; Region: COG1959 485916004450 Transcriptional regulator; Region: Rrf2; pfam02082 485916004451 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916004452 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 485916004453 hybrid cluster protein; Provisional; Region: PRK05290 485916004454 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 485916004455 ACS interaction site; other site 485916004456 CODH interaction site; other site 485916004457 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 485916004458 hybrid metal cluster; other site 485916004459 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 485916004460 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 485916004461 FeS/SAM binding site; other site 485916004462 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 485916004463 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485916004464 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485916004465 enterobactin exporter EntS; Provisional; Region: PRK10489 485916004466 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 485916004467 putative substrate translocation pore; other site 485916004468 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916004469 Uncharacterized protein conserved in archaea (DUF2115); Region: DUF2115; cl01681 485916004470 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 485916004471 putative substrate translocation pore; other site 485916004472 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485916004473 Flavodoxin domain; Region: Flavodoxin_5; cl17428 485916004474 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 485916004475 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 485916004476 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 485916004477 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485916004478 putative substrate translocation pore; other site 485916004479 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 485916004480 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 485916004481 CPxP motif; other site 485916004482 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 485916004483 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916004484 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916004485 potential frameshift: common BLAST hit: gi|83591052|ref|YP_431061.1| RNA-directed DNA polymerase (Reverse transcriptase) 485916004486 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 485916004487 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 485916004488 putative active site [active] 485916004489 putative NTP binding site [chemical binding]; other site 485916004490 putative nucleic acid binding site [nucleotide binding]; other site 485916004491 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 485916004492 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 485916004493 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916004494 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 485916004495 active site 485916004496 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 485916004497 dimer interface [polypeptide binding]; other site 485916004498 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 485916004499 Ligand Binding Site [chemical binding]; other site 485916004500 Molecular Tunnel; other site 485916004501 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 485916004502 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 485916004503 Walker A/P-loop; other site 485916004504 ATP binding site [chemical binding]; other site 485916004505 Q-loop/lid; other site 485916004506 ABC transporter signature motif; other site 485916004507 Walker B; other site 485916004508 D-loop; other site 485916004509 H-loop/switch region; other site 485916004510 Predicted transcriptional regulators [Transcription]; Region: COG1725 485916004511 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485916004512 DNA-binding site [nucleotide binding]; DNA binding site 485916004513 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485916004514 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 485916004515 ligand binding site [chemical binding]; other site 485916004516 flexible hinge region; other site 485916004517 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 485916004518 putative switch regulator; other site 485916004519 non-specific DNA interactions [nucleotide binding]; other site 485916004520 DNA binding site [nucleotide binding] 485916004521 sequence specific DNA binding site [nucleotide binding]; other site 485916004522 putative cAMP binding site [chemical binding]; other site 485916004523 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916004524 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 485916004525 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 485916004526 4Fe-4S binding domain; Region: Fer4; cl02805 485916004527 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 485916004528 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916004529 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 485916004530 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 485916004531 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 485916004532 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 485916004533 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 485916004534 substrate binding pocket [chemical binding]; other site 485916004535 aspartate-rich region 1; other site 485916004536 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 485916004537 UbiA prenyltransferase family; Region: UbiA; pfam01040 485916004538 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 485916004539 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 485916004540 FeS/SAM binding site; other site 485916004541 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 485916004542 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 485916004543 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; cl15377 485916004544 FeS/SAM binding site; other site 485916004545 selenocysteine synthase; Provisional; Region: PRK04311 485916004546 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 485916004547 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 485916004548 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485916004549 catalytic residue [active] 485916004550 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 485916004551 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 485916004552 G1 box; other site 485916004553 putative GEF interaction site [polypeptide binding]; other site 485916004554 GTP/Mg2+ binding site [chemical binding]; other site 485916004555 Switch I region; other site 485916004556 G2 box; other site 485916004557 G3 box; other site 485916004558 Switch II region; other site 485916004559 G4 box; other site 485916004560 G5 box; other site 485916004561 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 485916004562 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 485916004563 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 485916004564 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 485916004565 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 485916004566 Uncharacterized conserved protein [Function unknown]; Region: COG1565 485916004567 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916004568 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 485916004569 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 485916004570 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 485916004571 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 485916004572 G1 box; other site 485916004573 GTP/Mg2+ binding site [chemical binding]; other site 485916004574 Switch I region; other site 485916004575 G2 box; other site 485916004576 G3 box; other site 485916004577 Switch II region; other site 485916004578 G4 box; other site 485916004579 G5 box; other site 485916004580 Nucleoside recognition; Region: Gate; pfam07670 485916004581 Nucleoside recognition; Region: Gate; pfam07670 485916004582 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 485916004583 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 485916004584 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 485916004585 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 485916004586 G1 box; other site 485916004587 GTP/Mg2+ binding site [chemical binding]; other site 485916004588 Switch I region; other site 485916004589 G2 box; other site 485916004590 G3 box; other site 485916004591 Switch II region; other site 485916004592 G4 box; other site 485916004593 G5 box; other site 485916004594 Nucleoside recognition; Region: Gate; pfam07670 485916004595 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 485916004596 Nucleoside recognition; Region: Gate; pfam07670 485916004597 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485916004598 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 485916004599 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 485916004600 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916004601 Zn2+ binding site [ion binding]; other site 485916004602 Mg2+ binding site [ion binding]; other site 485916004603 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916004604 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916004605 dimer interface [polypeptide binding]; other site 485916004606 putative CheW interface [polypeptide binding]; other site 485916004607 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 485916004608 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 485916004609 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916004610 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 485916004611 active site 485916004612 metal binding site [ion binding]; metal-binding site 485916004613 Membrane protein of unknown function; Region: DUF360; pfam04020 485916004614 Flagellin N-methylase; Region: FliB; cl00497 485916004615 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 485916004616 Rubrerythrin [Energy production and conversion]; Region: COG1592 485916004617 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 485916004618 binuclear metal center [ion binding]; other site 485916004619 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 485916004620 iron binding site [ion binding]; other site 485916004621 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 485916004622 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 485916004623 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 485916004624 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 485916004625 dimer interface [polypeptide binding]; other site 485916004626 substrate binding site [chemical binding]; other site 485916004627 ATP binding site [chemical binding]; other site 485916004628 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 485916004629 substrate binding site [chemical binding]; other site 485916004630 multimerization interface [polypeptide binding]; other site 485916004631 ATP binding site [chemical binding]; other site 485916004632 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 485916004633 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 485916004634 Putative glucoamylase; Region: Glycoamylase; pfam10091 485916004635 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 485916004636 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 485916004637 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 485916004638 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 485916004639 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 485916004640 putative active site [active] 485916004641 heme pocket [chemical binding]; other site 485916004642 PAS domain S-box; Region: sensory_box; TIGR00229 485916004643 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 485916004644 putative active site [active] 485916004645 heme pocket [chemical binding]; other site 485916004646 PAS domain S-box; Region: sensory_box; TIGR00229 485916004647 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 485916004648 putative active site [active] 485916004649 heme pocket [chemical binding]; other site 485916004650 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916004651 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916004652 metal binding site [ion binding]; metal-binding site 485916004653 active site 485916004654 I-site; other site 485916004655 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 485916004656 PAS fold; Region: PAS; pfam00989 485916004657 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 485916004658 putative active site [active] 485916004659 heme pocket [chemical binding]; other site 485916004660 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916004661 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916004662 metal binding site [ion binding]; metal-binding site 485916004663 active site 485916004664 I-site; other site 485916004665 Predicted permeases [General function prediction only]; Region: COG0679 485916004666 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 485916004667 thiS-thiF/thiG interaction site; other site 485916004668 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 485916004669 ThiS interaction site; other site 485916004670 putative active site [active] 485916004671 tetramer interface [polypeptide binding]; other site 485916004672 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 485916004673 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 485916004674 FeS/SAM binding site; other site 485916004675 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 485916004676 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 485916004677 E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on...; Region: E1_ThiF_like; cd01487 485916004678 putative ATP binding site [chemical binding]; other site 485916004679 putative substrate interface [chemical binding]; other site 485916004680 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 485916004681 thiamine phosphate binding site [chemical binding]; other site 485916004682 active site 485916004683 pyrophosphate binding site [ion binding]; other site 485916004684 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 485916004685 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 485916004686 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 485916004687 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 485916004688 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 485916004689 PhoU domain; Region: PhoU; pfam01895 485916004690 PhoU domain; Region: PhoU; pfam01895 485916004691 endonuclease IV; Provisional; Region: PRK01060 485916004692 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 485916004693 AP (apurinic/apyrimidinic) site pocket; other site 485916004694 DNA interaction; other site 485916004695 Metal-binding active site; metal-binding site 485916004696 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 485916004697 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 485916004698 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 485916004699 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 485916004700 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485916004701 catalytic residue [active] 485916004702 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916004703 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 485916004704 dimer interface [polypeptide binding]; other site 485916004705 ADP-ribose binding site [chemical binding]; other site 485916004706 active site 485916004707 nudix motif; other site 485916004708 metal binding site [ion binding]; metal-binding site 485916004709 septum formation inhibitor; Reviewed; Region: minC; PRK00513 485916004710 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 485916004711 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 485916004712 glycogen synthase; Provisional; Region: glgA; PRK00654 485916004713 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 485916004714 ADP-binding pocket [chemical binding]; other site 485916004715 homodimer interface [polypeptide binding]; other site 485916004716 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 485916004717 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 485916004718 FAD binding site [chemical binding]; other site 485916004719 homotetramer interface [polypeptide binding]; other site 485916004720 substrate binding pocket [chemical binding]; other site 485916004721 catalytic base [active] 485916004722 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 485916004723 Ligand binding site [chemical binding]; other site 485916004724 Electron transfer flavoprotein domain; Region: ETF; pfam01012 485916004725 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 485916004726 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 485916004727 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 485916004728 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 485916004729 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485916004730 Cysteine-rich domain; Region: CCG; pfam02754 485916004731 Cysteine-rich domain; Region: CCG; pfam02754 485916004732 putative acyltransferase; Provisional; Region: PRK05790 485916004733 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 485916004734 dimer interface [polypeptide binding]; other site 485916004735 active site 485916004736 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 485916004737 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 485916004738 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 485916004739 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 485916004740 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 485916004741 substrate binding site [chemical binding]; other site 485916004742 oxyanion hole (OAH) forming residues; other site 485916004743 trimer interface [polypeptide binding]; other site 485916004744 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 485916004745 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 485916004746 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 485916004747 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 485916004748 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 485916004749 putative catalytic cysteine [active] 485916004750 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 485916004751 putative active site [active] 485916004752 metal binding site [ion binding]; metal-binding site 485916004753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 485916004754 RelB antitoxin; Region: RelB; cl01171 485916004755 Protein of unknown function (DUF3160); Region: DUF3160; pfam11369 485916004756 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 485916004757 putative active site [active] 485916004758 EcsC protein family; Region: EcsC; pfam12787 485916004759 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916004760 Zn2+ binding site [ion binding]; other site 485916004761 Mg2+ binding site [ion binding]; other site 485916004762 Putative Fe-S cluster; Region: FeS; cl17515 485916004763 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916004764 Response regulator receiver domain; Region: Response_reg; pfam00072 485916004765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004766 active site 485916004767 phosphorylation site [posttranslational modification] 485916004768 intermolecular recognition site; other site 485916004769 dimerization interface [polypeptide binding]; other site 485916004770 Hpt domain; Region: Hpt; pfam01627 485916004771 putative binding surface; other site 485916004772 active site 485916004773 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916004774 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 485916004775 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 485916004776 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916004777 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 485916004778 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 485916004779 motif II; other site 485916004780 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 485916004781 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 485916004782 Rubredoxin; Region: Rubredoxin; pfam00301 485916004783 iron binding site [ion binding]; other site 485916004784 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 485916004785 G1 box; other site 485916004786 GTP/Mg2+ binding site [chemical binding]; other site 485916004787 G2 box; other site 485916004788 Switch I region; other site 485916004789 G3 box; other site 485916004790 Switch II region; other site 485916004791 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 485916004792 Dynamin family; Region: Dynamin_N; pfam00350 485916004793 G1 box; other site 485916004794 GTP/Mg2+ binding site [chemical binding]; other site 485916004795 G2 box; other site 485916004796 Switch I region; other site 485916004797 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 485916004798 G3 box; other site 485916004799 Switch II region; other site 485916004800 GTP/Mg2+ binding site [chemical binding]; other site 485916004801 G4 box; other site 485916004802 G5 box; other site 485916004803 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 485916004804 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485916004805 Cysteine-rich domain; Region: CCG; pfam02754 485916004806 Cysteine-rich domain; Region: CCG; pfam02754 485916004807 Predicted amidohydrolase [General function prediction only]; Region: COG0388 485916004808 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 485916004809 active site 485916004810 catalytic triad [active] 485916004811 dimer interface [polypeptide binding]; other site 485916004812 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 485916004813 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 485916004814 active site clefts [active] 485916004815 zinc binding site [ion binding]; other site 485916004816 dimer interface [polypeptide binding]; other site 485916004817 MgtE intracellular N domain; Region: MgtE_N; smart00924 485916004818 FOG: CBS domain [General function prediction only]; Region: COG0517 485916004819 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 485916004820 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 485916004821 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 485916004822 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 485916004823 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 485916004824 dimerization interface [polypeptide binding]; other site 485916004825 putative DNA binding site [nucleotide binding]; other site 485916004826 putative Zn2+ binding site [ion binding]; other site 485916004827 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 485916004828 metal-binding site [ion binding] 485916004829 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 485916004830 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 485916004831 metal-binding site [ion binding] 485916004832 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916004833 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 485916004834 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 485916004835 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 485916004836 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 485916004837 putative substrate translocation pore; other site 485916004838 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 485916004839 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916004840 active site 485916004841 metal binding site [ion binding]; metal-binding site 485916004842 DNA binding site [nucleotide binding] 485916004843 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916004844 AAA domain; Region: AAA_27; pfam13514 485916004845 Walker A/P-loop; other site 485916004846 ATP binding site [chemical binding]; other site 485916004847 Q-loop/lid; other site 485916004848 ABC transporter signature motif; other site 485916004849 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 485916004850 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 485916004851 putative catalytic site [active] 485916004852 putative phosphate binding site [ion binding]; other site 485916004853 active site 485916004854 metal binding site A [ion binding]; metal-binding site 485916004855 DNA binding site [nucleotide binding] 485916004856 putative AP binding site [nucleotide binding]; other site 485916004857 putative metal binding site B [ion binding]; other site 485916004858 Uncharacterized conserved protein [Function unknown]; Region: COG3391 485916004859 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 485916004860 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 485916004861 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 485916004862 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 485916004863 glutamate racemase; Provisional; Region: PRK00865 485916004864 Integral membrane protein DUF95; Region: DUF95; pfam01944 485916004865 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 485916004866 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 485916004867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916004868 catalytic residue [active] 485916004869 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 485916004870 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 485916004871 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 485916004872 active site 485916004873 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 485916004874 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 485916004875 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 485916004876 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 485916004877 RNA binding site [nucleotide binding]; other site 485916004878 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 485916004879 putative homodimer interface [polypeptide binding]; other site 485916004880 putative active site pocket [active] 485916004881 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 485916004882 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916004883 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916004884 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485916004885 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916004886 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 485916004887 DNA binding residues [nucleotide binding] 485916004888 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 485916004889 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 485916004890 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 485916004891 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 485916004892 Walker A/P-loop; other site 485916004893 ATP binding site [chemical binding]; other site 485916004894 Q-loop/lid; other site 485916004895 ABC transporter signature motif; other site 485916004896 Walker B; other site 485916004897 D-loop; other site 485916004898 H-loop/switch region; other site 485916004899 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 485916004900 RloB-like protein; Region: RloB; pfam13707 485916004901 Predicted ATPases [General function prediction only]; Region: COG1106 485916004902 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916004903 Walker B; other site 485916004904 D-loop; other site 485916004905 H-loop/switch region; other site 485916004906 KilA-N domain; Region: KilA-N; pfam04383 485916004907 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 485916004908 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 485916004909 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 485916004910 G1 box; other site 485916004911 putative GEF interaction site [polypeptide binding]; other site 485916004912 GTP/Mg2+ binding site [chemical binding]; other site 485916004913 Switch I region; other site 485916004914 G2 box; other site 485916004915 G3 box; other site 485916004916 Switch II region; other site 485916004917 G4 box; other site 485916004918 G5 box; other site 485916004919 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 485916004920 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 485916004921 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 485916004922 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 485916004923 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 485916004924 putative active site [active] 485916004925 stage V sporulation protein B; Region: spore_V_B; TIGR02900 485916004926 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 485916004927 Thiamine pyrophosphokinase; Region: TPK; cd07995 485916004928 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 485916004929 active site 485916004930 dimerization interface [polypeptide binding]; other site 485916004931 thiamine binding site [chemical binding]; other site 485916004932 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 485916004933 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 485916004934 generic binding surface II; other site 485916004935 generic binding surface I; other site 485916004936 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916004937 Zn2+ binding site [ion binding]; other site 485916004938 Mg2+ binding site [ion binding]; other site 485916004939 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 485916004940 dimerization interface [polypeptide binding]; other site 485916004941 putative DNA binding site [nucleotide binding]; other site 485916004942 putative Zn2+ binding site [ion binding]; other site 485916004943 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 485916004944 Predicted membrane protein [Function unknown]; Region: COG2323 485916004945 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 485916004946 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 485916004947 NodB motif; other site 485916004948 active site 485916004949 catalytic site [active] 485916004950 metal binding site [ion binding]; metal-binding site 485916004951 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916004952 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916004953 Predicted amidohydrolase [General function prediction only]; Region: COG0388 485916004954 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 485916004955 active site 485916004956 catalytic triad [active] 485916004957 dimer interface [polypeptide binding]; other site 485916004958 DsrE/DsrF-like family; Region: DrsE; cl00672 485916004959 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 485916004960 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916004961 Coenzyme A binding pocket [chemical binding]; other site 485916004962 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 485916004963 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916004964 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 485916004965 DNA binding residues [nucleotide binding] 485916004966 Putative zinc-finger; Region: zf-HC2; pfam13490 485916004967 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 485916004968 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 485916004969 Walker A/P-loop; other site 485916004970 ATP binding site [chemical binding]; other site 485916004971 Q-loop/lid; other site 485916004972 ABC transporter signature motif; other site 485916004973 Walker B; other site 485916004974 D-loop; other site 485916004975 H-loop/switch region; other site 485916004976 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 485916004977 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 485916004978 metal-binding site [ion binding] 485916004979 Cell division protein FtsA; Region: FtsA; smart00842 485916004980 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 485916004981 Cell division protein FtsA; Region: FtsA; pfam14450 485916004982 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 485916004983 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916004984 active site 485916004985 metal binding site [ion binding]; metal-binding site 485916004986 DNA binding site [nucleotide binding] 485916004987 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916004988 DNA topoisomerase III; Provisional; Region: PRK07726 485916004989 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 485916004990 active site 485916004991 putative interdomain interaction site [polypeptide binding]; other site 485916004992 putative metal-binding site [ion binding]; other site 485916004993 putative nucleotide binding site [chemical binding]; other site 485916004994 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 485916004995 domain I; other site 485916004996 phosphate binding site [ion binding]; other site 485916004997 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 485916004998 domain II; other site 485916004999 domain III; other site 485916005000 nucleotide binding site [chemical binding]; other site 485916005001 DNA binding groove [nucleotide binding] 485916005002 catalytic site [active] 485916005003 domain IV; other site 485916005004 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 485916005005 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 485916005006 putative substrate translocation pore; other site 485916005007 transposase/IS protein; Provisional; Region: PRK09183 485916005008 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 485916005009 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 485916005010 Walker A motif; other site 485916005011 ATP binding site [chemical binding]; other site 485916005012 Walker B motif; other site 485916005013 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 485916005014 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 485916005015 putative active site [active] 485916005016 putative NTP binding site [chemical binding]; other site 485916005017 putative nucleic acid binding site [nucleotide binding]; other site 485916005018 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 485916005019 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916005020 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916005021 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 485916005022 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 485916005023 active site 485916005024 catalytic triad [active] 485916005025 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 485916005026 S-layer homology domain; Region: SLH; pfam00395 485916005027 S-layer homology domain; Region: SLH; pfam00395 485916005028 S-layer homology domain; Region: SLH; pfam00395 485916005029 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 485916005030 Integrase core domain; Region: rve; pfam00665 485916005031 Integrase core domain; Region: rve_3; cl15866 485916005032 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 485916005033 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 485916005034 Walker A motif; other site 485916005035 ATP binding site [chemical binding]; other site 485916005036 Walker B motif; other site 485916005037 arginine finger; other site 485916005038 Homeodomain-like domain; Region: HTH_23; pfam13384 485916005039 Winged helix-turn helix; Region: HTH_29; pfam13551 485916005040 Winged helix-turn helix; Region: HTH_33; pfam13592 485916005041 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916005042 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916005043 Transposase IS200 like; Region: Y1_Tnp; pfam01797 485916005044 Probable transposase; Region: OrfB_IS605; pfam01385 485916005045 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916005046 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916005047 Homeodomain-like domain; Region: HTH_23; pfam13384 485916005048 Winged helix-turn helix; Region: HTH_29; pfam13551 485916005049 Winged helix-turn helix; Region: HTH_33; pfam13592 485916005050 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916005051 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916005052 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 485916005053 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916005054 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916005055 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916005056 Helix-turn-helix of insertion element transposase; Region: HTH_Tnp_1_2; pfam13022 485916005057 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 485916005058 active site 485916005059 catalytic residues [active] 485916005060 DNA binding site [nucleotide binding] 485916005061 Int/Topo IB signature motif; other site 485916005062 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 485916005063 Helix-turn-helix domain; Region: HTH_28; pfam13518 485916005064 Winged helix-turn helix; Region: HTH_29; pfam13551 485916005065 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916005066 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916005067 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 485916005068 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 485916005069 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 485916005070 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 485916005071 amidase catalytic site [active] 485916005072 Zn binding residues [ion binding]; other site 485916005073 substrate binding site [chemical binding]; other site 485916005074 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485916005075 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916005076 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 485916005077 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 485916005078 Helix-turn-helix domain; Region: HTH_28; pfam13518 485916005079 Winged helix-turn helix; Region: HTH_29; pfam13551 485916005080 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916005081 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916005082 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 485916005083 Helix-turn-helix domain; Region: HTH_36; pfam13730 485916005084 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916005085 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916005086 hypothetical protein; Validated; Region: PRK08116 485916005087 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 485916005088 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 485916005089 Walker A motif; other site 485916005090 ATP binding site [chemical binding]; other site 485916005091 Walker B motif; other site 485916005092 Prophage antirepressor [Transcription]; Region: COG3617 485916005093 BRO family, N-terminal domain; Region: Bro-N; smart01040 485916005094 DNA primase (bacterial type) [DNA replication, recombination, and repair]; Region: DnaG; COG0358 485916005095 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 485916005096 active site 485916005097 metal binding site [ion binding]; metal-binding site 485916005098 interdomain interaction site; other site 485916005099 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485916005100 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916005101 active site 485916005102 phosphorylation site [posttranslational modification] 485916005103 intermolecular recognition site; other site 485916005104 dimerization interface [polypeptide binding]; other site 485916005105 LytTr DNA-binding domain; Region: LytTR; smart00850 485916005106 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 485916005107 ATP binding site [chemical binding]; other site 485916005108 Mg2+ binding site [ion binding]; other site 485916005109 G-X-G motif; other site 485916005110 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485916005111 putative transcriptional regulator; Provisional; Region: tfx; cl17550 485916005112 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 485916005113 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 485916005114 active site 485916005115 catalytic site [active] 485916005116 substrate binding site [chemical binding]; other site 485916005117 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 485916005118 active site 485916005119 DNA binding site [nucleotide binding] 485916005120 catalytic site [active] 485916005121 Prophage antirepressor [Transcription]; Region: COG3617 485916005122 BRO family, N-terminal domain; Region: Bro-N; smart01040 485916005123 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 485916005124 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 485916005125 putative active site [active] 485916005126 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 485916005127 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 485916005128 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 485916005129 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 485916005130 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 485916005131 trimer interface [polypeptide binding]; other site 485916005132 active site 485916005133 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916005134 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 485916005135 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 485916005136 Protein of unknown function (DUF3908); Region: DUF3908; pfam13048 485916005137 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 485916005138 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 485916005139 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 485916005140 DNA binding residues [nucleotide binding] 485916005141 Homeodomain-like domain; Region: HTH_23; pfam13384 485916005142 Winged helix-turn helix; Region: HTH_29; pfam13551 485916005143 Winged helix-turn helix; Region: HTH_33; pfam13592 485916005144 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916005145 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916005146 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916005147 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916005148 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 485916005149 Helix-turn-helix domain; Region: HTH_28; pfam13518 485916005150 Winged helix-turn helix; Region: HTH_29; pfam13551 485916005151 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916005152 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916005153 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 485916005154 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 485916005155 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 485916005156 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 485916005157 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 485916005158 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 485916005159 active site 485916005160 Coenzyme A transferase; Region: CoA_trans; smart00882 485916005161 Coenzyme A transferase; Region: CoA_trans; cl17247 485916005162 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 485916005163 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 485916005164 homodimer interface [polypeptide binding]; other site 485916005165 Walker A motif; other site 485916005166 ATP binding site [chemical binding]; other site 485916005167 hydroxycobalamin binding site [chemical binding]; other site 485916005168 Walker B motif; other site 485916005169 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 485916005170 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 485916005171 B12 binding site [chemical binding]; other site 485916005172 cobalt ligand [ion binding]; other site 485916005173 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 485916005174 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 485916005175 Walker A; other site 485916005176 FOG: CBS domain [General function prediction only]; Region: COG0517 485916005177 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 485916005178 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 485916005179 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 485916005180 putative active site [active] 485916005181 heme pocket [chemical binding]; other site 485916005182 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 485916005183 putative active site [active] 485916005184 heme pocket [chemical binding]; other site 485916005185 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 485916005186 Walker A motif; other site 485916005187 ATP binding site [chemical binding]; other site 485916005188 Walker B motif; other site 485916005189 arginine finger; other site 485916005190 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 485916005191 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 485916005192 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 485916005193 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485916005194 GAF domain; Region: GAF; pfam01590 485916005195 PAS domain; Region: PAS_9; pfam13426 485916005196 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916005197 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 485916005198 dimer interface [polypeptide binding]; other site 485916005199 phosphorylation site [posttranslational modification] 485916005200 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 485916005201 ATP binding site [chemical binding]; other site 485916005202 Mg2+ binding site [ion binding]; other site 485916005203 G-X-G motif; other site 485916005204 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 485916005205 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 485916005206 active site 485916005207 FMN binding site [chemical binding]; other site 485916005208 substrate binding site [chemical binding]; other site 485916005209 putative catalytic residue [active] 485916005210 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916005211 MarR family; Region: MarR; pfam01047 485916005212 MarR family; Region: MarR_2; cl17246 485916005213 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485916005214 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485916005215 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 485916005216 Predicted transcriptional regulators [Transcription]; Region: COG1695 485916005217 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 485916005218 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 485916005219 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916005220 HlyD family secretion protein; Region: HlyD_3; pfam13437 485916005221 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485916005222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916005223 Walker A/P-loop; other site 485916005224 ATP binding site [chemical binding]; other site 485916005225 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 485916005226 Beta-lactamase; Region: Beta-lactamase; pfam00144 485916005227 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 485916005228 Transposase IS200 like; Region: Y1_Tnp; pfam01797 485916005229 TfoX C-terminal domain; Region: TfoX_C; pfam04994 485916005230 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 485916005231 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 485916005232 active site 485916005233 FMN binding site [chemical binding]; other site 485916005234 substrate binding site [chemical binding]; other site 485916005235 putative catalytic residue [active] 485916005236 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 485916005237 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 485916005238 Ligand binding site [chemical binding]; other site 485916005239 Electron transfer flavoprotein domain; Region: ETF; pfam01012 485916005240 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916005241 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 485916005242 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 485916005243 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 485916005244 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 485916005245 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 485916005246 oxidoreductase; Provisional; Region: PRK10015 485916005247 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 485916005248 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 485916005249 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 485916005250 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485916005251 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916005252 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485916005253 HlyD family secretion protein; Region: HlyD_3; pfam13437 485916005254 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916005255 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485916005256 QacR-like protein, C-terminal region; Region: TetR_C_5; pfam08360 485916005257 MTH865-like family; Region: MTH865; cl01962 485916005258 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 485916005259 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485916005260 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 485916005261 ligand binding site [chemical binding]; other site 485916005262 flexible hinge region; other site 485916005263 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 485916005264 putative switch regulator; other site 485916005265 non-specific DNA interactions [nucleotide binding]; other site 485916005266 DNA binding site [nucleotide binding] 485916005267 sequence specific DNA binding site [nucleotide binding]; other site 485916005268 putative cAMP binding site [chemical binding]; other site 485916005269 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916005270 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 485916005271 ATP binding site [chemical binding]; other site 485916005272 Mg2+ binding site [ion binding]; other site 485916005273 G-X-G motif; other site 485916005274 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 485916005275 GIY-YIG motif/motif A; other site 485916005276 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 485916005277 Ca2+ binding site [ion binding]; other site 485916005278 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916005279 metal binding site [ion binding]; metal-binding site 485916005280 active site 485916005281 I-site; other site 485916005282 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 485916005283 FOG: CBS domain [General function prediction only]; Region: COG0517 485916005284 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 485916005285 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916005286 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916005287 metal binding site [ion binding]; metal-binding site 485916005288 active site 485916005289 I-site; other site 485916005290 putative hydrolase; Validated; Region: PRK09248 485916005291 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 485916005292 active site 485916005293 PBP superfamily domain; Region: PBP_like_2; cl17296 485916005294 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 485916005295 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 485916005296 dimer interface [polypeptide binding]; other site 485916005297 conserved gate region; other site 485916005298 putative PBP binding loops; other site 485916005299 ABC-ATPase subunit interface; other site 485916005300 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 485916005301 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 485916005302 dimer interface [polypeptide binding]; other site 485916005303 conserved gate region; other site 485916005304 putative PBP binding loops; other site 485916005305 ABC-ATPase subunit interface; other site 485916005306 HAMP domain; Region: HAMP; pfam00672 485916005307 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 485916005308 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916005309 dimer interface [polypeptide binding]; other site 485916005310 putative CheW interface [polypeptide binding]; other site 485916005311 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916005312 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916005313 active site 485916005314 phosphorylation site [posttranslational modification] 485916005315 intermolecular recognition site; other site 485916005316 dimerization interface [polypeptide binding]; other site 485916005317 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 485916005318 DNA binding site [nucleotide binding] 485916005319 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 485916005320 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 485916005321 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 485916005322 homodimer interface [polypeptide binding]; other site 485916005323 Walker A motif; other site 485916005324 ATP binding site [chemical binding]; other site 485916005325 hydroxycobalamin binding site [chemical binding]; other site 485916005326 Walker B motif; other site 485916005327 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 485916005328 active site 485916005329 Trp docking motif [polypeptide binding]; other site 485916005330 FOG: WD40-like repeat [Function unknown]; Region: COG1520 485916005331 EF-hand domain pair; Region: EF_hand_5; pfam13499 485916005332 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 485916005333 dockerin binding interface; other site 485916005334 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916005335 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 485916005336 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 485916005337 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 485916005338 dockerin binding interface; other site 485916005339 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916005340 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 485916005341 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 485916005342 dockerin binding interface; other site 485916005343 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916005344 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 485916005345 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 485916005346 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 485916005347 dockerin binding interface; other site 485916005348 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916005349 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 485916005350 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916005351 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 485916005352 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 485916005353 S-layer homology domain; Region: SLH; pfam00395 485916005354 S-layer homology domain; Region: SLH; pfam00395 485916005355 S-layer homology domain; Region: SLH; pfam00395 485916005356 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 485916005357 Trp docking motif [polypeptide binding]; other site 485916005358 FOG: WD40-like repeat [Function unknown]; Region: COG1520 485916005359 active site 485916005360 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916005361 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 485916005362 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 485916005363 Trp docking motif [polypeptide binding]; other site 485916005364 FOG: WD40-like repeat [Function unknown]; Region: COG1520 485916005365 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916005366 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005367 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916005368 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 485916005369 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 485916005370 S-layer homology domain; Region: SLH; pfam00395 485916005371 S-layer homology domain; Region: SLH; pfam00395 485916005372 S-layer homology domain; Region: SLH; pfam00395 485916005373 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 485916005374 Trp docking motif [polypeptide binding]; other site 485916005375 FOG: WD40-like repeat [Function unknown]; Region: COG1520 485916005376 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 485916005377 Trp docking motif [polypeptide binding]; other site 485916005378 FOG: WD40-like repeat [Function unknown]; Region: COG1520 485916005379 active site 485916005380 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 485916005381 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 485916005382 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 485916005383 Walker A/P-loop; other site 485916005384 ATP binding site [chemical binding]; other site 485916005385 Q-loop/lid; other site 485916005386 ABC transporter signature motif; other site 485916005387 Walker B; other site 485916005388 D-loop; other site 485916005389 H-loop/switch region; other site 485916005390 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 485916005391 Walker A/P-loop; other site 485916005392 ATP binding site [chemical binding]; other site 485916005393 Q-loop/lid; other site 485916005394 ABC transporter signature motif; other site 485916005395 Walker B; other site 485916005396 D-loop; other site 485916005397 H-loop/switch region; other site 485916005398 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 485916005399 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 485916005400 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005401 LytTr DNA-binding domain; Region: LytTR; smart00850 485916005402 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005403 Response regulator receiver domain; Region: Response_reg; pfam00072 485916005404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916005405 active site 485916005406 phosphorylation site [posttranslational modification] 485916005407 intermolecular recognition site; other site 485916005408 dimerization interface [polypeptide binding]; other site 485916005409 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 485916005410 Bacterial Ig-like domain; Region: Big_5; pfam13205 485916005411 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005412 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 485916005413 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005414 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005415 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005416 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005417 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005418 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005419 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005420 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005421 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 485916005422 dockerin binding interface; other site 485916005423 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 485916005424 S-layer homology domain; Region: SLH; pfam00395 485916005425 S-layer homology domain; Region: SLH; pfam00395 485916005426 S-layer homology domain; Region: SLH; pfam00395 485916005427 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 485916005428 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 485916005429 active site 485916005430 catalytic triad [active] 485916005431 dimer interface [polypeptide binding]; other site 485916005432 Predicted amidohydrolase [General function prediction only]; Region: COG0388 485916005433 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 485916005434 active site 485916005435 catalytic triad [active] 485916005436 dimer interface [polypeptide binding]; other site 485916005437 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 485916005438 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005439 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005440 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916005441 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005442 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005443 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005444 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916005445 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005446 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005447 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005448 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005449 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 485916005450 dimer interface [polypeptide binding]; other site 485916005451 active site 485916005452 citrylCoA binding site [chemical binding]; other site 485916005453 Citrate synthase; Region: Citrate_synt; pfam00285 485916005454 oxalacetate/citrate binding site [chemical binding]; other site 485916005455 coenzyme A binding site [chemical binding]; other site 485916005456 catalytic triad [active] 485916005457 Protein of unknown function (DUF763); Region: DUF763; pfam05559 485916005458 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 485916005459 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 485916005460 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 485916005461 Cation efflux family; Region: Cation_efflux; pfam01545 485916005462 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 485916005463 iron binding site [ion binding]; other site 485916005464 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 485916005465 Uncharacterized conserved protein [Function unknown]; Region: COG2968 485916005466 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 485916005467 Protein of unknown function (DUF445); Region: DUF445; pfam04286 485916005468 Protein of unknown function (DUF445); Region: DUF445; pfam04286 485916005469 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 485916005470 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 485916005471 S-adenosylmethionine binding site [chemical binding]; other site 485916005472 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 485916005473 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 485916005474 DNA binding residues [nucleotide binding] 485916005475 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; cl02788 485916005476 catalytic residues [active] 485916005477 catalytic nucleophile [active] 485916005478 DNA topoisomerase III; Provisional; Region: PRK07726 485916005479 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 485916005480 active site 485916005481 putative interdomain interaction site [polypeptide binding]; other site 485916005482 putative metal-binding site [ion binding]; other site 485916005483 putative nucleotide binding site [chemical binding]; other site 485916005484 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 485916005485 domain I; other site 485916005486 DNA binding groove [nucleotide binding] 485916005487 phosphate binding site [ion binding]; other site 485916005488 domain II; other site 485916005489 domain III; other site 485916005490 nucleotide binding site [chemical binding]; other site 485916005491 catalytic site [active] 485916005492 domain IV; other site 485916005493 oligoendopeptidase F; Region: pepF; TIGR00181 485916005494 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 485916005495 active site 485916005496 Zn binding site [ion binding]; other site 485916005497 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 485916005498 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 485916005499 nucleotide binding site [chemical binding]; other site 485916005500 NEF interaction site [polypeptide binding]; other site 485916005501 SBD interface [polypeptide binding]; other site 485916005502 GrpE; Region: GrpE; pfam01025 485916005503 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 485916005504 dimer interface [polypeptide binding]; other site 485916005505 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 485916005506 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 485916005507 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 485916005508 HSP70 interaction site [polypeptide binding]; other site 485916005509 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 485916005510 substrate binding site [polypeptide binding]; other site 485916005511 dimer interface [polypeptide binding]; other site 485916005512 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 485916005513 Clp amino terminal domain; Region: Clp_N; pfam02861 485916005514 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 485916005515 Walker A motif; other site 485916005516 ATP binding site [chemical binding]; other site 485916005517 Walker B motif; other site 485916005518 arginine finger; other site 485916005519 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 485916005520 Walker A motif; other site 485916005521 ATP binding site [chemical binding]; other site 485916005522 Walker B motif; other site 485916005523 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 485916005524 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 485916005525 putative active site [active] 485916005526 YdjC motif; other site 485916005527 Mg binding site [ion binding]; other site 485916005528 putative homodimer interface [polypeptide binding]; other site 485916005529 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 485916005530 ArsC family; Region: ArsC; pfam03960 485916005531 putative ArsC-like catalytic residues; other site 485916005532 putative TRX-like catalytic residues [active] 485916005533 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 485916005534 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 485916005535 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 485916005536 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 485916005537 active site 485916005538 catalytic residues [active] 485916005539 metal binding site [ion binding]; metal-binding site 485916005540 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 485916005541 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 485916005542 S-adenosylmethionine binding site [chemical binding]; other site 485916005543 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 485916005544 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 485916005545 putative catalytic cysteine [active] 485916005546 S-layer homology domain; Region: SLH; pfam00395 485916005547 S-layer homology domain; Region: SLH; pfam00395 485916005548 Bacterial Ig-like domain; Region: Big_5; pfam13205 485916005549 Bacterial Ig-like domain; Region: Big_5; pfam13205 485916005550 S-layer homology domain; Region: SLH; pfam00395 485916005551 S-layer homology domain; Region: SLH; pfam00395 485916005552 S-layer homology domain; Region: SLH; pfam00395 485916005553 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485916005554 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 485916005555 dimerization interface [polypeptide binding]; other site 485916005556 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916005557 dimer interface [polypeptide binding]; other site 485916005558 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 485916005559 putative CheW interface [polypeptide binding]; other site 485916005560 Transposase domain (DUF772); Region: DUF772; pfam05598 485916005561 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 485916005562 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 485916005563 Predicted transcriptional regulators [Transcription]; Region: COG1695 485916005564 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 485916005565 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 485916005566 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916005567 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485916005568 HlyD family secretion protein; Region: HlyD_3; pfam13437 485916005569 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485916005570 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916005571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916005572 active site 485916005573 phosphorylation site [posttranslational modification] 485916005574 intermolecular recognition site; other site 485916005575 dimerization interface [polypeptide binding]; other site 485916005576 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 485916005577 DNA binding site [nucleotide binding] 485916005578 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 485916005579 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916005580 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 485916005581 dimer interface [polypeptide binding]; other site 485916005582 phosphorylation site [posttranslational modification] 485916005583 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 485916005584 ATP binding site [chemical binding]; other site 485916005585 Mg2+ binding site [ion binding]; other site 485916005586 G-X-G motif; other site 485916005587 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485916005588 Protein export membrane protein; Region: SecD_SecF; cl14618 485916005589 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 485916005590 Transposase; Region: HTH_Tnp_1; pfam01527 485916005591 putative transposase OrfB; Reviewed; Region: PHA02517 485916005592 HTH-like domain; Region: HTH_21; pfam13276 485916005593 Integrase core domain; Region: rve; pfam00665 485916005594 Integrase core domain; Region: rve_3; pfam13683 485916005595 Penicillinase repressor; Region: Pencillinase_R; pfam03965 485916005596 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916005597 Homeodomain-like domain; Region: HTH_23; pfam13384 485916005598 Winged helix-turn helix; Region: HTH_29; pfam13551 485916005599 Winged helix-turn helix; Region: HTH_33; pfam13592 485916005600 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916005601 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916005602 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 485916005603 Penicillinase repressor; Region: Pencillinase_R; pfam03965 485916005604 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485916005605 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 485916005606 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916005607 Resolvase, N terminal domain; Region: Resolvase; smart00857 485916005608 Recombinase; Region: Recombinase; pfam07508 485916005609 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 485916005610 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916005611 active site 485916005612 phosphorylation site [posttranslational modification] 485916005613 intermolecular recognition site; other site 485916005614 dimerization interface [polypeptide binding]; other site 485916005615 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 485916005616 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 485916005617 Thiamine pyrophosphokinase; Region: TPK; cl08415 485916005618 Thiamine pyrophosphokinase C terminal; Region: TPPK_C; pfam12555 485916005619 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 485916005620 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 485916005621 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 485916005622 active site 485916005623 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 485916005624 peptidase T-like protein; Region: PepT-like; TIGR01883 485916005625 metal binding site [ion binding]; metal-binding site 485916005626 putative dimer interface [polypeptide binding]; other site 485916005627 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 485916005628 Integral membrane protein DUF95; Region: DUF95; cl00572 485916005629 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 485916005630 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 485916005631 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 485916005632 active site 485916005633 Int/Topo IB signature motif; other site 485916005634 phosphopentomutase; Provisional; Region: PRK05362 485916005635 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 485916005636 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 485916005637 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 485916005638 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 485916005639 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 485916005640 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 485916005641 Sulfatase; Region: Sulfatase; pfam00884 485916005642 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 485916005643 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 485916005644 Walker A/P-loop; other site 485916005645 ATP binding site [chemical binding]; other site 485916005646 Q-loop/lid; other site 485916005647 ABC transporter signature motif; other site 485916005648 Walker B; other site 485916005649 D-loop; other site 485916005650 H-loop/switch region; other site 485916005651 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 485916005652 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 485916005653 tetramer interface [polypeptide binding]; other site 485916005654 TPP-binding site [chemical binding]; other site 485916005655 heterodimer interface [polypeptide binding]; other site 485916005656 phosphorylation loop region [posttranslational modification] 485916005657 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 485916005658 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 485916005659 alpha subunit interface [polypeptide binding]; other site 485916005660 TPP binding site [chemical binding]; other site 485916005661 heterodimer interface [polypeptide binding]; other site 485916005662 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 485916005663 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 485916005664 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 485916005665 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 485916005666 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 485916005667 anti sigma factor interaction site; other site 485916005668 regulatory phosphorylation site [posttranslational modification]; other site 485916005669 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 485916005670 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 485916005671 ATP binding site [chemical binding]; other site 485916005672 Mg2+ binding site [ion binding]; other site 485916005673 G-X-G motif; other site 485916005674 sporulation sigma factor SigF; Validated; Region: PRK05572 485916005675 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916005676 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 485916005677 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 485916005678 DNA binding residues [nucleotide binding] 485916005679 Dodecin; Region: Dodecin; pfam07311 485916005680 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 485916005681 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 485916005682 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 485916005683 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 485916005684 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 485916005685 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 485916005686 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 485916005687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 485916005688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 485916005689 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 485916005690 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 485916005691 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 485916005692 putative homodimer interface [polypeptide binding]; other site 485916005693 putative homotetramer interface [polypeptide binding]; other site 485916005694 putative allosteric switch controlling residues; other site 485916005695 putative metal binding site [ion binding]; other site 485916005696 putative homodimer-homodimer interface [polypeptide binding]; other site 485916005697 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 485916005698 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 485916005699 metal-binding site [ion binding] 485916005700 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 485916005701 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 485916005702 metal-binding site [ion binding] 485916005703 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916005704 Soluble P-type ATPase [General function prediction only]; Region: COG4087 485916005705 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 485916005706 ATP binding site [chemical binding]; other site 485916005707 putative Mg++ binding site [ion binding]; other site 485916005708 helicase superfamily c-terminal domain; Region: HELICc; smart00490 485916005709 nucleotide binding region [chemical binding]; other site 485916005710 ATP-binding site [chemical binding]; other site 485916005711 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 485916005712 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 485916005713 GIY-YIG motif/motif A; other site 485916005714 putative active site [active] 485916005715 putative metal binding site [ion binding]; other site 485916005716 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 485916005717 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 485916005718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916005719 catalytic residue [active] 485916005720 diaminopimelate decarboxylase; Region: lysA; TIGR01048 485916005721 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 485916005722 active site 485916005723 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 485916005724 substrate binding site [chemical binding]; other site 485916005725 catalytic residues [active] 485916005726 dimer interface [polypeptide binding]; other site 485916005727 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 485916005728 DHH family; Region: DHH; pfam01368 485916005729 FOG: CBS domain [General function prediction only]; Region: COG0517 485916005730 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 485916005731 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 485916005732 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 485916005733 active site 485916005734 NTP binding site [chemical binding]; other site 485916005735 metal binding triad [ion binding]; metal-binding site 485916005736 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 485916005737 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 485916005738 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 485916005739 Peptidase family M50; Region: Peptidase_M50; pfam02163 485916005740 active site 485916005741 putative substrate binding region [chemical binding]; other site 485916005742 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 485916005743 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 485916005744 active site 485916005745 HIGH motif; other site 485916005746 dimer interface [polypeptide binding]; other site 485916005747 KMSKS motif; other site 485916005748 Immunoglobulin-like domain of bacterial spore germination; Region: Gmad2; pfam10648 485916005749 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 485916005750 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 485916005751 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 485916005752 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 485916005753 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 485916005754 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 485916005755 RNA binding surface [nucleotide binding]; other site 485916005756 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 485916005757 active site 485916005758 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 485916005759 hexamer interface [polypeptide binding]; other site 485916005760 RNA binding site [nucleotide binding]; other site 485916005761 Histidine-zinc binding site [chemical binding]; other site 485916005762 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 485916005763 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 485916005764 cytidylate kinase; Provisional; Region: cmk; PRK00023 485916005765 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 485916005766 CMP-binding site; other site 485916005767 The sites determining sugar specificity; other site 485916005768 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 485916005769 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 485916005770 putative acyl-acceptor binding pocket; other site 485916005771 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 485916005772 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 485916005773 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 485916005774 RNA binding site [nucleotide binding]; other site 485916005775 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 485916005776 RNA binding site [nucleotide binding]; other site 485916005777 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 485916005778 RNA binding site [nucleotide binding]; other site 485916005779 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 485916005780 RNA binding site [nucleotide binding]; other site 485916005781 domain interface; other site 485916005782 Protein of unknown function (DUF1614); Region: DUF1614; pfam07758 485916005783 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 485916005784 stage II sporulation protein P; Region: spore_II_P; TIGR02867 485916005785 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 485916005786 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 485916005787 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 485916005788 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 485916005789 Protein of unknown function (DUF512); Region: DUF512; pfam04459 485916005790 GTP-binding protein Der; Reviewed; Region: PRK00093 485916005791 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 485916005792 G1 box; other site 485916005793 GTP/Mg2+ binding site [chemical binding]; other site 485916005794 Switch I region; other site 485916005795 G2 box; other site 485916005796 Switch II region; other site 485916005797 G3 box; other site 485916005798 G4 box; other site 485916005799 G5 box; other site 485916005800 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 485916005801 G1 box; other site 485916005802 GTP/Mg2+ binding site [chemical binding]; other site 485916005803 Switch I region; other site 485916005804 G2 box; other site 485916005805 G3 box; other site 485916005806 Switch II region; other site 485916005807 G4 box; other site 485916005808 G5 box; other site 485916005809 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 485916005810 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 485916005811 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 485916005812 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 485916005813 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 485916005814 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 485916005815 hypothetical protein; Provisional; Region: PRK04435 485916005816 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 485916005817 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 485916005818 homoserine dehydrogenase; Provisional; Region: PRK06349 485916005819 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 485916005820 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 485916005821 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 485916005822 homoserine kinase; Provisional; Region: PRK01212 485916005823 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 485916005824 aspartate kinase; Reviewed; Region: PRK06635 485916005825 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 485916005826 putative catalytic residues [active] 485916005827 putative nucleotide binding site [chemical binding]; other site 485916005828 putative aspartate binding site [chemical binding]; other site 485916005829 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 485916005830 putative allosteric regulatory site; other site 485916005831 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 485916005832 putative allosteric regulatory residue; other site 485916005833 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 485916005834 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 485916005835 Ligand Binding Site [chemical binding]; other site 485916005836 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 485916005837 AIR carboxylase; Region: AIRC; smart01001 485916005838 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 485916005839 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 485916005840 Probable transposase; Region: OrfB_IS605; pfam01385 485916005841 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916005842 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916005843 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 485916005844 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 485916005845 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 485916005846 FeS/SAM binding site; other site 485916005847 Protein of unknown function (DUF964); Region: DUF964; pfam06133 485916005848 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 485916005849 MutS domain I; Region: MutS_I; pfam01624 485916005850 MutS domain II; Region: MutS_II; pfam05188 485916005851 MutS domain III; Region: MutS_III; pfam05192 485916005852 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 485916005853 Walker A/P-loop; other site 485916005854 ATP binding site [chemical binding]; other site 485916005855 Q-loop/lid; other site 485916005856 ABC transporter signature motif; other site 485916005857 Walker B; other site 485916005858 D-loop; other site 485916005859 H-loop/switch region; other site 485916005860 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 485916005861 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 485916005862 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 485916005863 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 485916005864 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 485916005865 active site 485916005866 Zn binding site [ion binding]; other site 485916005867 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 485916005868 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 485916005869 ATP binding site [chemical binding]; other site 485916005870 Mg2+ binding site [ion binding]; other site 485916005871 G-X-G motif; other site 485916005872 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 485916005873 ATP binding site [chemical binding]; other site 485916005874 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 485916005875 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 485916005876 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 485916005877 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 485916005878 bacterial Hfq-like; Region: Hfq; cd01716 485916005879 hexamer interface [polypeptide binding]; other site 485916005880 Sm1 motif; other site 485916005881 RNA binding site [nucleotide binding]; other site 485916005882 Sm2 motif; other site 485916005883 stage V sporulation protein K; Region: spore_V_K; TIGR02881 485916005884 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 485916005885 Walker A motif; other site 485916005886 ATP binding site [chemical binding]; other site 485916005887 Walker B motif; other site 485916005888 arginine finger; other site 485916005889 Aluminium resistance protein; Region: Alum_res; pfam06838 485916005890 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 485916005891 LexA repressor; Validated; Region: PRK00215 485916005892 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 485916005893 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 485916005894 Catalytic site [active] 485916005895 fumarate hydratase; Provisional; Region: PRK06246 485916005896 Fumarase C-terminus; Region: Fumerase_C; cl00795 485916005897 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 485916005898 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 485916005899 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 485916005900 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485916005901 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 485916005902 S-adenosylmethionine binding site [chemical binding]; other site 485916005903 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 485916005904 diiron binding motif [ion binding]; other site 485916005905 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916005906 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 485916005907 putative ADP-binding pocket [chemical binding]; other site 485916005908 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 485916005909 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 485916005910 FeS/SAM binding site; other site 485916005911 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 485916005912 phosphofructokinase; Region: PFK_mixed; TIGR02483 485916005913 active site 485916005914 ADP/pyrophosphate binding site [chemical binding]; other site 485916005915 dimerization interface [polypeptide binding]; other site 485916005916 allosteric effector site; other site 485916005917 fructose-1,6-bisphosphate binding site; other site 485916005918 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 485916005919 Uncharacterized conserved protein [Function unknown]; Region: COG1615 485916005920 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 485916005921 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 485916005922 ATP-grasp domain; Region: ATP-grasp_4; cl17255 485916005923 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 485916005924 putative acetyltransferase; Provisional; Region: PRK03624 485916005925 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916005926 Coenzyme A binding pocket [chemical binding]; other site 485916005927 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 485916005928 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916005929 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 485916005930 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916005931 Coenzyme A binding pocket [chemical binding]; other site 485916005932 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 485916005933 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 485916005934 S-adenosylmethionine binding site [chemical binding]; other site 485916005935 Uncharacterized conserved protein [Function unknown]; Region: COG0397 485916005936 hypothetical protein; Validated; Region: PRK00029 485916005937 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 485916005938 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 485916005939 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 485916005940 active site 485916005941 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 485916005942 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 485916005943 Phospholipid methyltransferase; Region: PEMT; cl17370 485916005944 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 485916005945 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 485916005946 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 485916005947 Predicted transcriptional regulators [Transcription]; Region: COG1695 485916005948 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 485916005949 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 485916005950 HAMP domain; Region: HAMP; pfam00672 485916005951 dimerization interface [polypeptide binding]; other site 485916005952 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916005953 dimer interface [polypeptide binding]; other site 485916005954 putative CheW interface [polypeptide binding]; other site 485916005955 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 485916005956 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 485916005957 dimerization interface [polypeptide binding]; other site 485916005958 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916005959 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 485916005960 dimer interface [polypeptide binding]; other site 485916005961 phosphorylation site [posttranslational modification] 485916005962 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 485916005963 ATP binding site [chemical binding]; other site 485916005964 Mg2+ binding site [ion binding]; other site 485916005965 G-X-G motif; other site 485916005966 Response regulator receiver domain; Region: Response_reg; pfam00072 485916005967 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916005968 active site 485916005969 phosphorylation site [posttranslational modification] 485916005970 intermolecular recognition site; other site 485916005971 dimerization interface [polypeptide binding]; other site 485916005972 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485916005973 GAF domain; Region: GAF; pfam01590 485916005974 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916005975 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916005976 metal binding site [ion binding]; metal-binding site 485916005977 active site 485916005978 I-site; other site 485916005979 FIST N domain; Region: FIST; pfam08495 485916005980 FIST C domain; Region: FIST_C; pfam10442 485916005981 GAF domain; Region: GAF_3; pfam13492 485916005982 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916005983 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916005984 metal binding site [ion binding]; metal-binding site 485916005985 active site 485916005986 I-site; other site 485916005987 Predicted membrane protein [Function unknown]; Region: COG1584 485916005988 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916005989 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 485916005990 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916005991 enolase; Provisional; Region: eno; PRK00077 485916005992 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 485916005993 dimer interface [polypeptide binding]; other site 485916005994 metal binding site [ion binding]; metal-binding site 485916005995 substrate binding pocket [chemical binding]; other site 485916005996 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 485916005997 G3 box; other site 485916005998 Switch II region; other site 485916005999 GTP/Mg2+ binding site [chemical binding]; other site 485916006000 G4 box; other site 485916006001 G5 box; other site 485916006002 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; cl16254 485916006003 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 485916006004 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 485916006005 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 485916006006 Calcium binding; Region: Calci_bind_CcbP; pfam11535 485916006007 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 485916006008 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 485916006009 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 485916006010 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 485916006011 Helix-turn-helix domain; Region: HTH_28; pfam13518 485916006012 Winged helix-turn helix; Region: HTH_29; pfam13551 485916006013 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916006014 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916006015 Uncharacterized conserved protein [Function unknown]; Region: COG1633 485916006016 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 485916006017 dinuclear metal binding motif [ion binding]; other site 485916006018 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 485916006019 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 485916006020 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 485916006021 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 485916006022 active site 485916006023 DNA binding site [nucleotide binding] 485916006024 Int/Topo IB signature motif; other site 485916006025 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 485916006026 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 485916006027 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 485916006028 active site 485916006029 DNA binding site [nucleotide binding] 485916006030 Int/Topo IB signature motif; other site 485916006031 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 485916006032 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 485916006033 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 485916006034 active site 485916006035 DNA binding site [nucleotide binding] 485916006036 Int/Topo IB signature motif; other site 485916006037 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 485916006038 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 485916006039 Walker A motif; other site 485916006040 ATP binding site [chemical binding]; other site 485916006041 Walker B motif; other site 485916006042 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 485916006043 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 485916006044 Walker A motif; other site 485916006045 ATP binding site [chemical binding]; other site 485916006046 Walker B motif; other site 485916006047 Restriction endonuclease; Region: Mrr_cat; pfam04471 485916006048 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916006049 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916006050 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916006051 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 485916006052 non-specific DNA binding site [nucleotide binding]; other site 485916006053 salt bridge; other site 485916006054 sequence-specific DNA binding site [nucleotide binding]; other site 485916006055 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 485916006056 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 485916006057 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916006058 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916006059 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 485916006060 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 485916006061 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 485916006062 Walker A motif; other site 485916006063 ATP binding site [chemical binding]; other site 485916006064 Walker B motif; other site 485916006065 arginine finger; other site 485916006066 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 485916006067 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916006068 catalytic residues [active] 485916006069 Recombinase; Region: Recombinase; pfam07508 485916006070 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916006071 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916006072 Homeodomain-like domain; Region: HTH_23; pfam13384 485916006073 Winged helix-turn helix; Region: HTH_29; pfam13551 485916006074 Winged helix-turn helix; Region: HTH_33; pfam13592 485916006075 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916006076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916006077 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 485916006078 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 485916006079 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 485916006080 active site 485916006081 DNA binding site [nucleotide binding] 485916006082 Int/Topo IB signature motif; other site 485916006083 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 485916006084 active site 485916006085 DNA binding site [nucleotide binding] 485916006086 Int/Topo IB signature motif; other site 485916006087 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 485916006088 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 485916006089 active site 485916006090 DNA binding site [nucleotide binding] 485916006091 Int/Topo IB signature motif; other site 485916006092 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 485916006093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 485916006094 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 485916006095 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 485916006096 Domain of unknown function (DUF955); Region: DUF955; pfam06114 485916006097 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916006098 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 485916006099 non-specific DNA binding site [nucleotide binding]; other site 485916006100 salt bridge; other site 485916006101 sequence-specific DNA binding site [nucleotide binding]; other site 485916006102 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 485916006103 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 485916006104 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 485916006105 S-adenosylmethionine binding site [chemical binding]; other site 485916006106 Protein of unknown function (DUF327); Region: DUF327; pfam03885 485916006107 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 485916006108 L-aspartate oxidase; Provisional; Region: PRK06175 485916006109 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 485916006110 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 485916006111 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 485916006112 dimerization interface [polypeptide binding]; other site 485916006113 active site 485916006114 quinolinate synthetase; Provisional; Region: PRK09375 485916006115 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 485916006116 HTH domain; Region: HTH_11; pfam08279 485916006117 3H domain; Region: 3H; pfam02829 485916006118 pyrophosphatase PpaX; Provisional; Region: PRK13288 485916006119 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 485916006120 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 485916006121 motif II; other site 485916006122 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 485916006123 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485916006124 catalytic residues [active] 485916006125 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 485916006126 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 485916006127 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 485916006128 non-specific DNA binding site [nucleotide binding]; other site 485916006129 salt bridge; other site 485916006130 sequence-specific DNA binding site [nucleotide binding]; other site 485916006131 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916006132 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 485916006133 non-specific DNA binding site [nucleotide binding]; other site 485916006134 salt bridge; other site 485916006135 sequence-specific DNA binding site [nucleotide binding]; other site 485916006136 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 485916006137 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 485916006138 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 485916006139 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 485916006140 Peptidase family U32; Region: Peptidase_U32; pfam01136 485916006141 YceG-like family; Region: YceG; pfam02618 485916006142 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 485916006143 dimerization interface [polypeptide binding]; other site 485916006144 VanW like protein; Region: VanW; pfam04294 485916006145 G5 domain; Region: G5; pfam07501 485916006146 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 485916006147 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 485916006148 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 485916006149 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 485916006150 active site 485916006151 catalytic tetrad [active] 485916006152 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 485916006153 4Fe-4S binding domain; Region: Fer4; pfam00037 485916006154 hypothetical protein; Provisional; Region: PRK05473 485916006155 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 485916006156 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 485916006157 motif 1; other site 485916006158 active site 485916006159 motif 2; other site 485916006160 motif 3; other site 485916006161 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 485916006162 DHHA1 domain; Region: DHHA1; pfam02272 485916006163 Uncharacterized protein conserved in archaea (DUF2250); Region: DUF2250; pfam10007 485916006164 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 485916006165 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 485916006166 Ligand Binding Site [chemical binding]; other site 485916006167 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 485916006168 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 485916006169 trimerization site [polypeptide binding]; other site 485916006170 active site 485916006171 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 485916006172 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 485916006173 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485916006174 catalytic residue [active] 485916006175 Predicted transcriptional regulator [Transcription]; Region: COG1959 485916006176 Transcriptional regulator; Region: Rrf2; cl17282 485916006177 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 485916006178 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 485916006179 catalytic residues [active] 485916006180 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 485916006181 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 485916006182 putative ATP binding site [chemical binding]; other site 485916006183 putative substrate interface [chemical binding]; other site 485916006184 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 485916006185 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 485916006186 dimer interface [polypeptide binding]; other site 485916006187 anticodon binding site; other site 485916006188 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 485916006189 homodimer interface [polypeptide binding]; other site 485916006190 motif 1; other site 485916006191 active site 485916006192 motif 2; other site 485916006193 GAD domain; Region: GAD; pfam02938 485916006194 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 485916006195 motif 3; other site 485916006196 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 485916006197 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 485916006198 dimer interface [polypeptide binding]; other site 485916006199 motif 1; other site 485916006200 active site 485916006201 motif 2; other site 485916006202 motif 3; other site 485916006203 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 485916006204 anticodon binding site; other site 485916006205 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 485916006206 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 485916006207 dimer interface [polypeptide binding]; other site 485916006208 conserved gate region; other site 485916006209 ABC-ATPase subunit interface; other site 485916006210 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 485916006211 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 485916006212 Walker A/P-loop; other site 485916006213 ATP binding site [chemical binding]; other site 485916006214 Q-loop/lid; other site 485916006215 ABC transporter signature motif; other site 485916006216 Walker B; other site 485916006217 D-loop; other site 485916006218 H-loop/switch region; other site 485916006219 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 485916006220 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 485916006221 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 485916006222 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 485916006223 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 485916006224 dimerization interface [polypeptide binding]; other site 485916006225 putative tRNAtyr binding site [nucleotide binding]; other site 485916006226 putative active site [active] 485916006227 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 485916006228 HD domain; Region: HD_4; pfam13328 485916006229 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 485916006230 synthetase active site [active] 485916006231 NTP binding site [chemical binding]; other site 485916006232 metal binding site [ion binding]; metal-binding site 485916006233 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 485916006234 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 485916006235 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916006236 active site 485916006237 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 485916006238 DHH family; Region: DHH; pfam01368 485916006239 DHHA1 domain; Region: DHHA1; pfam02272 485916006240 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 485916006241 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 485916006242 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 485916006243 active site 485916006244 catalytic tetrad [active] 485916006245 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 485916006246 4Fe-4S binding domain; Region: Fer4_5; pfam12801 485916006247 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916006248 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 485916006249 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 485916006250 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 485916006251 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 485916006252 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 485916006253 Rubredoxin; Region: Rubredoxin; pfam00301 485916006254 iron binding site [ion binding]; other site 485916006255 nicotinate phosphoribosyltransferase; Reviewed; Region: PRK08662 485916006256 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup B. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_B; cd01571 485916006257 active site 485916006258 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 485916006259 homopentamer interface [polypeptide binding]; other site 485916006260 active site 485916006261 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 485916006262 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 485916006263 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 485916006264 dimerization interface [polypeptide binding]; other site 485916006265 active site 485916006266 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 485916006267 Lumazine binding domain; Region: Lum_binding; pfam00677 485916006268 Lumazine binding domain; Region: Lum_binding; pfam00677 485916006269 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 485916006270 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 485916006271 catalytic motif [active] 485916006272 Zn binding site [ion binding]; other site 485916006273 RibD C-terminal domain; Region: RibD_C; cl17279 485916006274 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916006275 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 485916006276 ATP binding site [chemical binding]; other site 485916006277 Mg2+ binding site [ion binding]; other site 485916006278 G-X-G motif; other site 485916006279 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 485916006280 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 485916006281 substrate binding site [chemical binding]; other site 485916006282 hexamer interface [polypeptide binding]; other site 485916006283 metal binding site [ion binding]; metal-binding site 485916006284 GTPase RsgA; Reviewed; Region: PRK00098 485916006285 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 485916006286 RNA binding site [nucleotide binding]; other site 485916006287 homodimer interface [polypeptide binding]; other site 485916006288 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 485916006289 GTPase/Zn-binding domain interface [polypeptide binding]; other site 485916006290 GTP/Mg2+ binding site [chemical binding]; other site 485916006291 G4 box; other site 485916006292 G5 box; other site 485916006293 G1 box; other site 485916006294 Switch I region; other site 485916006295 G2 box; other site 485916006296 G3 box; other site 485916006297 Switch II region; other site 485916006298 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 485916006299 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 485916006300 active site 485916006301 ATP binding site [chemical binding]; other site 485916006302 substrate binding site [chemical binding]; other site 485916006303 activation loop (A-loop); other site 485916006304 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 485916006305 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 485916006306 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 485916006307 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 485916006308 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 485916006309 Protein phosphatase 2C; Region: PP2C; pfam00481 485916006310 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 485916006311 active site 485916006312 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 485916006313 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 485916006314 phosphopeptide binding site; other site 485916006315 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 485916006316 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 485916006317 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 485916006318 phosphopeptide binding site; other site 485916006319 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 485916006320 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 485916006321 FeS/SAM binding site; other site 485916006322 16S rRNA methyltransferase B; Provisional; Region: PRK14902 485916006323 NusB family; Region: NusB; pfam01029 485916006324 putative RNA binding site [nucleotide binding]; other site 485916006325 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 485916006326 S-adenosylmethionine binding site [chemical binding]; other site 485916006327 Protein of unknown function DUF116; Region: DUF116; pfam01976 485916006328 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 485916006329 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 485916006330 putative active site [active] 485916006331 substrate binding site [chemical binding]; other site 485916006332 putative cosubstrate binding site; other site 485916006333 catalytic site [active] 485916006334 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 485916006335 substrate binding site [chemical binding]; other site 485916006336 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 485916006337 active site 485916006338 catalytic residues [active] 485916006339 metal binding site [ion binding]; metal-binding site 485916006340 primosome assembly protein PriA; Validated; Region: PRK05580 485916006341 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 485916006342 ATP binding site [chemical binding]; other site 485916006343 putative Mg++ binding site [ion binding]; other site 485916006344 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 485916006345 nucleotide binding region [chemical binding]; other site 485916006346 ATP-binding site [chemical binding]; other site 485916006347 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 485916006348 Flavoprotein; Region: Flavoprotein; pfam02441 485916006349 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 485916006350 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 485916006351 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 485916006352 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 485916006353 catalytic site [active] 485916006354 G-X2-G-X-G-K; other site 485916006355 hypothetical protein; Provisional; Region: PRK04323 485916006356 hypothetical protein; Provisional; Region: PRK11820 485916006357 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 485916006358 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 485916006359 aspartate aminotransferase; Provisional; Region: PRK05764 485916006360 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 485916006361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916006362 homodimer interface [polypeptide binding]; other site 485916006363 catalytic residue [active] 485916006364 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 485916006365 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 485916006366 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 485916006367 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 485916006368 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 485916006369 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916006370 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 485916006371 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 485916006372 motif II; other site 485916006373 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 485916006374 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 485916006375 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 485916006376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916006377 homodimer interface [polypeptide binding]; other site 485916006378 catalytic residue [active] 485916006379 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 485916006380 putative FMN binding site [chemical binding]; other site 485916006381 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 485916006382 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 485916006383 putative substrate translocation pore; other site 485916006384 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 485916006385 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 485916006386 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 485916006387 ACS interaction site; other site 485916006388 CODH interaction site; other site 485916006389 cubane metal cluster (B-cluster) [ion binding]; other site 485916006390 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 485916006391 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 485916006392 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 485916006393 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485916006394 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485916006395 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 485916006396 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 485916006397 Peptidase family M48; Region: Peptidase_M48; pfam01435 485916006398 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 485916006399 Domain of unknown function (DUF814); Region: DUF814; pfam05670 485916006400 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 485916006401 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 485916006402 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_HprK; cl00270 485916006403 active site 485916006404 metal-binding site [ion binding] 485916006405 nucleotide-binding site [chemical binding]; other site 485916006406 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 485916006407 dimer interface [polypeptide binding]; other site 485916006408 active site 485916006409 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 485916006410 Ligand Binding Site [chemical binding]; other site 485916006411 Molecular Tunnel; other site 485916006412 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 485916006413 sugar binding site [chemical binding]; other site 485916006414 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916006415 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916006416 Phage Tail Collar Domain; Region: Collar; pfam07484 485916006417 Phage Tail Collar Domain; Region: Collar; pfam07484 485916006418 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485916006419 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916006420 active site 485916006421 phosphorylation site [posttranslational modification] 485916006422 intermolecular recognition site; other site 485916006423 dimerization interface [polypeptide binding]; other site 485916006424 LytTr DNA-binding domain; Region: LytTR; smart00850 485916006425 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 485916006426 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916006427 active site 485916006428 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 485916006429 active site 485916006430 dimer interface [polypeptide binding]; other site 485916006431 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 485916006432 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 485916006433 heterodimer interface [polypeptide binding]; other site 485916006434 active site 485916006435 FMN binding site [chemical binding]; other site 485916006436 homodimer interface [polypeptide binding]; other site 485916006437 substrate binding site [chemical binding]; other site 485916006438 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 485916006439 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 485916006440 FAD binding pocket [chemical binding]; other site 485916006441 FAD binding motif [chemical binding]; other site 485916006442 phosphate binding motif [ion binding]; other site 485916006443 beta-alpha-beta structure motif; other site 485916006444 NAD binding pocket [chemical binding]; other site 485916006445 Iron coordination center [ion binding]; other site 485916006446 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 485916006447 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 485916006448 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 485916006449 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 485916006450 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 485916006451 ATP-grasp domain; Region: ATP-grasp_4; cl17255 485916006452 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 485916006453 IMP binding site; other site 485916006454 dimer interface [polypeptide binding]; other site 485916006455 interdomain contacts; other site 485916006456 partial ornithine binding site; other site 485916006457 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 485916006458 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 485916006459 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 485916006460 catalytic site [active] 485916006461 subunit interface [polypeptide binding]; other site 485916006462 dihydroorotase; Validated; Region: pyrC; PRK09357 485916006463 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 485916006464 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 485916006465 active site 485916006466 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 485916006467 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 485916006468 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 485916006469 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 485916006470 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916006471 active site 485916006472 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 485916006473 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 485916006474 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485916006475 putative substrate translocation pore; other site 485916006476 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; pfam02679 485916006477 Protein of unknown function (DUF441); Region: DUF441; pfam04284 485916006478 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 485916006479 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 485916006480 putative homodimer interface [polypeptide binding]; other site 485916006481 putative active site pocket [active] 485916006482 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 485916006483 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 485916006484 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 485916006485 RNA binding surface [nucleotide binding]; other site 485916006486 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 485916006487 active site 485916006488 lipoprotein signal peptidase; Provisional; Region: PRK14793 485916006489 lipoprotein signal peptidase; Provisional; Region: PRK14787 485916006490 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 485916006491 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 485916006492 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 485916006493 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 485916006494 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916006495 Coenzyme A binding pocket [chemical binding]; other site 485916006496 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 485916006497 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 485916006498 putative active site [active] 485916006499 catalytic triad [active] 485916006500 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 485916006501 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 485916006502 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 485916006503 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 485916006504 dimerization interface [polypeptide binding]; other site 485916006505 ATP binding site [chemical binding]; other site 485916006506 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 485916006507 dimerization interface [polypeptide binding]; other site 485916006508 ATP binding site [chemical binding]; other site 485916006509 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 485916006510 heat shock protein 90; Provisional; Region: PRK05218 485916006511 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 485916006512 ATP binding site [chemical binding]; other site 485916006513 Mg2+ binding site [ion binding]; other site 485916006514 G-X-G motif; other site 485916006515 flavoprotein, HI0933 family; Region: TIGR00275 485916006516 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485916006517 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 485916006518 stage V sporulation protein AD; Provisional; Region: PRK12404 485916006519 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 485916006520 SpoVA protein; Region: SpoVA; cl04298 485916006521 Predicted membrane protein [Function unknown]; Region: COG2323 485916006522 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 485916006523 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 485916006524 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 485916006525 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 485916006526 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485916006527 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 485916006528 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 485916006529 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 485916006530 active site 485916006531 HIGH motif; other site 485916006532 dimer interface [polypeptide binding]; other site 485916006533 KMSKS motif; other site 485916006534 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 485916006535 RNA binding surface [nucleotide binding]; other site 485916006536 Transglycosylase; Region: Transgly; pfam00912 485916006537 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 485916006538 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 485916006539 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 485916006540 MutS domain III; Region: MutS_III; pfam05192 485916006541 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 485916006542 Walker A/P-loop; other site 485916006543 ATP binding site [chemical binding]; other site 485916006544 Q-loop/lid; other site 485916006545 ABC transporter signature motif; other site 485916006546 Walker B; other site 485916006547 D-loop; other site 485916006548 H-loop/switch region; other site 485916006549 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 485916006550 Smr domain; Region: Smr; pfam01713 485916006551 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 485916006552 Peptidase family U32; Region: Peptidase_U32; pfam01136 485916006553 Collagenase; Region: DUF3656; pfam12392 485916006554 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 485916006555 Peptidase family U32; Region: Peptidase_U32; pfam01136 485916006556 Uncharacterized conserved protein [Function unknown]; Region: COG0327 485916006557 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 485916006558 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 485916006559 active site 485916006560 DNA binding site [nucleotide binding] 485916006561 Cell division protein ZapA; Region: ZapA; cl01146 485916006562 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 485916006563 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 485916006564 putative tRNA-binding site [nucleotide binding]; other site 485916006565 B3/4 domain; Region: B3_4; pfam03483 485916006566 tRNA synthetase B5 domain; Region: B5; smart00874 485916006567 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 485916006568 dimer interface [polypeptide binding]; other site 485916006569 motif 1; other site 485916006570 motif 3; other site 485916006571 motif 2; other site 485916006572 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 485916006573 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 485916006574 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 485916006575 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 485916006576 dimer interface [polypeptide binding]; other site 485916006577 motif 1; other site 485916006578 active site 485916006579 motif 2; other site 485916006580 motif 3; other site 485916006581 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 485916006582 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 485916006583 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 485916006584 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 485916006585 23S rRNA binding site [nucleotide binding]; other site 485916006586 L21 binding site [polypeptide binding]; other site 485916006587 L13 binding site [polypeptide binding]; other site 485916006588 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 485916006589 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 485916006590 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 485916006591 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 485916006592 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 485916006593 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 485916006594 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 485916006595 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 485916006596 active site 485916006597 dimer interface [polypeptide binding]; other site 485916006598 motif 1; other site 485916006599 motif 2; other site 485916006600 motif 3; other site 485916006601 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 485916006602 anticodon binding site; other site 485916006603 YtxC-like family; Region: YtxC; pfam08812 485916006604 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 485916006605 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 485916006606 NodB motif; other site 485916006607 active site 485916006608 catalytic site [active] 485916006609 metal binding site [ion binding]; metal-binding site 485916006610 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 485916006611 Acyltransferase family; Region: Acyl_transf_3; pfam01757 485916006612 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 485916006613 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 485916006614 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 485916006615 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 485916006616 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 485916006617 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 485916006618 Ligand Binding Site [chemical binding]; other site 485916006619 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 485916006620 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 485916006621 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 485916006622 C-terminal peptidase (prc); Region: prc; TIGR00225 485916006623 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 485916006624 protein binding site [polypeptide binding]; other site 485916006625 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 485916006626 Catalytic dyad [active] 485916006627 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916006628 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916006629 DNA polymerase I; Provisional; Region: PRK05755 485916006630 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 485916006631 active site 485916006632 metal binding site 1 [ion binding]; metal-binding site 485916006633 putative 5' ssDNA interaction site; other site 485916006634 metal binding site 3; metal-binding site 485916006635 metal binding site 2 [ion binding]; metal-binding site 485916006636 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 485916006637 putative DNA binding site [nucleotide binding]; other site 485916006638 putative metal binding site [ion binding]; other site 485916006639 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 485916006640 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 485916006641 active site 485916006642 DNA binding site [nucleotide binding] 485916006643 catalytic site [active] 485916006644 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 485916006645 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 485916006646 DNA binding site [nucleotide binding] 485916006647 catalytic residue [active] 485916006648 H2TH interface [polypeptide binding]; other site 485916006649 putative catalytic residues [active] 485916006650 turnover-facilitating residue; other site 485916006651 intercalation triad [nucleotide binding]; other site 485916006652 8OG recognition residue [nucleotide binding]; other site 485916006653 putative reading head residues; other site 485916006654 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 485916006655 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 485916006656 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 485916006657 Domain of unknown function DUF; Region: DUF204; pfam02659 485916006658 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 485916006659 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 485916006660 CoA-binding site [chemical binding]; other site 485916006661 ATP-binding [chemical binding]; other site 485916006662 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 485916006663 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 485916006664 N-acetyl-D-glucosamine binding site [chemical binding]; other site 485916006665 catalytic residue [active] 485916006666 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 485916006667 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 485916006668 active site 485916006669 DNA binding site [nucleotide binding] 485916006670 Int/Topo IB signature motif; other site 485916006671 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 485916006672 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 485916006673 active site 485916006674 DNA binding site [nucleotide binding] 485916006675 Int/Topo IB signature motif; other site 485916006676 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 485916006677 ParB-like nuclease domain; Region: ParBc; pfam02195 485916006678 Homeodomain-like domain; Region: HTH_23; pfam13384 485916006679 Winged helix-turn helix; Region: HTH_29; pfam13551 485916006680 Winged helix-turn helix; Region: HTH_33; pfam13592 485916006681 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916006682 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916006683 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 485916006684 non-specific DNA binding site [nucleotide binding]; other site 485916006685 salt bridge; other site 485916006686 sequence-specific DNA binding site [nucleotide binding]; other site 485916006687 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 485916006688 non-specific DNA binding site [nucleotide binding]; other site 485916006689 sequence-specific DNA binding site [nucleotide binding]; other site 485916006690 salt bridge; other site 485916006691 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 485916006692 non-specific DNA binding site [nucleotide binding]; other site 485916006693 salt bridge; other site 485916006694 sequence-specific DNA binding site [nucleotide binding]; other site 485916006695 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 485916006696 non-specific DNA binding site [nucleotide binding]; other site 485916006697 salt bridge; other site 485916006698 sequence-specific DNA binding site [nucleotide binding]; other site 485916006699 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916006700 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 485916006701 non-specific DNA binding site [nucleotide binding]; other site 485916006702 salt bridge; other site 485916006703 sequence-specific DNA binding site [nucleotide binding]; other site 485916006704 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916006705 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 485916006706 non-specific DNA binding site [nucleotide binding]; other site 485916006707 salt bridge; other site 485916006708 sequence-specific DNA binding site [nucleotide binding]; other site 485916006709 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916006710 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 485916006711 non-specific DNA binding site [nucleotide binding]; other site 485916006712 salt bridge; other site 485916006713 sequence-specific DNA binding site [nucleotide binding]; other site 485916006714 AAA domain; Region: AAA_30; pfam13604 485916006715 AAA domain; Region: AAA_30; pfam13604 485916006716 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 485916006717 AAA domain; Region: AAA_12; pfam13087 485916006718 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916006719 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916006720 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 485916006721 catalytic residues [active] 485916006722 catalytic nucleophile [active] 485916006723 Presynaptic Site I dimer interface [polypeptide binding]; other site 485916006724 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 485916006725 Synaptic Flat tetramer interface [polypeptide binding]; other site 485916006726 Synaptic Site I dimer interface [polypeptide binding]; other site 485916006727 DNA binding site [nucleotide binding] 485916006728 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485916006729 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916006730 active site 485916006731 phosphorylation site [posttranslational modification] 485916006732 intermolecular recognition site; other site 485916006733 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 485916006734 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916006735 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 485916006736 ATP binding site [chemical binding]; other site 485916006737 Mg2+ binding site [ion binding]; other site 485916006738 G-X-G motif; other site 485916006739 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 485916006740 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 485916006741 cofactor binding site; other site 485916006742 DNA binding site [nucleotide binding] 485916006743 substrate interaction site [chemical binding]; other site 485916006744 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 485916006745 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 485916006746 active site 485916006747 Int/Topo IB signature motif; other site 485916006748 DNA binding site [nucleotide binding] 485916006749 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 485916006750 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 485916006751 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916006752 Coenzyme A binding pocket [chemical binding]; other site 485916006753 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916006754 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 485916006755 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 485916006756 cofactor binding site; other site 485916006757 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 485916006758 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 485916006759 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 485916006760 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 485916006761 active site 485916006762 metal binding site [ion binding]; metal-binding site 485916006763 interdomain interaction site; other site 485916006764 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 485916006765 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 485916006766 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 485916006767 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 485916006768 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 485916006769 Walker A motif; other site 485916006770 ATP binding site [chemical binding]; other site 485916006771 Walker B motif; other site 485916006772 Stage III sporulation protein D; Region: SpoIIID; pfam12116 485916006773 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916006774 Zn2+ binding site [ion binding]; other site 485916006775 Mg2+ binding site [ion binding]; other site 485916006776 Helix-turn-helix domain; Region: HTH_28; pfam13518 485916006777 Winged helix-turn helix; Region: HTH_29; pfam13551 485916006778 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916006779 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916006780 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 485916006781 ADP-ribose binding site [chemical binding]; other site 485916006782 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 485916006783 TadE-like protein; Region: TadE; pfam07811 485916006784 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 485916006785 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 485916006786 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 485916006787 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 485916006788 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 485916006789 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 485916006790 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 485916006791 Walker A motif; other site 485916006792 hexamer interface [polypeptide binding]; other site 485916006793 ATP binding site [chemical binding]; other site 485916006794 Walker B motif; other site 485916006795 AAA domain; Region: AAA_31; pfam13614 485916006796 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 485916006797 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 485916006798 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 485916006799 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_HprK; cl00270 485916006800 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 485916006801 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916006802 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916006803 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 485916006804 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916006805 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 485916006806 oligomeric interface; other site 485916006807 putative active site [active] 485916006808 homodimer interface [polypeptide binding]; other site 485916006809 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 485916006810 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 485916006811 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916006812 AAA domain; Region: AAA_31; pfam13614 485916006813 AAA domain; Region: AAA_31; pfam13614 485916006814 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 485916006815 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 485916006816 N-acetyl-D-glucosamine binding site [chemical binding]; other site 485916006817 catalytic residue [active] 485916006818 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 485916006819 Peptidase family M23; Region: Peptidase_M23; pfam01551 485916006820 Homeodomain-like domain; Region: HTH_23; pfam13384 485916006821 Winged helix-turn helix; Region: HTH_29; pfam13551 485916006822 Winged helix-turn helix; Region: HTH_33; pfam13592 485916006823 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916006824 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916006825 AAA-like domain; Region: AAA_10; pfam12846 485916006826 TcpE family; Region: TcpE; pfam12648 485916006827 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 485916006828 Helix-turn-helix domain; Region: HTH_28; pfam13518 485916006829 Winged helix-turn helix; Region: HTH_29; pfam13551 485916006830 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916006831 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916006832 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 485916006833 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916006834 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916006835 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 485916006836 Membrane protein of unknown function; Region: DUF360; pfam04020 485916006837 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 485916006838 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 485916006839 Recombinase; Region: Recombinase; pfam07508 485916006840 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916006841 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 485916006842 minor groove reading motif; other site 485916006843 endonuclease III; Region: ENDO3c; smart00478 485916006844 helix-hairpin-helix signature motif; other site 485916006845 substrate binding pocket [chemical binding]; other site 485916006846 active site 485916006847 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 485916006848 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 485916006849 DNA binding site [nucleotide binding] 485916006850 active site 485916006851 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916006852 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916006853 metal binding site [ion binding]; metal-binding site 485916006854 active site 485916006855 I-site; other site 485916006856 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 485916006857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916006858 Coenzyme A binding pocket [chemical binding]; other site 485916006859 Helix-turn-helix domain; Region: HTH_28; pfam13518 485916006860 Winged helix-turn helix; Region: HTH_29; pfam13551 485916006861 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916006862 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916006863 hypothetical protein; Provisional; Region: PRK02237 485916006864 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916006865 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485916006866 DNA binding residues [nucleotide binding] 485916006867 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916006868 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916006869 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916006870 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916006871 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 485916006872 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 485916006873 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916006874 Soluble P-type ATPase [General function prediction only]; Region: COG4087 485916006875 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 485916006876 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485916006877 hypothetical protein; Provisional; Region: PRK02237 485916006878 hypothetical protein; Provisional; Region: PRK02237 485916006879 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916006880 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 485916006881 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916006882 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 485916006883 putative DNA binding site [nucleotide binding]; other site 485916006884 putative Zn2+ binding site [ion binding]; other site 485916006885 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 485916006886 putative DNA binding site [nucleotide binding]; other site 485916006887 dimerization interface [polypeptide binding]; other site 485916006888 putative Zn2+ binding site [ion binding]; other site 485916006889 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485916006890 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 485916006891 S-adenosylmethionine binding site [chemical binding]; other site 485916006892 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 485916006893 Uncharacterized conserved protein [Function unknown]; Region: COG2006 485916006894 4Fe-4S binding domain; Region: Fer4_6; pfam12837 485916006895 4Fe-4S binding domain; Region: Fer4_6; pfam12837 485916006896 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 485916006897 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 485916006898 DNA binding residues [nucleotide binding] 485916006899 putative dimer interface [polypeptide binding]; other site 485916006900 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 485916006901 nudix motif; other site 485916006902 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 485916006903 active site 485916006904 NTP binding site [chemical binding]; other site 485916006905 metal binding triad [ion binding]; metal-binding site 485916006906 Predicted nucleotidyltransferases [General function prediction only]; Region: COG1708 485916006907 This putative domain contains a quite highly conserved sequence of CGGC in its central region; Region: CGGC; smart01078 485916006908 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916006909 dimer interface [polypeptide binding]; other site 485916006910 putative CheW interface [polypeptide binding]; other site 485916006911 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 485916006912 Spore germination protein; Region: Spore_permease; cl17796 485916006913 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 485916006914 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916006915 Coenzyme A binding pocket [chemical binding]; other site 485916006916 sensory histidine kinase AtoS; Provisional; Region: PRK11360 485916006917 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 485916006918 dimer interface [polypeptide binding]; other site 485916006919 phosphorylation site [posttranslational modification] 485916006920 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 485916006921 ATP binding site [chemical binding]; other site 485916006922 Mg2+ binding site [ion binding]; other site 485916006923 G-X-G motif; other site 485916006924 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 485916006925 Putative catalytic NodB homology domain of uncharacterized BH1302 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH1302_like; cd10956 485916006926 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 485916006927 NodB motif; other site 485916006928 putative active site [active] 485916006929 putative catalytic site [active] 485916006930 putative Zn binding site [ion binding]; other site 485916006931 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 485916006932 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916006933 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 485916006934 DNA binding residues [nucleotide binding] 485916006935 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 485916006936 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 485916006937 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916006938 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 485916006939 catalytic residues [active] 485916006940 catalytic nucleophile [active] 485916006941 Recombinase; Region: Recombinase; pfam07508 485916006942 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 485916006943 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 485916006944 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 485916006945 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 485916006946 Walker A/P-loop; other site 485916006947 ATP binding site [chemical binding]; other site 485916006948 Q-loop/lid; other site 485916006949 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 485916006950 ABC transporter signature motif; other site 485916006951 Walker B; other site 485916006952 D-loop; other site 485916006953 H-loop/switch region; other site 485916006954 Arginine repressor [Transcription]; Region: ArgR; COG1438 485916006955 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 485916006956 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 485916006957 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 485916006958 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 485916006959 ATP-NAD kinase; Region: NAD_kinase; pfam01513 485916006960 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 485916006961 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 485916006962 RNA binding surface [nucleotide binding]; other site 485916006963 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 485916006964 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 485916006965 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 485916006966 TPP-binding site; other site 485916006967 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 485916006968 PYR/PP interface [polypeptide binding]; other site 485916006969 dimer interface [polypeptide binding]; other site 485916006970 TPP binding site [chemical binding]; other site 485916006971 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 485916006972 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 485916006973 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 485916006974 substrate binding pocket [chemical binding]; other site 485916006975 chain length determination region; other site 485916006976 substrate-Mg2+ binding site; other site 485916006977 catalytic residues [active] 485916006978 aspartate-rich region 1; other site 485916006979 active site lid residues [active] 485916006980 aspartate-rich region 2; other site 485916006981 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 485916006982 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 485916006983 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 485916006984 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 485916006985 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 485916006986 homodimer interface [polypeptide binding]; other site 485916006987 NADP binding site [chemical binding]; other site 485916006988 substrate binding site [chemical binding]; other site 485916006989 recombination factor protein RarA; Reviewed; Region: PRK13342 485916006990 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 485916006991 Walker A motif; other site 485916006992 ATP binding site [chemical binding]; other site 485916006993 Walker B motif; other site 485916006994 arginine finger; other site 485916006995 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 485916006996 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916006997 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 485916006998 EamA-like transporter family; Region: EamA; pfam00892 485916006999 EamA-like transporter family; Region: EamA; pfam00892 485916007000 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 485916007001 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 485916007002 generic binding surface II; other site 485916007003 generic binding surface I; other site 485916007004 putative oxidoreductase; Provisional; Region: PRK12831 485916007005 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485916007006 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 485916007007 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 485916007008 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 485916007009 FAD binding pocket [chemical binding]; other site 485916007010 FAD binding motif [chemical binding]; other site 485916007011 phosphate binding motif [ion binding]; other site 485916007012 beta-alpha-beta structure motif; other site 485916007013 NAD binding pocket [chemical binding]; other site 485916007014 Iron coordination center [ion binding]; other site 485916007015 transcription antitermination factor NusB; Region: nusB; TIGR01951 485916007016 putative RNA binding site [nucleotide binding]; other site 485916007017 Small integral membrane protein (DUF2273); Region: DUF2273; pfam10031 485916007018 Asp23 family; Region: Asp23; cl00574 485916007019 Asp23 family; Region: Asp23; pfam03780 485916007020 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 485916007021 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 485916007022 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 485916007023 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 485916007024 pyruvate carboxylase subunit B; Validated; Region: PRK09282 485916007025 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 485916007026 active site 485916007027 catalytic residues [active] 485916007028 metal binding site [ion binding]; metal-binding site 485916007029 homodimer binding site [polypeptide binding]; other site 485916007030 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 485916007031 carboxyltransferase (CT) interaction site; other site 485916007032 biotinylation site [posttranslational modification]; other site 485916007033 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 485916007034 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 485916007035 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 485916007036 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 485916007037 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 485916007038 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 485916007039 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 485916007040 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 485916007041 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 485916007042 Walker A motif; other site 485916007043 ATP binding site [chemical binding]; other site 485916007044 NTPase; Region: NTPase_1; cl17478 485916007045 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 485916007046 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 485916007047 ATP binding site [chemical binding]; other site 485916007048 putative Mg++ binding site [ion binding]; other site 485916007049 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 485916007050 nucleotide binding region [chemical binding]; other site 485916007051 ATP-binding site [chemical binding]; other site 485916007052 DEAD/H associated; Region: DEAD_assoc; pfam08494 485916007053 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 485916007054 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 485916007055 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 485916007056 active site 485916007057 metal binding site [ion binding]; metal-binding site 485916007058 Penicillinase repressor; Region: Pencillinase_R; pfam03965 485916007059 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916007060 HsdM N-terminal domain; Region: HsdM_N; pfam12161 485916007061 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 485916007062 Methyltransferase domain; Region: Methyltransf_26; pfam13659 485916007063 AAA domain; Region: AAA_13; pfam13166 485916007064 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 485916007065 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 485916007066 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 485916007067 Transposase; Region: HTH_Tnp_1; pfam01527 485916007068 putative transposase OrfB; Reviewed; Region: PHA02517 485916007069 HTH-like domain; Region: HTH_21; pfam13276 485916007070 Integrase core domain; Region: rve; pfam00665 485916007071 Integrase core domain; Region: rve_3; pfam13683 485916007072 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916007073 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 485916007074 dimerization interface [polypeptide binding]; other site 485916007075 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 485916007076 dimer interface [polypeptide binding]; other site 485916007077 phosphorylation site [posttranslational modification] 485916007078 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 485916007079 ATP binding site [chemical binding]; other site 485916007080 Mg2+ binding site [ion binding]; other site 485916007081 G-X-G motif; other site 485916007082 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916007083 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916007084 active site 485916007085 phosphorylation site [posttranslational modification] 485916007086 intermolecular recognition site; other site 485916007087 dimerization interface [polypeptide binding]; other site 485916007088 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 485916007089 DNA binding site [nucleotide binding] 485916007090 Family description; Region: VCBS; pfam13517 485916007091 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 485916007092 binding surface 485916007093 TPR motif; other site 485916007094 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916007095 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 485916007096 non-specific DNA binding site [nucleotide binding]; other site 485916007097 salt bridge; other site 485916007098 sequence-specific DNA binding site [nucleotide binding]; other site 485916007099 Protein of unknown function DUF86; Region: DUF86; pfam01934 485916007100 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 485916007101 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 485916007102 putative NAD(P) binding site [chemical binding]; other site 485916007103 active site 485916007104 Predicted transcriptional regulators [Transcription]; Region: COG1510 485916007105 MarR family; Region: MarR; pfam01047 485916007106 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 485916007107 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916007108 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485916007109 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 485916007110 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 485916007111 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 485916007112 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485916007113 DNA binding residues [nucleotide binding] 485916007114 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 485916007115 non-specific DNA binding site [nucleotide binding]; other site 485916007116 salt bridge; other site 485916007117 sequence-specific DNA binding site [nucleotide binding]; other site 485916007118 phosphoenolpyruvate synthase; Validated; Region: PRK06241 485916007119 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 485916007120 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 485916007121 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916007122 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485916007123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 485916007124 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 485916007125 Walker A/P-loop; other site 485916007126 ATP binding site [chemical binding]; other site 485916007127 Q-loop/lid; other site 485916007128 ABC transporter signature motif; other site 485916007129 Walker B; other site 485916007130 D-loop; other site 485916007131 H-loop/switch region; other site 485916007132 Second domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain2; cd03226 485916007133 Walker A/P-loop; other site 485916007134 ATP binding site [chemical binding]; other site 485916007135 Q-loop/lid; other site 485916007136 ABC transporter signature motif; other site 485916007137 Walker B; other site 485916007138 D-loop; other site 485916007139 H-loop/switch region; other site 485916007140 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 485916007141 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916007142 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485916007143 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916007144 Walker A/P-loop; other site 485916007145 ATP binding site [chemical binding]; other site 485916007146 Q-loop/lid; other site 485916007147 ABC transporter signature motif; other site 485916007148 Walker B; other site 485916007149 D-loop; other site 485916007150 H-loop/switch region; other site 485916007151 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485916007152 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916007153 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916007154 Walker A/P-loop; other site 485916007155 ATP binding site [chemical binding]; other site 485916007156 Q-loop/lid; other site 485916007157 ABC transporter signature motif; other site 485916007158 Walker B; other site 485916007159 D-loop; other site 485916007160 H-loop/switch region; other site 485916007161 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 485916007162 Methyltransferase domain; Region: Methyltransf_23; pfam13489 485916007163 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 485916007164 S-adenosylmethionine binding site [chemical binding]; other site 485916007165 Carbonic anhydrase alpha (vertebrate-like) group. 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; cl00012 485916007166 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 485916007167 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 485916007168 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 485916007169 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 485916007170 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 485916007171 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 485916007172 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 485916007173 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 485916007174 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 485916007175 Walker A motif; other site 485916007176 ATP binding site [chemical binding]; other site 485916007177 Walker B motif; other site 485916007178 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 485916007179 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 485916007180 Walker A motif; other site 485916007181 ATP binding site [chemical binding]; other site 485916007182 Walker B motif; other site 485916007183 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 485916007184 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 485916007185 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 485916007186 NADH(P)-binding; Region: NAD_binding_10; pfam13460 485916007187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916007188 NAD(P) binding site [chemical binding]; other site 485916007189 Condensation domain; Region: Condensation; pfam00668 485916007190 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 485916007191 Nonribosomal peptide synthase; Region: NRPS; pfam08415 485916007192 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 485916007193 acyl-activating enzyme (AAE) consensus motif; other site 485916007194 AMP binding site [chemical binding]; other site 485916007195 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485916007196 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 485916007197 S-adenosylmethionine binding site [chemical binding]; other site 485916007198 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 485916007199 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 485916007200 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 485916007201 Condensation domain; Region: Condensation; pfam00668 485916007202 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 485916007203 Nonribosomal peptide synthase; Region: NRPS; pfam08415 485916007204 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 485916007205 acyl-activating enzyme (AAE) consensus motif; other site 485916007206 AMP binding site [chemical binding]; other site 485916007207 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 485916007208 Condensation domain; Region: Condensation; pfam00668 485916007209 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 485916007210 Nonribosomal peptide synthase; Region: NRPS; pfam08415 485916007211 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 485916007212 acyl-activating enzyme (AAE) consensus motif; other site 485916007213 AMP binding site [chemical binding]; other site 485916007214 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 485916007215 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 485916007216 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 485916007217 acyl-activating enzyme (AAE) consensus motif; other site 485916007218 active site 485916007219 AMP binding site [chemical binding]; other site 485916007220 substrate binding site [chemical binding]; other site 485916007221 salicylate synthase; Region: salicyl_syn; TIGR03494 485916007222 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 485916007223 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 485916007224 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 485916007225 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 485916007226 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 485916007227 dimer interface [polypeptide binding]; other site 485916007228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916007229 catalytic residue [active] 485916007230 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 485916007231 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 485916007232 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485916007233 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 485916007234 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 485916007235 putative active site [active] 485916007236 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 485916007237 putative active site [active] 485916007238 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 485916007239 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 485916007240 putative active site [active] 485916007241 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 485916007242 putative active site [active] 485916007243 Bacterial Ig-like domain; Region: Big_5; pfam13205 485916007244 S-layer homology domain; Region: SLH; pfam00395 485916007245 S-layer homology domain; Region: SLH; pfam00395 485916007246 S-layer homology domain; Region: SLH; pfam00395 485916007247 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916007248 AAA domain; Region: AAA_21; pfam13304 485916007249 Walker A/P-loop; other site 485916007250 ATP binding site [chemical binding]; other site 485916007251 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916007252 ABC transporter signature motif; other site 485916007253 Walker B; other site 485916007254 D-loop; other site 485916007255 H-loop/switch region; other site 485916007256 Protein of unknown function (DUF2408); Region: DUF2408; pfam10303 485916007257 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916007258 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916007259 Probable transposase; Region: OrfB_IS605; pfam01385 485916007260 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916007261 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 485916007262 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485916007263 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 485916007264 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 485916007265 active site residue [active] 485916007266 elongation factor P; Validated; Region: PRK00529 485916007267 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 485916007268 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 485916007269 RNA binding site [nucleotide binding]; other site 485916007270 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 485916007271 RNA binding site [nucleotide binding]; other site 485916007272 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 485916007273 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 485916007274 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 485916007275 active site 485916007276 Dehydroquinase class II; Region: DHquinase_II; pfam01220 485916007277 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 485916007278 trimer interface [polypeptide binding]; other site 485916007279 active site 485916007280 dimer interface [polypeptide binding]; other site 485916007281 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 485916007282 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 485916007283 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 485916007284 Pilus assembly protein, PilO; Region: PilO; cl01234 485916007285 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 485916007286 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 485916007287 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 485916007288 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 485916007289 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 485916007290 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 485916007291 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 485916007292 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 485916007293 Spore germination protein; Region: Spore_permease; cl17796 485916007294 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 485916007295 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 485916007296 trimerization site [polypeptide binding]; other site 485916007297 active site 485916007298 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 485916007299 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 485916007300 Rubredoxin; Region: Rubredoxin; pfam00301 485916007301 iron binding site [ion binding]; other site 485916007302 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 485916007303 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 485916007304 non-heme iron binding site [ion binding]; other site 485916007305 dimer interface [polypeptide binding]; other site 485916007306 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 485916007307 non-heme iron binding site [ion binding]; other site 485916007308 dimer interface [polypeptide binding]; other site 485916007309 Rubrerythrin [Energy production and conversion]; Region: COG1592 485916007310 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 485916007311 binuclear metal center [ion binding]; other site 485916007312 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 485916007313 iron binding site [ion binding]; other site 485916007314 Coat F domain; Region: Coat_F; pfam07875 485916007315 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 485916007316 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 485916007317 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 485916007318 Ligand Binding Site [chemical binding]; other site 485916007319 Family description; Region: VCBS; pfam13517 485916007320 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 485916007321 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916007322 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916007323 metal binding site [ion binding]; metal-binding site 485916007324 active site 485916007325 I-site; other site 485916007326 phosphoenolpyruvate synthase; Validated; Region: PRK06241 485916007327 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 485916007328 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 485916007329 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916007330 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916007331 active site 485916007332 phosphorylation site [posttranslational modification] 485916007333 intermolecular recognition site; other site 485916007334 dimerization interface [polypeptide binding]; other site 485916007335 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 485916007336 DNA binding site [nucleotide binding] 485916007337 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916007338 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 485916007339 dimerization interface [polypeptide binding]; other site 485916007340 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 485916007341 dimer interface [polypeptide binding]; other site 485916007342 phosphorylation site [posttranslational modification] 485916007343 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 485916007344 ATP binding site [chemical binding]; other site 485916007345 Mg2+ binding site [ion binding]; other site 485916007346 G-X-G motif; other site 485916007347 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916007348 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 485916007349 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916007350 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485916007351 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 485916007352 Walker A/P-loop; other site 485916007353 ATP binding site [chemical binding]; other site 485916007354 Q-loop/lid; other site 485916007355 ABC transporter signature motif; other site 485916007356 Walker B; other site 485916007357 D-loop; other site 485916007358 H-loop/switch region; other site 485916007359 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916007360 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485916007361 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916007362 Walker A/P-loop; other site 485916007363 ATP binding site [chemical binding]; other site 485916007364 Q-loop/lid; other site 485916007365 ABC transporter signature motif; other site 485916007366 Walker B; other site 485916007367 D-loop; other site 485916007368 H-loop/switch region; other site 485916007369 Transcriptional regulators [Transcription]; Region: MarR; COG1846 485916007370 MarR family; Region: MarR_2; pfam12802 485916007371 Chromate transporter; Region: Chromate_transp; pfam02417 485916007372 Transcriptional regulators [Transcription]; Region: GntR; COG1802 485916007373 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485916007374 DNA-binding site [nucleotide binding]; DNA binding site 485916007375 FCD domain; Region: FCD; pfam07729 485916007376 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 485916007377 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 485916007378 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 485916007379 active site 485916007380 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 485916007381 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 485916007382 putative NAD(P) binding site [chemical binding]; other site 485916007383 catalytic Zn binding site [ion binding]; other site 485916007384 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 485916007385 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 485916007386 putative active site; other site 485916007387 catalytic residue [active] 485916007388 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 485916007389 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916007390 dimer interface [polypeptide binding]; other site 485916007391 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 485916007392 putative CheW interface [polypeptide binding]; other site 485916007393 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 485916007394 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 485916007395 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 485916007396 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 485916007397 Walker A motif; other site 485916007398 ATP binding site [chemical binding]; other site 485916007399 Walker B motif; other site 485916007400 shikimate kinase; Provisional; Region: PRK13947 485916007401 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 485916007402 ADP binding site [chemical binding]; other site 485916007403 magnesium binding site [ion binding]; other site 485916007404 putative shikimate binding site; other site 485916007405 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 485916007406 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 485916007407 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 485916007408 shikimate binding site; other site 485916007409 NAD(P) binding site [chemical binding]; other site 485916007410 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 485916007411 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 485916007412 active site 485916007413 motif I; other site 485916007414 motif II; other site 485916007415 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 485916007416 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 485916007417 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485916007418 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 485916007419 ligand binding site [chemical binding]; other site 485916007420 flexible hinge region; other site 485916007421 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 485916007422 putative switch regulator; other site 485916007423 non-specific DNA interactions [nucleotide binding]; other site 485916007424 DNA binding site [nucleotide binding] 485916007425 sequence specific DNA binding site [nucleotide binding]; other site 485916007426 putative cAMP binding site [chemical binding]; other site 485916007427 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 485916007428 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 485916007429 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916007430 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 485916007431 Soluble P-type ATPase [General function prediction only]; Region: COG4087 485916007432 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 485916007433 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916007434 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916007435 Probable transposase; Region: OrfB_IS605; pfam01385 485916007436 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916007437 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485916007438 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916007439 active site 485916007440 phosphorylation site [posttranslational modification] 485916007441 intermolecular recognition site; other site 485916007442 dimerization interface [polypeptide binding]; other site 485916007443 LytTr DNA-binding domain; Region: LytTR; smart00850 485916007444 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 485916007445 ATP binding site [chemical binding]; other site 485916007446 Mg2+ binding site [ion binding]; other site 485916007447 G-X-G motif; other site 485916007448 DNA polymerase IV; Reviewed; Region: PRK03103 485916007449 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 485916007450 active site 485916007451 DNA binding site [nucleotide binding] 485916007452 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; cl00470 485916007453 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 485916007454 active site 485916007455 catalytic tetrad [active] 485916007456 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916007457 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485916007458 Isochorismatase family; Region: Isochorismatase; pfam00857 485916007459 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 485916007460 catalytic triad [active] 485916007461 conserved cis-peptide bond; other site 485916007462 drug efflux system protein MdtG; Provisional; Region: PRK09874 485916007463 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 485916007464 putative substrate translocation pore; other site 485916007465 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 485916007466 active site 485916007467 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 485916007468 active site 485916007469 ribulose/triose binding site [chemical binding]; other site 485916007470 phosphate binding site [ion binding]; other site 485916007471 substrate (anthranilate) binding pocket [chemical binding]; other site 485916007472 product (indole) binding pocket [chemical binding]; other site 485916007473 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 485916007474 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 485916007475 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 485916007476 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 485916007477 DNA binding residues [nucleotide binding] 485916007478 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 485916007479 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 485916007480 catalytic residues [active] 485916007481 catalytic nucleophile [active] 485916007482 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 485916007483 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 485916007484 Part of AAA domain; Region: AAA_19; pfam13245 485916007485 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 485916007486 AAA domain; Region: AAA_12; pfam13087 485916007487 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 485916007488 Transcriptional regulators [Transcription]; Region: MarR; COG1846 485916007489 MarR family; Region: MarR_2; pfam12802 485916007490 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 485916007491 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485916007492 ABC transporter; Region: ABC_tran_2; pfam12848 485916007493 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 485916007494 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916007495 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485916007496 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916007497 MarR family; Region: MarR; pfam01047 485916007498 sporulation sigma factor SigK; Reviewed; Region: PRK05803 485916007499 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916007500 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 485916007501 DNA binding residues [nucleotide binding] 485916007502 Isochorismatase family; Region: Isochorismatase; pfam00857 485916007503 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 485916007504 catalytic triad [active] 485916007505 conserved cis-peptide bond; other site 485916007506 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 485916007507 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 485916007508 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 485916007509 4Fe-4S binding domain; Region: Fer4; pfam00037 485916007510 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 485916007511 4Fe-4S binding domain; Region: Fer4; cl02805 485916007512 FOG: CBS domain [General function prediction only]; Region: COG0517 485916007513 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 485916007514 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 485916007515 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 485916007516 dimer interface [polypeptide binding]; other site 485916007517 decamer (pentamer of dimers) interface [polypeptide binding]; other site 485916007518 catalytic triad [active] 485916007519 peroxidatic and resolving cysteines [active] 485916007520 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 485916007521 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 485916007522 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 485916007523 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 485916007524 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 485916007525 Walker A/P-loop; other site 485916007526 ATP binding site [chemical binding]; other site 485916007527 Q-loop/lid; other site 485916007528 ABC transporter signature motif; other site 485916007529 Walker B; other site 485916007530 D-loop; other site 485916007531 H-loop/switch region; other site 485916007532 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485916007533 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 485916007534 HlyD family secretion protein; Region: HlyD_3; pfam13437 485916007535 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 485916007536 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 485916007537 manganese transport transcriptional regulator; Provisional; Region: PRK03902 485916007538 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 485916007539 Cache domain; Region: Cache_1; pfam02743 485916007540 HAMP domain; Region: HAMP; pfam00672 485916007541 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 485916007542 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 485916007543 putative active site [active] 485916007544 heme pocket [chemical binding]; other site 485916007545 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 485916007546 putative active site [active] 485916007547 heme pocket [chemical binding]; other site 485916007548 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485916007549 GAF domain; Region: GAF; pfam01590 485916007550 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485916007551 GAF domain; Region: GAF; pfam01590 485916007552 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485916007553 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 485916007554 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916007555 Zn2+ binding site [ion binding]; other site 485916007556 Mg2+ binding site [ion binding]; other site 485916007557 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 485916007558 Domain of unknown function (DUF4247); Region: DUF4247; pfam14042 485916007559 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 485916007560 putative active site pocket [active] 485916007561 dimerization interface [polypeptide binding]; other site 485916007562 putative catalytic residue [active] 485916007563 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 485916007564 S-adenosylmethionine binding site [chemical binding]; other site 485916007565 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 485916007566 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485916007567 putative substrate translocation pore; other site 485916007568 Transglycosylase; Region: Transgly; pfam00912 485916007569 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 485916007570 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 485916007571 Foamy virus envelope protein; Region: Foamy_virus_ENV; pfam03408 485916007572 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 485916007573 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 485916007574 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 485916007575 S-adenosylmethionine binding site [chemical binding]; other site 485916007576 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 485916007577 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 485916007578 Protein of unknown function (DUF3798); Region: DUF3798; pfam12683 485916007579 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 485916007580 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916007581 Walker A/P-loop; other site 485916007582 ATP binding site [chemical binding]; other site 485916007583 Q-loop/lid; other site 485916007584 ABC transporter signature motif; other site 485916007585 Walker B; other site 485916007586 D-loop; other site 485916007587 H-loop/switch region; other site 485916007588 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 485916007589 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 485916007590 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 485916007591 TM-ABC transporter signature motif; other site 485916007592 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 485916007593 TM-ABC transporter signature motif; other site 485916007594 Soluble P-type ATPase [General function prediction only]; Region: COG4087 485916007595 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 485916007596 Isochorismatase family; Region: Isochorismatase; pfam00857 485916007597 catalytic triad [active] 485916007598 conserved cis-peptide bond; other site 485916007599 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916007600 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916007601 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916007602 active site 485916007603 metal binding site [ion binding]; metal-binding site 485916007604 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 485916007605 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 485916007606 Probable Catalytic site; other site 485916007607 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 485916007608 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 485916007609 inhibitor-cofactor binding pocket; inhibition site 485916007610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916007611 catalytic residue [active] 485916007612 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 485916007613 metal-binding site 485916007614 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 485916007615 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916007616 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 485916007617 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 485916007618 NADP-binding site; other site 485916007619 homotetramer interface [polypeptide binding]; other site 485916007620 substrate binding site [chemical binding]; other site 485916007621 homodimer interface [polypeptide binding]; other site 485916007622 active site 485916007623 Methyltransferase domain; Region: Methyltransf_23; pfam13489 485916007624 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 485916007625 S-adenosylmethionine binding site [chemical binding]; other site 485916007626 Methyltransferase domain; Region: Methyltransf_23; pfam13489 485916007627 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 485916007628 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 485916007629 NADP binding site [chemical binding]; other site 485916007630 active site 485916007631 putative substrate binding site [chemical binding]; other site 485916007632 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 485916007633 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 485916007634 NADP-binding site; other site 485916007635 homotetramer interface [polypeptide binding]; other site 485916007636 substrate binding site [chemical binding]; other site 485916007637 homodimer interface [polypeptide binding]; other site 485916007638 active site 485916007639 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 485916007640 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cd12082 485916007641 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 485916007642 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 485916007643 Substrate binding site; other site 485916007644 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 485916007645 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 485916007646 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485916007647 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 485916007648 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 485916007649 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 485916007650 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 485916007651 active site 485916007652 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 485916007653 Right handed beta helix region; Region: Beta_helix; pfam13229 485916007654 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 485916007655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916007656 NAD(P) binding site [chemical binding]; other site 485916007657 active site 485916007658 Bacterial sugar transferase; Region: Bac_transf; pfam02397 485916007659 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 485916007660 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 485916007661 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916007662 putative ADP-binding pocket [chemical binding]; other site 485916007663 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 485916007664 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 485916007665 NAD binding site [chemical binding]; other site 485916007666 substrate binding site [chemical binding]; other site 485916007667 homodimer interface [polypeptide binding]; other site 485916007668 active site 485916007669 Chain length determinant protein; Region: Wzz; cl15801 485916007670 Bacterial SH3 domain homologues; Region: SH3b; smart00287 485916007671 Bacterial SH3 domain homologues; Region: SH3b; smart00287 485916007672 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 485916007673 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 485916007674 active site residue [active] 485916007675 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 485916007676 active site residue [active] 485916007677 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916007678 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 485916007679 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 485916007680 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 485916007681 substrate binding site; other site 485916007682 metal-binding site 485916007683 Oligomer interface; other site 485916007684 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 485916007685 putative trimer interface [polypeptide binding]; other site 485916007686 putative CoA binding site [chemical binding]; other site 485916007687 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916007688 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 485916007689 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 485916007690 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 485916007691 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 485916007692 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 485916007693 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 485916007694 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 485916007695 NAD(P) binding site [chemical binding]; other site 485916007696 homodimer interface [polypeptide binding]; other site 485916007697 substrate binding site [chemical binding]; other site 485916007698 active site 485916007699 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 485916007700 active site 485916007701 oxyanion hole [active] 485916007702 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 485916007703 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 485916007704 Family description; Region: VCBS; pfam13517 485916007705 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 485916007706 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 485916007707 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916007708 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916007709 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 485916007710 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 485916007711 protein-splicing catalytic site; other site 485916007712 thioester formation/cholesterol transfer; other site 485916007713 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 485916007714 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 485916007715 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485916007716 catalytic residue [active] 485916007717 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916007718 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485916007719 HlyD family secretion protein; Region: HlyD_3; pfam13437 485916007720 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485916007721 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 485916007722 FtsX-like permease family; Region: FtsX; pfam02687 485916007723 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485916007724 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 485916007725 Walker A/P-loop; other site 485916007726 ATP binding site [chemical binding]; other site 485916007727 Q-loop/lid; other site 485916007728 ABC transporter signature motif; other site 485916007729 Walker B; other site 485916007730 D-loop; other site 485916007731 H-loop/switch region; other site 485916007732 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 485916007733 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 485916007734 catalytic triad [active] 485916007735 Protein of unknown function DUF89; Region: DUF89; cl15397 485916007736 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 485916007737 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 485916007738 isocitrate dehydrogenase; Validated; Region: PRK08299 485916007739 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 485916007740 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916007741 Coenzyme A binding pocket [chemical binding]; other site 485916007742 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916007743 Probable transposase; Region: OrfB_IS605; pfam01385 485916007744 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916007745 Protein of unknown function (DUF456); Region: DUF456; pfam04306 485916007746 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 485916007747 Helix-turn-helix domain; Region: HTH_18; pfam12833 485916007748 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485916007749 Phage Tail Collar Domain; Region: Collar; pfam07484 485916007750 Phage Tail Collar Domain; Region: Collar; pfam07484 485916007751 Phage Tail Collar Domain; Region: Collar; pfam07484 485916007752 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 485916007753 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916007754 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916007755 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 485916007756 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 485916007757 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916007758 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485916007759 SynChlorMet cassette protein ScmC; Region: SCM_chp_ScmC; TIGR04249 485916007760 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 485916007761 Catalytic site [active] 485916007762 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 485916007763 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 485916007764 non-specific DNA binding site [nucleotide binding]; other site 485916007765 salt bridge; other site 485916007766 sequence-specific DNA binding site [nucleotide binding]; other site 485916007767 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 485916007768 Homeodomain-like domain; Region: HTH_23; pfam13384 485916007769 Winged helix-turn helix; Region: HTH_29; pfam13551 485916007770 Winged helix-turn helix; Region: HTH_33; pfam13592 485916007771 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916007772 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916007773 RHS Repeat; Region: RHS_repeat; cl11982 485916007774 RHS Repeat; Region: RHS_repeat; pfam05593 485916007775 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916007776 RHS Repeat; Region: RHS_repeat; pfam05593 485916007777 RHS Repeat; Region: RHS_repeat; pfam05593 485916007778 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 485916007779 RHS Repeat; Region: RHS_repeat; pfam05593 485916007780 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 485916007781 RHS Repeat; Region: RHS_repeat; pfam05593 485916007782 RHS Repeat; Region: RHS_repeat; pfam05593 485916007783 RHS Repeat; Region: RHS_repeat; pfam05593 485916007784 RHS Repeat; Region: RHS_repeat; pfam05593 485916007785 RHS Repeat; Region: RHS_repeat; pfam05593 485916007786 RHS Repeat; Region: RHS_repeat; pfam05593 485916007787 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916007788 PrcB C-terminal; Region: PrcB_C; pfam14343 485916007789 Homeodomain-like domain; Region: HTH_23; pfam13384 485916007790 Winged helix-turn helix; Region: HTH_29; pfam13551 485916007791 Winged helix-turn helix; Region: HTH_33; pfam13592 485916007792 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916007793 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916007794 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 485916007795 dimerization interface [polypeptide binding]; other site 485916007796 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 485916007797 dimer interface [polypeptide binding]; other site 485916007798 phosphorylation site [posttranslational modification] 485916007799 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 485916007800 ATP binding site [chemical binding]; other site 485916007801 Mg2+ binding site [ion binding]; other site 485916007802 G-X-G motif; other site 485916007803 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916007804 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916007805 active site 485916007806 phosphorylation site [posttranslational modification] 485916007807 intermolecular recognition site; other site 485916007808 dimerization interface [polypeptide binding]; other site 485916007809 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 485916007810 DNA binding site [nucleotide binding] 485916007811 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 485916007812 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 485916007813 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 485916007814 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485916007815 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 485916007816 FtsX-like permease family; Region: FtsX; pfam02687 485916007817 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485916007818 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 485916007819 Walker A/P-loop; other site 485916007820 ATP binding site [chemical binding]; other site 485916007821 Q-loop/lid; other site 485916007822 ABC transporter signature motif; other site 485916007823 Walker B; other site 485916007824 D-loop; other site 485916007825 H-loop/switch region; other site 485916007826 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916007827 HlyD family secretion protein; Region: HlyD_3; pfam13437 485916007828 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 485916007829 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 485916007830 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 485916007831 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485916007832 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 485916007833 ligand binding site [chemical binding]; other site 485916007834 flexible hinge region; other site 485916007835 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 485916007836 putative switch regulator; other site 485916007837 non-specific DNA interactions [nucleotide binding]; other site 485916007838 DNA binding site [nucleotide binding] 485916007839 sequence specific DNA binding site [nucleotide binding]; other site 485916007840 putative cAMP binding site [chemical binding]; other site 485916007841 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 485916007842 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916007843 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485916007844 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 485916007845 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 485916007846 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 485916007847 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 485916007848 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 485916007849 FeS/SAM binding site; other site 485916007850 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 485916007851 Rrf2 family protein; Region: rrf2_super; TIGR00738 485916007852 Transcriptional regulator; Region: Rrf2; pfam02082 485916007853 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 485916007854 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 485916007855 ACS interaction site; other site 485916007856 CODH interaction site; other site 485916007857 metal cluster binding site [ion binding]; other site 485916007858 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 485916007859 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 485916007860 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 485916007861 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485916007862 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 485916007863 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 485916007864 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 485916007865 Walker A motif; other site 485916007866 ATP binding site [chemical binding]; other site 485916007867 Walker B motif; other site 485916007868 arginine finger; other site 485916007869 oligosaccharide amylase; Region: oligosac_amyl; TIGR01577 485916007870 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 485916007871 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 485916007872 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 485916007873 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 485916007874 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 485916007875 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 485916007876 substrate binding pocket [chemical binding]; other site 485916007877 dimer interface [polypeptide binding]; other site 485916007878 inhibitor binding site; inhibition site 485916007879 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 485916007880 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 485916007881 B12 binding site [chemical binding]; other site 485916007882 cobalt ligand [ion binding]; other site 485916007883 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916007884 Uncharacterized conserved protein [Function unknown]; Region: COG0398 485916007885 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 485916007886 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 485916007887 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 485916007888 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 485916007889 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485916007890 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 485916007891 Spore germination protein; Region: Spore_permease; cl17796 485916007892 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 485916007893 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 485916007894 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 485916007895 MPT binding site; other site 485916007896 trimer interface [polypeptide binding]; other site 485916007897 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 485916007898 trimer interface [polypeptide binding]; other site 485916007899 dimer interface [polypeptide binding]; other site 485916007900 putative active site [active] 485916007901 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 485916007902 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 485916007903 FeS/SAM binding site; other site 485916007904 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 485916007905 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485916007906 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916007907 active site 485916007908 phosphorylation site [posttranslational modification] 485916007909 intermolecular recognition site; other site 485916007910 dimerization interface [polypeptide binding]; other site 485916007911 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 485916007912 Walker A motif; other site 485916007913 ATP binding site [chemical binding]; other site 485916007914 Walker B motif; other site 485916007915 arginine finger; other site 485916007916 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 485916007917 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485916007918 GAF domain; Region: GAF_3; pfam13492 485916007919 PAS fold; Region: PAS_4; pfam08448 485916007920 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 485916007921 dimer interface [polypeptide binding]; other site 485916007922 phosphorylation site [posttranslational modification] 485916007923 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 485916007924 ATP binding site [chemical binding]; other site 485916007925 Mg2+ binding site [ion binding]; other site 485916007926 G-X-G motif; other site 485916007927 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 485916007928 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 485916007929 putative active site [active] 485916007930 metal binding site [ion binding]; metal-binding site 485916007931 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 485916007932 putative alcohol dehydrogenase; Provisional; Region: PRK09860 485916007933 dimer interface [polypeptide binding]; other site 485916007934 active site 485916007935 metal binding site [ion binding]; metal-binding site 485916007936 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 485916007937 DNA-binding site [nucleotide binding]; DNA binding site 485916007938 RNA-binding motif; other site 485916007939 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916007940 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485916007941 NlpC/P60 family; Region: NLPC_P60; pfam00877 485916007942 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916007943 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 485916007944 catalytic residues [active] 485916007945 catalytic nucleophile [active] 485916007946 Recombinase; Region: Recombinase; pfam07508 485916007947 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 485916007948 Predicted ATPase [General function prediction only]; Region: COG4637 485916007949 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916007950 Walker A/P-loop; other site 485916007951 ATP binding site [chemical binding]; other site 485916007952 CRISPR-associated protein (Cas_Cas02710); Region: Cas_Cas02710; pfam09670 485916007953 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 485916007954 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 485916007955 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 485916007956 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 485916007957 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 485916007958 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 485916007959 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cl01317 485916007960 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440 485916007961 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 485916007962 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 485916007963 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 485916007964 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 485916007965 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 485916007966 CRISPR-associated (Cas) DxTHG family; Region: Cas_DxTHG; pfam09455 485916007967 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09732 485916007968 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 485916007969 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cl01317 485916007970 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 485916007971 Predicted transcriptional regulator [Transcription]; Region: COG2378 485916007972 WYL domain; Region: WYL; pfam13280 485916007973 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 485916007974 WYL domain; Region: WYL; pfam13280 485916007975 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 485916007976 putative active site [active] 485916007977 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916007978 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916007979 putative metal binding site [ion binding]; other site 485916007980 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 485916007981 substrate binding site [chemical binding]; other site 485916007982 activation loop (A-loop); other site 485916007983 Protein phosphatase 2C; Region: PP2C_2; pfam13672 485916007984 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 485916007985 metal ion-dependent adhesion site (MIDAS); other site 485916007986 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916007987 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916007988 putative metal binding site [ion binding]; other site 485916007989 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 485916007990 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916007991 putative metal binding site [ion binding]; other site 485916007992 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916007993 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916007994 putative metal binding site [ion binding]; other site 485916007995 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 485916007996 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 485916007997 FeS/SAM binding site; other site 485916007998 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 485916007999 Peptidase family M48; Region: Peptidase_M48; cl12018 485916008000 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916008001 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916008002 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 485916008003 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 485916008004 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 485916008005 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 485916008006 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 485916008007 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 485916008008 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 485916008009 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 485916008010 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 485916008011 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 485916008012 Response regulator receiver domain; Region: Response_reg; pfam00072 485916008013 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916008014 active site 485916008015 phosphorylation site [posttranslational modification] 485916008016 intermolecular recognition site; other site 485916008017 dimerization interface [polypeptide binding]; other site 485916008018 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 485916008019 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 485916008020 putative active site [active] 485916008021 heme pocket [chemical binding]; other site 485916008022 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 485916008023 dimer interface [polypeptide binding]; other site 485916008024 phosphorylation site [posttranslational modification] 485916008025 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 485916008026 ATP binding site [chemical binding]; other site 485916008027 Mg2+ binding site [ion binding]; other site 485916008028 G-X-G motif; other site 485916008029 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 485916008030 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 485916008031 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 485916008032 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 485916008033 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 485916008034 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 485916008035 dimer interface [polypeptide binding]; other site 485916008036 phosphorylation site [posttranslational modification] 485916008037 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 485916008038 ATP binding site [chemical binding]; other site 485916008039 Mg2+ binding site [ion binding]; other site 485916008040 G-X-G motif; other site 485916008041 Response regulator receiver domain; Region: Response_reg; pfam00072 485916008042 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916008043 active site 485916008044 phosphorylation site [posttranslational modification] 485916008045 intermolecular recognition site; other site 485916008046 dimerization interface [polypeptide binding]; other site 485916008047 CotJB protein; Region: CotJB; pfam12652 485916008048 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 485916008049 Fic/DOC family; Region: Fic; cl00960 485916008050 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 485916008051 tetramer interfaces [polypeptide binding]; other site 485916008052 binuclear metal-binding site [ion binding]; other site 485916008053 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 485916008054 bacterial Hfq-like; Region: Hfq; cd01716 485916008055 hexamer interface [polypeptide binding]; other site 485916008056 Sm1 motif; other site 485916008057 RNA binding site [nucleotide binding]; other site 485916008058 Sm2 motif; other site 485916008059 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916008060 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 485916008061 non-specific DNA binding site [nucleotide binding]; other site 485916008062 salt bridge; other site 485916008063 sequence-specific DNA binding site [nucleotide binding]; other site 485916008064 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 485916008065 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 485916008066 Cell division protein 48 (CDC48) domain 2; Region: CDC48_2; smart01072 485916008067 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 485916008068 Walker A motif; other site 485916008069 ATP binding site [chemical binding]; other site 485916008070 Walker B motif; other site 485916008071 arginine finger; other site 485916008072 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 485916008073 Walker A motif; other site 485916008074 ATP binding site [chemical binding]; other site 485916008075 Walker B motif; other site 485916008076 arginine finger; other site 485916008077 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 485916008078 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 485916008079 putative dimer interface [polypeptide binding]; other site 485916008080 Gas vesicle protein; Region: Gas_vesicle; cl02954 485916008081 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 485916008082 Gas vesicle protein K; Region: GvpK; pfam05121 485916008083 Gas vesicle protein; Region: Gas_vesicle; pfam00741 485916008084 Gas vesicle protein G; Region: GvpG; pfam05120 485916008085 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 485916008086 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 485916008087 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 485916008088 HSP70 interaction site [polypeptide binding]; other site 485916008089 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 485916008090 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 485916008091 Walker A motif; other site 485916008092 ATP binding site [chemical binding]; other site 485916008093 Walker B motif; other site 485916008094 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 485916008095 Putative zinc ribbon domain; Region: DUF164; pfam02591 485916008096 Uncharacterized conserved protein [Function unknown]; Region: COG0327 485916008097 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 485916008098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 485916008099 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 485916008100 Uncharacterized conserved protein [Function unknown]; Region: COG0327 485916008101 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 485916008102 Family of unknown function (DUF633); Region: DUF633; pfam04816 485916008103 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 485916008104 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 485916008105 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 485916008106 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916008107 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 485916008108 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 485916008109 DNA binding residues [nucleotide binding] 485916008110 DNA primase, catalytic core; Region: dnaG; TIGR01391 485916008111 CHC2 zinc finger; Region: zf-CHC2; pfam01807 485916008112 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 485916008113 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 485916008114 active site 485916008115 metal binding site [ion binding]; metal-binding site 485916008116 interdomain interaction site; other site 485916008117 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 485916008118 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916008119 Zn2+ binding site [ion binding]; other site 485916008120 Mg2+ binding site [ion binding]; other site 485916008121 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 485916008122 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 485916008123 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 485916008124 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 485916008125 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 485916008126 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 485916008127 Protein of unknown function (DUF1462); Region: DUF1462; cl11552 485916008128 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 485916008129 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 485916008130 pyruvate phosphate dikinase; Provisional; Region: PRK09279 485916008131 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 485916008132 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 485916008133 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 485916008134 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 485916008135 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 485916008136 HTH domain; Region: HTH_11; pfam08279 485916008137 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_4; cd04617 485916008138 FOG: CBS domain [General function prediction only]; Region: COG0517 485916008139 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 485916008140 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 485916008141 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 485916008142 dimer interface [polypeptide binding]; other site 485916008143 motif 1; other site 485916008144 active site 485916008145 motif 2; other site 485916008146 motif 3; other site 485916008147 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 485916008148 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 485916008149 active site 485916008150 metal binding site [ion binding]; metal-binding site 485916008151 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 485916008152 putative active site [active] 485916008153 putative metal binding site [ion binding]; other site 485916008154 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916008155 MarR family; Region: MarR; pfam01047 485916008156 Putative Fe-S cluster; Region: FeS; cl17515 485916008157 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916008158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916008159 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 485916008160 dimerization interface [polypeptide binding]; other site 485916008161 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 485916008162 dimer interface [polypeptide binding]; other site 485916008163 phosphorylation site [posttranslational modification] 485916008164 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 485916008165 ATP binding site [chemical binding]; other site 485916008166 Mg2+ binding site [ion binding]; other site 485916008167 G-X-G motif; other site 485916008168 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916008169 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916008170 active site 485916008171 phosphorylation site [posttranslational modification] 485916008172 intermolecular recognition site; other site 485916008173 dimerization interface [polypeptide binding]; other site 485916008174 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 485916008175 DNA binding site [nucleotide binding] 485916008176 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 485916008177 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 485916008178 phosphoenolpyruvate synthase; Validated; Region: PRK06241 485916008179 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 485916008180 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 485916008181 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916008182 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485916008183 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 485916008184 Transcriptional regulator [Transcription]; Region: LysR; COG0583 485916008185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 485916008186 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 485916008187 dimerization interface [polypeptide binding]; other site 485916008188 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 485916008189 putative active site [active] 485916008190 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 485916008191 Recombination protein O N terminal; Region: RecO_N; pfam11967 485916008192 Recombination protein O C terminal; Region: RecO_C; pfam02565 485916008193 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 485916008194 Flavoprotein; Region: Flavoprotein; pfam02441 485916008195 Probable zinc-binding domain; Region: zf-trcl; pfam13451 485916008196 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 485916008197 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 485916008198 trimer interface [polypeptide binding]; other site 485916008199 putative Zn binding site [ion binding]; other site 485916008200 GTPase Era; Reviewed; Region: era; PRK00089 485916008201 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 485916008202 G1 box; other site 485916008203 GTP/Mg2+ binding site [chemical binding]; other site 485916008204 Switch I region; other site 485916008205 G2 box; other site 485916008206 Switch II region; other site 485916008207 G3 box; other site 485916008208 G4 box; other site 485916008209 G5 box; other site 485916008210 KH domain; Region: KH_2; pfam07650 485916008211 G-X-X-G motif; other site 485916008212 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 485916008213 active site 485916008214 catalytic motif [active] 485916008215 Zn binding site [ion binding]; other site 485916008216 metal-binding heat shock protein; Provisional; Region: PRK00016 485916008217 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 485916008218 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 485916008219 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916008220 Zn2+ binding site [ion binding]; other site 485916008221 Mg2+ binding site [ion binding]; other site 485916008222 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 485916008223 PhoH-like protein; Region: PhoH; pfam02562 485916008224 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 485916008225 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 485916008226 YabP family; Region: YabP; cl06766 485916008227 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 485916008228 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 485916008229 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 485916008230 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485916008231 catalytic residue [active] 485916008232 selenophosphate synthetase; Provisional; Region: PRK00943 485916008233 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 485916008234 dimerization interface [polypeptide binding]; other site 485916008235 putative ATP binding site [chemical binding]; other site 485916008236 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 485916008237 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 485916008238 CPxP motif; other site 485916008239 DsrE/DsrF-like family; Region: DrsE; pfam02635 485916008240 Accessory gene regulator B; Region: AgrB; pfam04647 485916008241 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 485916008242 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 485916008243 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 485916008244 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 485916008245 putative active site [active] 485916008246 heme pocket [chemical binding]; other site 485916008247 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 485916008248 dimer interface [polypeptide binding]; other site 485916008249 phosphorylation site [posttranslational modification] 485916008250 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 485916008251 ATP binding site [chemical binding]; other site 485916008252 Mg2+ binding site [ion binding]; other site 485916008253 G-X-G motif; other site 485916008254 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916008255 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916008256 metal binding site [ion binding]; metal-binding site 485916008257 active site 485916008258 I-site; other site 485916008259 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 485916008260 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916008261 Zn2+ binding site [ion binding]; other site 485916008262 Mg2+ binding site [ion binding]; other site 485916008263 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 485916008264 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 485916008265 dimerization interface [polypeptide binding]; other site 485916008266 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 485916008267 dimer interface [polypeptide binding]; other site 485916008268 phosphorylation site [posttranslational modification] 485916008269 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 485916008270 ATP binding site [chemical binding]; other site 485916008271 Mg2+ binding site [ion binding]; other site 485916008272 G-X-G motif; other site 485916008273 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916008274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916008275 active site 485916008276 phosphorylation site [posttranslational modification] 485916008277 intermolecular recognition site; other site 485916008278 dimerization interface [polypeptide binding]; other site 485916008279 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 485916008280 DNA binding site [nucleotide binding] 485916008281 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 485916008282 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 485916008283 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 485916008284 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 485916008285 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 485916008286 active site 485916008287 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 485916008288 catalytic core [active] 485916008289 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 485916008290 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 485916008291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916008292 homodimer interface [polypeptide binding]; other site 485916008293 catalytic residue [active] 485916008294 cobalamin synthase; Reviewed; Region: cobS; PRK00235 485916008295 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 485916008296 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 485916008297 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 485916008298 catalytic triad [active] 485916008299 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 485916008300 cobyric acid synthase; Provisional; Region: PRK00784 485916008301 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 485916008302 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 485916008303 catalytic triad [active] 485916008304 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 485916008305 homotrimer interface [polypeptide binding]; other site 485916008306 Walker A motif; other site 485916008307 GTP binding site [chemical binding]; other site 485916008308 Walker B motif; other site 485916008309 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 485916008310 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 485916008311 active site 485916008312 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 485916008313 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 485916008314 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 485916008315 active site 485916008316 dimer interface [polypeptide binding]; other site 485916008317 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 485916008318 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 485916008319 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916008320 putative active site [active] 485916008321 metal binding site [ion binding]; metal-binding site 485916008322 homodimer binding site [polypeptide binding]; other site 485916008323 phosphodiesterase; Provisional; Region: PRK12704 485916008324 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916008325 Zn2+ binding site [ion binding]; other site 485916008326 Mg2+ binding site [ion binding]; other site 485916008327 recombination regulator RecX; Reviewed; Region: recX; PRK00117 485916008328 recombinase A; Provisional; Region: recA; PRK09354 485916008329 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 485916008330 hexamer interface [polypeptide binding]; other site 485916008331 Walker A motif; other site 485916008332 ATP binding site [chemical binding]; other site 485916008333 Walker B motif; other site 485916008334 helicase 45; Provisional; Region: PTZ00424 485916008335 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 485916008336 ATP binding site [chemical binding]; other site 485916008337 Mg++ binding site [ion binding]; other site 485916008338 motif III; other site 485916008339 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 485916008340 nucleotide binding region [chemical binding]; other site 485916008341 ATP-binding site [chemical binding]; other site 485916008342 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 485916008343 RNA binding site [nucleotide binding]; other site 485916008344 competence damage-inducible protein A; Provisional; Region: PRK00549 485916008345 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 485916008346 putative MPT binding site; other site 485916008347 Competence-damaged protein; Region: CinA; pfam02464 485916008348 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 485916008349 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 485916008350 Walker A motif; other site 485916008351 ATP binding site [chemical binding]; other site 485916008352 Walker B motif; other site 485916008353 arginine finger; other site 485916008354 Peptidase family M41; Region: Peptidase_M41; pfam01434 485916008355 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 485916008356 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 485916008357 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 485916008358 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 485916008359 FeS/SAM binding site; other site 485916008360 TRAM domain; Region: TRAM; cl01282 485916008361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 485916008362 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 485916008363 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 485916008364 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 485916008365 non-specific DNA binding site [nucleotide binding]; other site 485916008366 salt bridge; other site 485916008367 sequence-specific DNA binding site [nucleotide binding]; other site 485916008368 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 485916008369 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 485916008370 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 485916008371 active site residue [active] 485916008372 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 485916008373 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 485916008374 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 485916008375 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 485916008376 Bacitracin resistance protein BacA; Region: BacA; pfam02673 485916008377 YlzJ-like protein; Region: YlzJ; pfam14035 485916008378 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 485916008379 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 485916008380 transmembrane helices; other site 485916008381 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 485916008382 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 485916008383 transmembrane helices; other site 485916008384 Methyltransferase domain; Region: Methyltransf_23; pfam13489 485916008385 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 485916008386 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 485916008387 active site 485916008388 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 485916008389 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 485916008390 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 485916008391 active site 485916008392 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 485916008393 TPR motif; other site 485916008394 binding surface 485916008395 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 485916008396 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 485916008397 active site 485916008398 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 485916008399 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 485916008400 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 485916008401 B12 binding site [chemical binding]; other site 485916008402 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 485916008403 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 485916008404 FeS/SAM binding site; other site 485916008405 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 485916008406 salt bridge; other site 485916008407 non-specific DNA binding site [nucleotide binding]; other site 485916008408 sequence-specific DNA binding site [nucleotide binding]; other site 485916008409 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 485916008410 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; cl00399 485916008411 active site residues [active] 485916008412 maltose O-acetyltransferase; Provisional; Region: PRK10092 485916008413 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 485916008414 active site 485916008415 substrate binding site [chemical binding]; other site 485916008416 trimer interface [polypeptide binding]; other site 485916008417 CoA binding site [chemical binding]; other site 485916008418 HD domain; Region: HD; pfam01966 485916008419 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 485916008420 H+ Antiporter protein; Region: 2A0121; TIGR00900 485916008421 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 485916008422 putative substrate translocation pore; other site 485916008423 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 485916008424 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 485916008425 active site 485916008426 homodimer interface [polypeptide binding]; other site 485916008427 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916008428 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 485916008429 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 485916008430 Cl binding site [ion binding]; other site 485916008431 oligomer interface [polypeptide binding]; other site 485916008432 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916008433 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916008434 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 485916008435 catalytic residues [active] 485916008436 catalytic nucleophile [active] 485916008437 Recombinase; Region: Recombinase; pfam07508 485916008438 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916008439 Maff2 family; Region: Maff2; pfam12750 485916008440 Predicted ATPase [General function prediction only]; Region: COG5293 485916008441 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 485916008442 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 485916008443 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 485916008444 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 485916008445 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 485916008446 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 485916008447 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 485916008448 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 485916008449 active site 485916008450 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 485916008451 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 485916008452 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 485916008453 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 485916008454 dihydrodipicolinate synthase; Region: dapA; TIGR00674 485916008455 dimer interface [polypeptide binding]; other site 485916008456 active site 485916008457 catalytic residue [active] 485916008458 aspartate kinase I; Reviewed; Region: PRK08210 485916008459 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 485916008460 nucleotide binding site [chemical binding]; other site 485916008461 substrate binding site [chemical binding]; other site 485916008462 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 485916008463 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 485916008464 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 485916008465 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 485916008466 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 485916008467 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 485916008468 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; cl17747 485916008469 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 485916008470 dihydrodipicolinate reductase; Provisional; Region: PRK00048 485916008471 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 485916008472 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 485916008473 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 485916008474 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 485916008475 putative dimer interface [polypeptide binding]; other site 485916008476 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 485916008477 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 485916008478 active site 485916008479 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 485916008480 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 485916008481 putative dimer interface [polypeptide binding]; other site 485916008482 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 485916008483 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 485916008484 trimer interface [polypeptide binding]; other site 485916008485 active site 485916008486 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485916008487 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 485916008488 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485916008489 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 485916008490 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 485916008491 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 485916008492 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 485916008493 NodB motif; other site 485916008494 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 485916008495 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 485916008496 RNase E interface [polypeptide binding]; other site 485916008497 trimer interface [polypeptide binding]; other site 485916008498 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 485916008499 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 485916008500 RNase E interface [polypeptide binding]; other site 485916008501 trimer interface [polypeptide binding]; other site 485916008502 active site 485916008503 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 485916008504 putative nucleic acid binding region [nucleotide binding]; other site 485916008505 G-X-X-G motif; other site 485916008506 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 485916008507 RNA binding site [nucleotide binding]; other site 485916008508 domain interface; other site 485916008509 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 485916008510 16S/18S rRNA binding site [nucleotide binding]; other site 485916008511 S13e-L30e interaction site [polypeptide binding]; other site 485916008512 25S rRNA binding site [nucleotide binding]; other site 485916008513 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 485916008514 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 485916008515 active site 485916008516 Riboflavin kinase; Region: Flavokinase; pfam01687 485916008517 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 485916008518 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 485916008519 RNA binding site [nucleotide binding]; other site 485916008520 active site 485916008521 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 485916008522 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 485916008523 DHH family; Region: DHH; pfam01368 485916008524 DHHA1 domain; Region: DHHA1; pfam02272 485916008525 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 485916008526 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 485916008527 translation initiation factor IF-2; Region: IF-2; TIGR00487 485916008528 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 485916008529 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 485916008530 G1 box; other site 485916008531 putative GEF interaction site [polypeptide binding]; other site 485916008532 GTP/Mg2+ binding site [chemical binding]; other site 485916008533 Switch I region; other site 485916008534 G2 box; other site 485916008535 G3 box; other site 485916008536 Switch II region; other site 485916008537 G4 box; other site 485916008538 G5 box; other site 485916008539 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 485916008540 Translation-initiation factor 2; Region: IF-2; pfam11987 485916008541 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 485916008542 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 485916008543 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 485916008544 putative RNA binding cleft [nucleotide binding]; other site 485916008545 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 485916008546 NusA N-terminal domain; Region: NusA_N; pfam08529 485916008547 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 485916008548 RNA binding site [nucleotide binding]; other site 485916008549 homodimer interface [polypeptide binding]; other site 485916008550 NusA-like KH domain; Region: KH_5; pfam13184 485916008551 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 485916008552 G-X-X-G motif; other site 485916008553 Sm and related proteins; Region: Sm_like; cl00259 485916008554 ribosome maturation protein RimP; Reviewed; Region: PRK00092 485916008555 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 485916008556 putative oligomer interface [polypeptide binding]; other site 485916008557 putative RNA binding site [nucleotide binding]; other site 485916008558 Transposase domain (DUF772); Region: DUF772; pfam05598 485916008559 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 485916008560 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 485916008561 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 485916008562 FeS/SAM binding site; other site 485916008563 CGGC domain; Region: CGGC; cl02356 485916008564 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 485916008565 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 485916008566 ATP binding site [chemical binding]; other site 485916008567 Mg2+ binding site [ion binding]; other site 485916008568 G-X-G motif; other site 485916008569 Accessory gene regulator B; Region: AgrB; pfam04647 485916008570 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485916008571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916008572 active site 485916008573 phosphorylation site [posttranslational modification] 485916008574 intermolecular recognition site; other site 485916008575 dimerization interface [polypeptide binding]; other site 485916008576 LytTr DNA-binding domain; Region: LytTR; pfam04397 485916008577 prolyl-tRNA synthetase; Provisional; Region: PRK09194 485916008578 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 485916008579 dimer interface [polypeptide binding]; other site 485916008580 motif 1; other site 485916008581 active site 485916008582 motif 2; other site 485916008583 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 485916008584 putative deacylase active site [active] 485916008585 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 485916008586 active site 485916008587 motif 3; other site 485916008588 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 485916008589 anticodon binding site; other site 485916008590 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 485916008591 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 485916008592 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 485916008593 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 485916008594 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 485916008595 active site 485916008596 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 485916008597 protein binding site [polypeptide binding]; other site 485916008598 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 485916008599 putative substrate binding region [chemical binding]; other site 485916008600 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 485916008601 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 485916008602 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 485916008603 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 485916008604 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 485916008605 Domain of unknown function DUF20; Region: UPF0118; pfam01594 485916008606 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 485916008607 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 485916008608 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 485916008609 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 485916008610 catalytic residue [active] 485916008611 putative FPP diphosphate binding site; other site 485916008612 putative FPP binding hydrophobic cleft; other site 485916008613 dimer interface [polypeptide binding]; other site 485916008614 putative IPP diphosphate binding site; other site 485916008615 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916008616 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 485916008617 ribosome recycling factor; Reviewed; Region: frr; PRK00083 485916008618 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 485916008619 hinge region; other site 485916008620 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 485916008621 putative nucleotide binding site [chemical binding]; other site 485916008622 uridine monophosphate binding site [chemical binding]; other site 485916008623 homohexameric interface [polypeptide binding]; other site 485916008624 elongation factor Ts; Reviewed; Region: tsf; PRK12332 485916008625 UBA/TS-N domain; Region: UBA; pfam00627 485916008626 Elongation factor TS; Region: EF_TS; pfam00889 485916008627 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 485916008628 rRNA interaction site [nucleotide binding]; other site 485916008629 S8 interaction site; other site 485916008630 putative laminin-1 binding site; other site 485916008631 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 485916008632 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 485916008633 nucleotide binding site/active site [active] 485916008634 HIT family signature motif; other site 485916008635 catalytic residue [active] 485916008636 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 485916008637 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 485916008638 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 485916008639 FeS/SAM binding site; other site 485916008640 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 485916008641 RNA methyltransferase, RsmE family; Region: TIGR00046 485916008642 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 485916008643 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 485916008644 S-adenosylmethionine binding site [chemical binding]; other site 485916008645 chaperone protein DnaJ; Provisional; Region: PRK10767 485916008646 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 485916008647 HSP70 interaction site [polypeptide binding]; other site 485916008648 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 485916008649 substrate binding site [polypeptide binding]; other site 485916008650 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 485916008651 Zn binding sites [ion binding]; other site 485916008652 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 485916008653 dimer interface [polypeptide binding]; other site 485916008654 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 485916008655 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 485916008656 nucleotide binding site [chemical binding]; other site 485916008657 NEF interaction site [polypeptide binding]; other site 485916008658 SBD interface [polypeptide binding]; other site 485916008659 GrpE; Region: GrpE; pfam01025 485916008660 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 485916008661 dimer interface [polypeptide binding]; other site 485916008662 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 485916008663 thermosome, various subunits, archaeal; Region: thermosome_arch; TIGR02339 485916008664 chaperonin families, type I and type II. 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...; Region: chaperonin_type_I_II; cd00309 485916008665 ATP/Mg binding site [chemical binding]; other site 485916008666 ring oligomerisation interface [polypeptide binding]; other site 485916008667 hinge regions; other site 485916008668 stacking interactions; other site 485916008669 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 485916008670 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 485916008671 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 485916008672 HemN C-terminal domain; Region: HemN_C; pfam06969 485916008673 GTP-binding protein LepA; Provisional; Region: PRK05433 485916008674 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 485916008675 G1 box; other site 485916008676 putative GEF interaction site [polypeptide binding]; other site 485916008677 GTP/Mg2+ binding site [chemical binding]; other site 485916008678 Switch I region; other site 485916008679 G2 box; other site 485916008680 G3 box; other site 485916008681 Switch II region; other site 485916008682 G4 box; other site 485916008683 G5 box; other site 485916008684 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 485916008685 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 485916008686 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 485916008687 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 485916008688 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 485916008689 stage II sporulation protein P; Region: spore_II_P; TIGR02867 485916008690 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916008691 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 485916008692 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916008693 Zn2+ binding site [ion binding]; other site 485916008694 Mg2+ binding site [ion binding]; other site 485916008695 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 485916008696 PRC-barrel domain; Region: PRC; pfam05239 485916008697 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 485916008698 VanW like protein; Region: VanW; pfam04294 485916008699 G5 domain; Region: G5; pfam07501 485916008700 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 485916008701 TrkA-C domain; Region: TrkA_C; pfam02080 485916008702 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 485916008703 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 485916008704 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 485916008705 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 485916008706 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 485916008707 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 485916008708 Walker A motif; other site 485916008709 ATP binding site [chemical binding]; other site 485916008710 Walker B motif; other site 485916008711 PilX N-terminal; Region: PilX_N; pfam14341 485916008712 Secretin and TonB N terminus short domain; Region: STN; pfam07660 485916008713 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 485916008714 Pilus assembly protein, PilO; Region: PilO; cl01234 485916008715 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 485916008716 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 485916008717 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916008718 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 485916008719 DNA binding residues [nucleotide binding] 485916008720 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 485916008721 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 485916008722 CLN3 protein; Region: CLN3; pfam02487 485916008723 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 485916008724 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 485916008725 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916008726 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 485916008727 Walker A motif; other site 485916008728 Walker A/P-loop; other site 485916008729 ATP binding site [chemical binding]; other site 485916008730 ATP binding site [chemical binding]; other site 485916008731 Walker B motif; other site 485916008732 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 485916008733 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 485916008734 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 485916008735 Walker A motif; other site 485916008736 ATP binding site [chemical binding]; other site 485916008737 Walker B motif; other site 485916008738 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 485916008739 Fic/DOC family; Region: Fic; pfam02661 485916008740 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916008741 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 485916008742 non-specific DNA binding site [nucleotide binding]; other site 485916008743 salt bridge; other site 485916008744 sequence-specific DNA binding site [nucleotide binding]; other site 485916008745 HIRAN domain; Region: HIRAN; pfam08797 485916008746 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 485916008747 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 485916008748 dimerization interface [polypeptide binding]; other site 485916008749 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916008750 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916008751 dimer interface [polypeptide binding]; other site 485916008752 putative CheW interface [polypeptide binding]; other site 485916008753 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 485916008754 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 485916008755 Domain of unknown function DUF77; Region: DUF77; pfam01910 485916008756 S-layer homology domain; Region: SLH; pfam00395 485916008757 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 485916008758 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 485916008759 Chain length determinant protein; Region: Wzz; cl15801 485916008760 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916008761 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 485916008762 Walker A/P-loop; other site 485916008763 ATP binding site [chemical binding]; other site 485916008764 Q-loop/lid; other site 485916008765 ABC transporter signature motif; other site 485916008766 Walker B; other site 485916008767 D-loop; other site 485916008768 H-loop/switch region; other site 485916008769 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 485916008770 active site 485916008771 dimer interface [polypeptide binding]; other site 485916008772 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 485916008773 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 485916008774 Ligand Binding Site [chemical binding]; other site 485916008775 Molecular Tunnel; other site 485916008776 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 485916008777 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 485916008778 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_HprK; cl00270 485916008779 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_HprK; cl00270 485916008780 active site 485916008781 metal-binding site [ion binding] 485916008782 nucleotide-binding site [chemical binding]; other site 485916008783 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485916008784 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 485916008785 DNA binding residues [nucleotide binding] 485916008786 dimerization interface [polypeptide binding]; other site 485916008787 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485916008788 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 485916008789 intermolecular recognition site; other site 485916008790 active site 485916008791 dimerization interface [polypeptide binding]; other site 485916008792 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485916008793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 485916008794 active site 485916008795 phosphorylation site [posttranslational modification] 485916008796 intermolecular recognition site; other site 485916008797 dimerization interface [polypeptide binding]; other site 485916008798 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 485916008799 DNA binding residues [nucleotide binding] 485916008800 dimerization interface [polypeptide binding]; other site 485916008801 Homeodomain-like domain; Region: HTH_23; pfam13384 485916008802 Winged helix-turn helix; Region: HTH_29; pfam13551 485916008803 Winged helix-turn helix; Region: HTH_33; pfam13592 485916008804 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916008805 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916008806 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 485916008807 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 485916008808 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 485916008809 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916008810 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 485916008811 putative catalytic residues [active] 485916008812 catalytic nucleophile [active] 485916008813 Recombinase; Region: Recombinase; pfam07508 485916008814 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916008815 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 485916008816 Recombinase; Region: Recombinase; pfam07508 485916008817 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916008818 Helix-turn-helix domain; Region: HTH_17; pfam12728 485916008819 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916008820 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 485916008821 active site 485916008822 metal binding site [ion binding]; metal-binding site 485916008823 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 485916008824 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 485916008825 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 485916008826 ATP binding site [chemical binding]; other site 485916008827 DEAD/DEAH box helicase; Region: DEAD; pfam00270 485916008828 putative Mg++ binding site [ion binding]; other site 485916008829 helicase superfamily c-terminal domain; Region: HELICc; smart00490 485916008830 ATP-binding site [chemical binding]; other site 485916008831 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 485916008832 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 485916008833 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916008834 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 485916008835 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 485916008836 Competence protein; Region: Competence; pfam03772 485916008837 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 485916008838 SLBB domain; Region: SLBB; pfam10531 485916008839 comEA protein; Region: comE; TIGR01259 485916008840 Helix-hairpin-helix motif; Region: HHH; pfam00633 485916008841 Predicted membrane protein [Function unknown]; Region: COG2323 485916008842 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 485916008843 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 485916008844 HIGH motif; other site 485916008845 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 485916008846 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 485916008847 active site 485916008848 KMSKS motif; other site 485916008849 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 485916008850 tRNA binding surface [nucleotide binding]; other site 485916008851 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 485916008852 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916008853 Zn2+ binding site [ion binding]; other site 485916008854 Mg2+ binding site [ion binding]; other site 485916008855 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 485916008856 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 485916008857 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 485916008858 active site 485916008859 (T/H)XGH motif; other site 485916008860 gamma-glutamyl kinase; Provisional; Region: PRK05429 485916008861 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 485916008862 nucleotide binding site [chemical binding]; other site 485916008863 homotetrameric interface [polypeptide binding]; other site 485916008864 putative phosphate binding site [ion binding]; other site 485916008865 putative allosteric binding site; other site 485916008866 PUA domain; Region: PUA; pfam01472 485916008867 GTPase CgtA; Reviewed; Region: obgE; PRK12297 485916008868 GTP1/OBG; Region: GTP1_OBG; pfam01018 485916008869 Obg GTPase; Region: Obg; cd01898 485916008870 G1 box; other site 485916008871 GTP/Mg2+ binding site [chemical binding]; other site 485916008872 Switch I region; other site 485916008873 G2 box; other site 485916008874 G3 box; other site 485916008875 Switch II region; other site 485916008876 G4 box; other site 485916008877 G5 box; other site 485916008878 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 485916008879 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 485916008880 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 485916008881 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 485916008882 FOG: CBS domain [General function prediction only]; Region: COG0517 485916008883 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 485916008884 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 485916008885 active site 485916008886 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 485916008887 putative acyltransferase; Provisional; Region: PRK05790 485916008888 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 485916008889 dimer interface [polypeptide binding]; other site 485916008890 active site 485916008891 PAS fold; Region: PAS; pfam00989 485916008892 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 485916008893 putative active site [active] 485916008894 heme pocket [chemical binding]; other site 485916008895 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 485916008896 salt bridge; other site 485916008897 non-specific DNA binding site [nucleotide binding]; other site 485916008898 sequence-specific DNA binding site [nucleotide binding]; other site 485916008899 HEAT-like repeat; Region: HEAT_EZ; pfam13513 485916008900 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 485916008901 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 485916008902 ATP binding site [chemical binding]; other site 485916008903 Mg++ binding site [ion binding]; other site 485916008904 motif III; other site 485916008905 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 485916008906 nucleotide binding region [chemical binding]; other site 485916008907 ATP-binding site [chemical binding]; other site 485916008908 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 485916008909 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916008910 dimer interface [polypeptide binding]; other site 485916008911 putative CheW interface [polypeptide binding]; other site 485916008912 Cache domain; Region: Cache_1; pfam02743 485916008913 ribonuclease G; Provisional; Region: PRK11712 485916008914 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 485916008915 homodimer interface [polypeptide binding]; other site 485916008916 oligonucleotide binding site [chemical binding]; other site 485916008917 TRAM domain; Region: TRAM; cl01282 485916008918 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 485916008919 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 485916008920 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 485916008921 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 485916008922 FeS/SAM binding site; other site 485916008923 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 485916008924 Peptidase family M50; Region: Peptidase_M50; pfam02163 485916008925 active site 485916008926 putative substrate binding region [chemical binding]; other site 485916008927 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 485916008928 Peptidase family M23; Region: Peptidase_M23; pfam01551 485916008929 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485916008930 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 485916008931 Septum formation topological specificity factor MinE; Region: MinE; cl00538 485916008932 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 485916008933 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 485916008934 Switch I; other site 485916008935 Switch II; other site 485916008936 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 485916008937 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 485916008938 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 485916008939 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 485916008940 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 485916008941 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 485916008942 rod shape-determining protein MreC; Provisional; Region: PRK13922 485916008943 Kinesin motor; Region: Kinesin-relat_1; pfam12711 485916008944 rod shape-determining protein MreC; Region: MreC; pfam04085 485916008945 rod shape-determining protein MreB; Provisional; Region: PRK13927 485916008946 MreB and similar proteins; Region: MreB_like; cd10225 485916008947 nucleotide binding site [chemical binding]; other site 485916008948 Mg binding site [ion binding]; other site 485916008949 putative protofilament interaction site [polypeptide binding]; other site 485916008950 RodZ interaction site [polypeptide binding]; other site 485916008951 hypothetical protein; Reviewed; Region: PRK00024 485916008952 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 485916008953 MPN+ (JAMM) motif; other site 485916008954 Zinc-binding site [ion binding]; other site 485916008955 Maf-like protein; Reviewed; Region: PRK00078 485916008956 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 485916008957 active site 485916008958 dimer interface [polypeptide binding]; other site 485916008959 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 485916008960 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 485916008961 homotrimer interaction site [polypeptide binding]; other site 485916008962 putative active site [active] 485916008963 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 485916008964 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 485916008965 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 485916008966 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 485916008967 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916008968 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916008969 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485916008970 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 485916008971 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 485916008972 HIGH motif; other site 485916008973 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 485916008974 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 485916008975 active site 485916008976 KMSKS motif; other site 485916008977 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 485916008978 tRNA binding surface [nucleotide binding]; other site 485916008979 anticodon binding site; other site 485916008980 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 485916008981 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 485916008982 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 485916008983 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 485916008984 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 485916008985 putative active site [active] 485916008986 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 485916008987 G1 box; other site 485916008988 GTP/Mg2+ binding site [chemical binding]; other site 485916008989 Switch I region; other site 485916008990 G2 box; other site 485916008991 G3 box; other site 485916008992 Switch II region; other site 485916008993 G4 box; other site 485916008994 G5 box; other site 485916008995 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 485916008996 Found in ATP-dependent protease La (LON); Region: LON; smart00464 485916008997 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 485916008998 Walker A motif; other site 485916008999 ATP binding site [chemical binding]; other site 485916009000 Walker B motif; other site 485916009001 arginine finger; other site 485916009002 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 485916009003 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 485916009004 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 485916009005 Walker A motif; other site 485916009006 ATP binding site [chemical binding]; other site 485916009007 Walker B motif; other site 485916009008 arginine finger; other site 485916009009 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 485916009010 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 485916009011 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 485916009012 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 485916009013 Walker A motif; other site 485916009014 ATP binding site [chemical binding]; other site 485916009015 Walker B motif; other site 485916009016 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 485916009017 trigger factor; Provisional; Region: tig; PRK01490 485916009018 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 485916009019 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 485916009020 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916009021 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 485916009022 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 485916009023 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 485916009024 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 485916009025 active site 485916009026 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 485916009027 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 485916009028 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 485916009029 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916009030 Beta propeller domain; Region: Beta_propel; pfam09826 485916009031 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 485916009032 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 485916009033 DNA binding site [nucleotide binding] 485916009034 active site 485916009035 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 485916009036 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 485916009037 dimer interface [polypeptide binding]; other site 485916009038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916009039 catalytic residue [active] 485916009040 Spore germination protein; Region: Spore_permease; cl17796 485916009041 CHASE3 domain; Region: CHASE3; cl05000 485916009042 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 485916009043 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 485916009044 dimerization interface [polypeptide binding]; other site 485916009045 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916009046 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916009047 dimer interface [polypeptide binding]; other site 485916009048 putative CheW interface [polypeptide binding]; other site 485916009049 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 485916009050 O-Antigen ligase; Region: Wzy_C; pfam04932 485916009051 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 485916009052 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 485916009053 ring oligomerisation interface [polypeptide binding]; other site 485916009054 ATP/Mg binding site [chemical binding]; other site 485916009055 stacking interactions; other site 485916009056 hinge regions; other site 485916009057 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 485916009058 oligomerisation interface [polypeptide binding]; other site 485916009059 mobile loop; other site 485916009060 roof hairpin; other site 485916009061 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 485916009062 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 485916009063 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_3; cd09321 485916009064 gating phenylalanine in ion channel; other site 485916009065 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 485916009066 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 485916009067 dimer interface [polypeptide binding]; other site 485916009068 putative functional site; other site 485916009069 putative MPT binding site; other site 485916009070 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 485916009071 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 485916009072 FeS/SAM binding site; other site 485916009073 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916009074 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 485916009075 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916009076 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485916009077 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 485916009078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 485916009079 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 485916009080 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 485916009081 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916009082 Probable transposase; Region: OrfB_IS605; pfam01385 485916009083 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916009084 Response regulator receiver domain; Region: Response_reg; pfam00072 485916009085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009086 active site 485916009087 phosphorylation site [posttranslational modification] 485916009088 intermolecular recognition site; other site 485916009089 dimerization interface [polypeptide binding]; other site 485916009090 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916009091 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485916009092 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 485916009093 Walker A/P-loop; other site 485916009094 ATP binding site [chemical binding]; other site 485916009095 Q-loop/lid; other site 485916009096 ABC transporter signature motif; other site 485916009097 Walker B; other site 485916009098 D-loop; other site 485916009099 H-loop/switch region; other site 485916009100 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916009101 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485916009102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916009103 Walker A/P-loop; other site 485916009104 ATP binding site [chemical binding]; other site 485916009105 Q-loop/lid; other site 485916009106 ABC transporter signature motif; other site 485916009107 Walker B; other site 485916009108 D-loop; other site 485916009109 H-loop/switch region; other site 485916009110 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916009111 MarR family; Region: MarR_2; cl17246 485916009112 multidrug efflux system protein; Provisional; Region: PRK11431 485916009113 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916009114 MarR family; Region: MarR_2; pfam12802 485916009115 Putative Fe-S cluster; Region: FeS; cl17515 485916009116 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916009117 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916009118 dimer interface [polypeptide binding]; other site 485916009119 putative CheW interface [polypeptide binding]; other site 485916009120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 485916009121 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 485916009122 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916009123 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 485916009124 Probable transposase; Region: OrfB_IS605; pfam01385 485916009125 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916009126 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916009127 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 485916009128 putative active site [active] 485916009129 homotetrameric interface [polypeptide binding]; other site 485916009130 metal binding site [ion binding]; metal-binding site 485916009131 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 485916009132 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 485916009133 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 485916009134 putative active site [active] 485916009135 heme pocket [chemical binding]; other site 485916009136 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 485916009137 dimer interface [polypeptide binding]; other site 485916009138 phosphorylation site [posttranslational modification] 485916009139 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 485916009140 ATP binding site [chemical binding]; other site 485916009141 Mg2+ binding site [ion binding]; other site 485916009142 G-X-G motif; other site 485916009143 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 485916009144 Accessory gene regulator B; Region: AgrB; pfam04647 485916009145 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 485916009146 catalytic core [active] 485916009147 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 485916009148 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 485916009149 Ligand binding site; other site 485916009150 metal-binding site 485916009151 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 485916009152 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 485916009153 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 485916009154 XdhC Rossmann domain; Region: XdhC_C; pfam13478 485916009155 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 485916009156 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 485916009157 acyl-activating enzyme (AAE) consensus motif; other site 485916009158 active site 485916009159 AMP binding site [chemical binding]; other site 485916009160 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 485916009161 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 485916009162 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 485916009163 FeS/SAM binding site; other site 485916009164 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 485916009165 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485916009166 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 485916009167 S-adenosylmethionine binding site [chemical binding]; other site 485916009168 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485916009169 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485916009170 Cysteine-rich domain; Region: CCG; pfam02754 485916009171 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 485916009172 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 485916009173 catalytic loop [active] 485916009174 iron binding site [ion binding]; other site 485916009175 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 485916009176 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 485916009177 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 485916009178 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 485916009179 putative MPT binding site; other site 485916009180 molybdenum-pterin binding domain; Region: Mop; TIGR00638 485916009181 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 485916009182 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 485916009183 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 485916009184 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 485916009185 dimer interface [polypeptide binding]; other site 485916009186 conserved gate region; other site 485916009187 putative PBP binding loops; other site 485916009188 ABC-ATPase subunit interface; other site 485916009189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916009190 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 485916009191 Walker A/P-loop; other site 485916009192 ATP binding site [chemical binding]; other site 485916009193 Q-loop/lid; other site 485916009194 ABC transporter signature motif; other site 485916009195 Walker B; other site 485916009196 D-loop; other site 485916009197 H-loop/switch region; other site 485916009198 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 485916009199 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 485916009200 sulfate transport protein; Provisional; Region: cysT; CHL00187 485916009201 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 485916009202 dimer interface [polypeptide binding]; other site 485916009203 conserved gate region; other site 485916009204 putative PBP binding loops; other site 485916009205 ABC-ATPase subunit interface; other site 485916009206 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 485916009207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916009208 Walker A/P-loop; other site 485916009209 ATP binding site [chemical binding]; other site 485916009210 Q-loop/lid; other site 485916009211 ABC transporter signature motif; other site 485916009212 Walker B; other site 485916009213 D-loop; other site 485916009214 H-loop/switch region; other site 485916009215 Domain of unknown function (DUF364); Region: DUF364; pfam04016 485916009216 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916009217 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485916009218 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916009219 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 485916009220 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 485916009221 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 485916009222 Ligand binding site; other site 485916009223 metal-binding site 485916009224 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 485916009225 Moco binding site; other site 485916009226 metal coordination site [ion binding]; other site 485916009227 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 485916009228 HicB family; Region: HicB; pfam05534 485916009229 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916009230 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916009231 Homeodomain-like domain; Region: HTH_23; pfam13384 485916009232 Winged helix-turn helix; Region: HTH_29; pfam13551 485916009233 Winged helix-turn helix; Region: HTH_33; pfam13592 485916009234 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916009235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916009236 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916009237 NHL repeat; Region: NHL; pfam01436 485916009238 NHL repeat; Region: NHL; pfam01436 485916009239 NHL repeat; Region: NHL; pfam01436 485916009240 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916009241 Penicillinase repressor; Region: Pencillinase_R; pfam03965 485916009242 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 485916009243 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 485916009244 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 485916009245 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 485916009246 Walker A/P-loop; other site 485916009247 ATP binding site [chemical binding]; other site 485916009248 Q-loop/lid; other site 485916009249 ABC transporter signature motif; other site 485916009250 Walker B; other site 485916009251 D-loop; other site 485916009252 H-loop/switch region; other site 485916009253 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 485916009254 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 485916009255 Walker A/P-loop; other site 485916009256 ATP binding site [chemical binding]; other site 485916009257 Q-loop/lid; other site 485916009258 ABC transporter signature motif; other site 485916009259 Walker B; other site 485916009260 D-loop; other site 485916009261 H-loop/switch region; other site 485916009262 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 485916009263 homodimer interaction site [polypeptide binding]; other site 485916009264 cofactor binding site; other site 485916009265 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 485916009266 Interdomain contacts; other site 485916009267 S-layer homology domain; Region: SLH; pfam00395 485916009268 S-layer homology domain; Region: SLH; pfam00395 485916009269 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 485916009270 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916009271 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916009272 active site 485916009273 metal binding site [ion binding]; metal-binding site 485916009274 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 485916009275 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 485916009276 Moco binding site; other site 485916009277 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 485916009278 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916009279 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 485916009280 S-layer homology domain; Region: SLH; pfam00395 485916009281 S-layer homology domain; Region: SLH; pfam00395 485916009282 S-layer homology domain; Region: SLH; pfam00395 485916009283 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 485916009284 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 485916009285 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 485916009286 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916009287 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 485916009288 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 485916009289 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 485916009290 S-layer homology domain; Region: SLH; pfam00395 485916009291 S-layer homology domain; Region: SLH; pfam00395 485916009292 S-layer homology domain; Region: SLH; pfam00395 485916009293 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 485916009294 Moco binding site; other site 485916009295 metal coordination site [ion binding]; other site 485916009296 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916009297 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916009298 active site 485916009299 metal binding site [ion binding]; metal-binding site 485916009300 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916009301 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916009302 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916009303 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916009304 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916009305 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916009306 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916009307 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 485916009308 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916009309 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916009310 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916009311 MG2 domain; Region: A2M_N; pfam01835 485916009312 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 485916009313 metal coordination site [ion binding]; other site 485916009314 Fn3 associated; Region: Fn3_assoc; pfam13287 485916009315 S-layer homology domain; Region: SLH; pfam00395 485916009316 S-layer homology domain; Region: SLH; pfam00395 485916009317 S-layer homology domain; Region: SLH; pfam00395 485916009318 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 485916009319 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 485916009320 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 485916009321 homodimer interaction site [polypeptide binding]; other site 485916009322 cofactor binding site; other site 485916009323 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 485916009324 MG2 domain; Region: A2M_N; pfam01835 485916009325 S-layer homology domain; Region: SLH; pfam00395 485916009326 S-layer homology domain; Region: SLH; pfam00395 485916009327 S-layer homology domain; Region: SLH; pfam00395 485916009328 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 485916009329 Walker A motif; other site 485916009330 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 485916009331 putative MPT binding site; other site 485916009332 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 485916009333 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 485916009334 dimer interface [polypeptide binding]; other site 485916009335 putative functional site; other site 485916009336 putative MPT binding site; other site 485916009337 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 485916009338 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 485916009339 GTP binding site; other site 485916009340 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 485916009341 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 485916009342 catalytic loop [active] 485916009343 iron binding site [ion binding]; other site 485916009344 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 485916009345 4Fe-4S binding domain; Region: Fer4; pfam00037 485916009346 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 485916009347 [4Fe-4S] binding site [ion binding]; other site 485916009348 molybdopterin cofactor binding site; other site 485916009349 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 485916009350 molybdopterin cofactor binding site; other site 485916009351 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 485916009352 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 485916009353 catalytic loop [active] 485916009354 iron binding site [ion binding]; other site 485916009355 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 485916009356 4Fe-4S binding domain; Region: Fer4; pfam00037 485916009357 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 485916009358 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 485916009359 dimer interface [polypeptide binding]; other site 485916009360 [2Fe-2S] cluster binding site [ion binding]; other site 485916009361 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 485916009362 SLBB domain; Region: SLBB; pfam10531 485916009363 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 485916009364 4Fe-4S binding domain; Region: Fer4; pfam00037 485916009365 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 485916009366 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 485916009367 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 485916009368 putative dimer interface [polypeptide binding]; other site 485916009369 [2Fe-2S] cluster binding site [ion binding]; other site 485916009370 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 485916009371 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 485916009372 catalytic loop [active] 485916009373 iron binding site [ion binding]; other site 485916009374 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 485916009375 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 485916009376 4Fe-4S binding domain; Region: Fer4; pfam00037 485916009377 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 485916009378 [4Fe-4S] binding site [ion binding]; other site 485916009379 molybdopterin cofactor binding site; other site 485916009380 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 485916009381 molybdopterin cofactor binding site; other site 485916009382 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 485916009383 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 485916009384 ACT domain-containing protein [General function prediction only]; Region: COG4747 485916009385 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 485916009386 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 485916009387 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 485916009388 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 485916009389 FeS/SAM binding site; other site 485916009390 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 485916009391 Protein of unknown function (DUF512); Region: DUF512; pfam04459 485916009392 UGMP family protein; Validated; Region: PRK09604 485916009393 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 485916009394 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 485916009395 putative catalytic site [active] 485916009396 putative metal binding site [ion binding]; other site 485916009397 putative phosphate binding site [ion binding]; other site 485916009398 Protein of unknown function DUF262; Region: DUF262; pfam03235 485916009399 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 485916009400 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 485916009401 CoenzymeA binding site [chemical binding]; other site 485916009402 subunit interaction site [polypeptide binding]; other site 485916009403 PHB binding site; other site 485916009404 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 485916009405 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485916009406 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916009407 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916009408 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 485916009409 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 485916009410 Flagellin N-methylase; Region: FliB; pfam03692 485916009411 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916009412 active site 485916009413 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 485916009414 PBP superfamily domain; Region: PBP_like_2; cl17296 485916009415 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916009416 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 485916009417 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 485916009418 metal binding site 2 [ion binding]; metal-binding site 485916009419 putative DNA binding helix; other site 485916009420 metal binding site 1 [ion binding]; metal-binding site 485916009421 dimer interface [polypeptide binding]; other site 485916009422 structural Zn2+ binding site [ion binding]; other site 485916009423 Rubrerythrin [Energy production and conversion]; Region: COG1592 485916009424 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 485916009425 binuclear metal center [ion binding]; other site 485916009426 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 485916009427 iron binding site [ion binding]; other site 485916009428 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 485916009429 diiron binding motif [ion binding]; other site 485916009430 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 485916009431 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 485916009432 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 485916009433 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 485916009434 catalytic residues [active] 485916009435 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 485916009436 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 485916009437 Domain of unknown function DUF21; Region: DUF21; pfam01595 485916009438 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 485916009439 Transporter associated domain; Region: CorC_HlyC; smart01091 485916009440 hypothetical protein; Provisional; Region: PRK02237 485916009441 hypothetical protein; Provisional; Region: PRK04194 485916009442 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 485916009443 active site 485916009444 Homeodomain-like domain; Region: HTH_23; pfam13384 485916009445 Winged helix-turn helix; Region: HTH_29; pfam13551 485916009446 Winged helix-turn helix; Region: HTH_33; pfam13592 485916009447 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916009448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916009449 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916009450 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916009451 Probable transposase; Region: OrfB_IS605; pfam01385 485916009452 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916009453 Transposase IS200 like; Region: Y1_Tnp; pfam01797 485916009454 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 485916009455 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 485916009456 ATP binding site [chemical binding]; other site 485916009457 putative Mg++ binding site [ion binding]; other site 485916009458 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 485916009459 nucleotide binding region [chemical binding]; other site 485916009460 ATP-binding site [chemical binding]; other site 485916009461 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 485916009462 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916009463 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916009464 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485916009465 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916009466 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916009467 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485916009468 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916009469 Sporulation and spore germination; Region: Germane; pfam10646 485916009470 Peptidase family M48; Region: Peptidase_M48; cl12018 485916009471 Protein of unknown function (DUF964); Region: DUF964; pfam06133 485916009472 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 485916009473 agmatinase; Region: agmatinase; TIGR01230 485916009474 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 485916009475 putative active site [active] 485916009476 Mn binding site [ion binding]; other site 485916009477 spermidine synthase; Provisional; Region: PRK00811 485916009478 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 485916009479 pyruvoyl-dependent arginine decarboxylase; Reviewed; Region: PRK01285 485916009480 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 485916009481 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 485916009482 peptide binding site [polypeptide binding]; other site 485916009483 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 485916009484 Cysteine-rich domain; Region: CCG; pfam02754 485916009485 Cysteine-rich domain; Region: CCG; pfam02754 485916009486 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 485916009487 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 485916009488 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916009489 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 485916009490 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485916009491 4Fe-4S binding domain; Region: Fer4_6; pfam12837 485916009492 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 485916009493 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 485916009494 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485916009495 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 485916009496 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 485916009497 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 485916009498 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916009499 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 485916009500 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 485916009501 ATP-sulfurylase; Region: ATPS; cd00517 485916009502 active site 485916009503 HXXH motif; other site 485916009504 flexible loop; other site 485916009505 Protein of unknown function (DUF964); Region: DUF964; pfam06133 485916009506 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 485916009507 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 485916009508 putative dimer interface [polypeptide binding]; other site 485916009509 active site pocket [active] 485916009510 putative cataytic base [active] 485916009511 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 485916009512 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 485916009513 S-layer homology domain; Region: SLH; pfam00395 485916009514 S-layer homology domain; Region: SLH; pfam00395 485916009515 S-layer homology domain; Region: SLH; pfam00395 485916009516 Domain of unknown function DUF39; Region: DUF39; pfam01837 485916009517 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 485916009518 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 485916009519 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916009520 hypothetical protein; Provisional; Region: PRK04334 485916009521 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 485916009522 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 485916009523 dimer interface [polypeptide binding]; other site 485916009524 active site 485916009525 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 485916009526 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 485916009527 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 485916009528 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 485916009529 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 485916009530 putative dimer interface [polypeptide binding]; other site 485916009531 putative anticodon binding site; other site 485916009532 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 485916009533 homodimer interface [polypeptide binding]; other site 485916009534 motif 1; other site 485916009535 motif 2; other site 485916009536 active site 485916009537 motif 3; other site 485916009538 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 485916009539 BON domain; Region: BON; pfam04972 485916009540 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 485916009541 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 485916009542 Protein of unknown function (DUF503); Region: DUF503; pfam04456 485916009543 Carbohydrate binding domain; Region: CBM_25; smart01066 485916009544 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 485916009545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 485916009546 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 485916009547 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 485916009548 Walker A motif; other site 485916009549 ATP binding site [chemical binding]; other site 485916009550 Walker B motif; other site 485916009551 arginine finger; other site 485916009552 Coat F domain; Region: Coat_F; pfam07875 485916009553 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916009554 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 485916009555 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 485916009556 HflX GTPase family; Region: HflX; cd01878 485916009557 G1 box; other site 485916009558 GTP/Mg2+ binding site [chemical binding]; other site 485916009559 Switch I region; other site 485916009560 G2 box; other site 485916009561 G3 box; other site 485916009562 Switch II region; other site 485916009563 G4 box; other site 485916009564 G5 box; other site 485916009565 GTP-binding protein YchF; Reviewed; Region: PRK09601 485916009566 YchF GTPase; Region: YchF; cd01900 485916009567 G1 box; other site 485916009568 GTP/Mg2+ binding site [chemical binding]; other site 485916009569 Switch I region; other site 485916009570 G2 box; other site 485916009571 Switch II region; other site 485916009572 G3 box; other site 485916009573 G4 box; other site 485916009574 G5 box; other site 485916009575 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 485916009576 Predicted amidohydrolase [General function prediction only]; Region: COG0388 485916009577 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 485916009578 putative active site [active] 485916009579 catalytic triad [active] 485916009580 dimer interface [polypeptide binding]; other site 485916009581 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 485916009582 Putative zinc-finger; Region: zf-HC2; pfam13490 485916009583 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 485916009584 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916009585 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 485916009586 DNA binding residues [nucleotide binding] 485916009587 PilZ domain; Region: PilZ; pfam07238 485916009588 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 485916009589 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 485916009590 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916009591 active site 485916009592 metal binding site [ion binding]; metal-binding site 485916009593 homotetramer interface [polypeptide binding]; other site 485916009594 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 485916009595 active site 485916009596 dimerization interface [polypeptide binding]; other site 485916009597 ribonuclease PH; Reviewed; Region: rph; PRK00173 485916009598 Ribonuclease PH; Region: RNase_PH_bact; cd11362 485916009599 hexamer interface [polypeptide binding]; other site 485916009600 active site 485916009601 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 485916009602 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 485916009603 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 485916009604 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 485916009605 intersubunit interface [polypeptide binding]; other site 485916009606 Bacterial SH3 domain; Region: SH3_3; pfam08239 485916009607 AMIN domain; Region: AMIN; pfam11741 485916009608 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 485916009609 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 485916009610 active site 485916009611 metal binding site [ion binding]; metal-binding site 485916009612 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 485916009613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 485916009614 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 485916009615 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 485916009616 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 485916009617 SCP-2 sterol transfer family; Region: SCP2; pfam02036 485916009618 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 485916009619 active site 485916009620 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 485916009621 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 485916009622 FeS/SAM binding site; other site 485916009623 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 485916009624 Ligand Binding Site [chemical binding]; other site 485916009625 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 485916009626 MgtC family; Region: MgtC; pfam02308 485916009627 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 485916009628 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 485916009629 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 485916009630 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 485916009631 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 485916009632 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 485916009633 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 485916009634 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 485916009635 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 485916009636 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 485916009637 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 485916009638 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 485916009639 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 485916009640 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 485916009641 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 485916009642 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 485916009643 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 485916009644 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 485916009645 non-specific DNA binding site [nucleotide binding]; other site 485916009646 salt bridge; other site 485916009647 sequence-specific DNA binding site [nucleotide binding]; other site 485916009648 YcfA-like protein; Region: YcfA; pfam07927 485916009649 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 485916009650 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 485916009651 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 485916009652 Int/Topo IB signature motif; other site 485916009653 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 485916009654 Helix-turn-helix domain; Region: HTH_17; pfam12728 485916009655 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 485916009656 Phage capsid family; Region: Phage_capsid; pfam05065 485916009657 Domain of unknown function (DUF955); Region: DUF955; pfam06114 485916009658 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916009659 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 485916009660 Helix-turn-helix domain; Region: HTH_17; pfam12728 485916009661 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916009662 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 485916009663 non-specific DNA binding site [nucleotide binding]; other site 485916009664 salt bridge; other site 485916009665 sequence-specific DNA binding site [nucleotide binding]; other site 485916009666 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 485916009667 non-specific DNA binding site [nucleotide binding]; other site 485916009668 salt bridge; other site 485916009669 sequence-specific DNA binding site [nucleotide binding]; other site 485916009670 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916009671 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 485916009672 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916009673 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 485916009674 non-specific DNA binding site [nucleotide binding]; other site 485916009675 salt bridge; other site 485916009676 sequence-specific DNA binding site [nucleotide binding]; other site 485916009677 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916009678 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 485916009679 non-specific DNA binding site [nucleotide binding]; other site 485916009680 salt bridge; other site 485916009681 sequence-specific DNA binding site [nucleotide binding]; other site 485916009682 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 485916009683 oligomeric interface; other site 485916009684 putative active site [active] 485916009685 homodimer interface [polypeptide binding]; other site 485916009686 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916009687 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916009688 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 485916009689 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 485916009690 DNA binding site [nucleotide binding] 485916009691 Int/Topo IB signature motif; other site 485916009692 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 485916009693 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 485916009694 active site 485916009695 DNA binding site [nucleotide binding] 485916009696 Int/Topo IB signature motif; other site 485916009697 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 485916009698 active site 485916009699 DNA binding site [nucleotide binding] 485916009700 Int/Topo IB signature motif; other site 485916009701 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 485916009702 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 485916009703 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 485916009704 active site 485916009705 DNA binding site [nucleotide binding] 485916009706 Int/Topo IB signature motif; other site 485916009707 Homeodomain-like domain; Region: HTH_23; pfam13384 485916009708 Winged helix-turn helix; Region: HTH_29; pfam13551 485916009709 Winged helix-turn helix; Region: HTH_33; pfam13592 485916009710 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916009711 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916009712 Helix-turn-helix domain; Region: HTH_17; pfam12728 485916009713 Helix-turn-helix domain; Region: HTH_17; pfam12728 485916009714 hypothetical protein; Provisional; Region: PRK14709 485916009715 D5 N terminal like; Region: D5_N; smart00885 485916009716 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 485916009717 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916009718 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 485916009719 Domain of unknown function (DUF955); Region: DUF955; pfam06114 485916009720 Homeodomain-like domain; Region: HTH_23; pfam13384 485916009721 Winged helix-turn helix; Region: HTH_29; pfam13551 485916009722 Winged helix-turn helix; Region: HTH_33; pfam13592 485916009723 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916009724 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916009725 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 485916009726 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916009727 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 485916009728 non-specific DNA binding site [nucleotide binding]; other site 485916009729 salt bridge; other site 485916009730 sequence-specific DNA binding site [nucleotide binding]; other site 485916009731 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 485916009732 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 485916009733 Replication-relaxation; Region: Replic_Relax; pfam13814 485916009734 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 485916009735 active site 485916009736 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 485916009737 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 485916009738 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 485916009739 Int/Topo IB signature motif; other site 485916009740 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 485916009741 putative active site [active] 485916009742 Transcriptional regulator [Transcription]; Region: LysR; COG0583 485916009743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 485916009744 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 485916009745 putative dimerization interface [polypeptide binding]; other site 485916009746 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13636 485916009747 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 485916009748 Walker A/P-loop; other site 485916009749 ATP binding site [chemical binding]; other site 485916009750 Q-loop/lid; other site 485916009751 ABC transporter signature motif; other site 485916009752 Walker B; other site 485916009753 D-loop; other site 485916009754 H-loop/switch region; other site 485916009755 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 485916009756 cobalt transport protein CbiN; Provisional; Region: PRK02898 485916009757 cobalt transport protein CbiM; Validated; Region: PRK08319 485916009758 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 485916009759 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 485916009760 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916009761 Coenzyme A binding pocket [chemical binding]; other site 485916009762 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 485916009763 Glycoprotease family; Region: Peptidase_M22; pfam00814 485916009764 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 485916009765 Response regulator receiver domain; Region: Response_reg; pfam00072 485916009766 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009767 active site 485916009768 phosphorylation site [posttranslational modification] 485916009769 intermolecular recognition site; other site 485916009770 dimerization interface [polypeptide binding]; other site 485916009771 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 485916009772 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 485916009773 active site 485916009774 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 485916009775 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 485916009776 catalytic triad [active] 485916009777 PemK-like protein; Region: PemK; pfam02452 485916009778 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 485916009779 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 485916009780 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 485916009781 putative valine binding site [chemical binding]; other site 485916009782 dimer interface [polypeptide binding]; other site 485916009783 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 485916009784 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 485916009785 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 485916009786 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916009787 Walker A/P-loop; other site 485916009788 ATP binding site [chemical binding]; other site 485916009789 Q-loop/lid; other site 485916009790 ABC transporter signature motif; other site 485916009791 Walker B; other site 485916009792 D-loop; other site 485916009793 H-loop/switch region; other site 485916009794 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 485916009795 Catalytic site [active] 485916009796 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 485916009797 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 485916009798 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 485916009799 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 485916009800 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485916009801 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009802 active site 485916009803 phosphorylation site [posttranslational modification] 485916009804 intermolecular recognition site; other site 485916009805 dimerization interface [polypeptide binding]; other site 485916009806 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 485916009807 DNA binding residues [nucleotide binding] 485916009808 dimerization interface [polypeptide binding]; other site 485916009809 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 485916009810 Histidine kinase; Region: HisKA_3; pfam07730 485916009811 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 485916009812 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 485916009813 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485916009814 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 485916009815 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 485916009816 active site 485916009817 dimer interface [polypeptide binding]; other site 485916009818 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 485916009819 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 485916009820 active site 485916009821 FMN binding site [chemical binding]; other site 485916009822 substrate binding site [chemical binding]; other site 485916009823 3Fe-4S cluster binding site [ion binding]; other site 485916009824 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 485916009825 domain interface; other site 485916009826 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 485916009827 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 485916009828 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 485916009829 glutamine synthetase, type I; Region: GlnA; TIGR00653 485916009830 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 485916009831 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 485916009832 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 485916009833 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009834 active site 485916009835 phosphorylation site [posttranslational modification] 485916009836 intermolecular recognition site; other site 485916009837 dimerization interface [polypeptide binding]; other site 485916009838 ANTAR domain; Region: ANTAR; pfam03861 485916009839 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 485916009840 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 485916009841 active site 485916009842 FMN binding site [chemical binding]; other site 485916009843 substrate binding site [chemical binding]; other site 485916009844 3Fe-4S cluster binding site [ion binding]; other site 485916009845 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 485916009846 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 485916009847 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 485916009848 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 485916009849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009850 active site 485916009851 phosphorylation site [posttranslational modification] 485916009852 intermolecular recognition site; other site 485916009853 dimerization interface [polypeptide binding]; other site 485916009854 ANTAR domain; Region: ANTAR; pfam03861 485916009855 flagellar motor switch protein; Validated; Region: PRK08119 485916009856 CheC-like family; Region: CheC; pfam04509 485916009857 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 485916009858 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 485916009859 aconitate hydratase; Validated; Region: PRK07229 485916009860 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 485916009861 substrate binding site [chemical binding]; other site 485916009862 ligand binding site [chemical binding]; other site 485916009863 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course...; Region: AcnA_Bact_Swivel; cd01579 485916009864 substrate binding site [chemical binding]; other site 485916009865 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 485916009866 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 485916009867 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 485916009868 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 485916009869 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 485916009870 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 485916009871 alanine racemase; Reviewed; Region: alr; PRK00053 485916009872 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 485916009873 active site 485916009874 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 485916009875 dimer interface [polypeptide binding]; other site 485916009876 substrate binding site [chemical binding]; other site 485916009877 catalytic residues [active] 485916009878 Uncharacterized conserved protein [Function unknown]; Region: COG0062 485916009879 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 485916009880 putative substrate binding site [chemical binding]; other site 485916009881 putative ATP binding site [chemical binding]; other site 485916009882 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 485916009883 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485916009884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009885 active site 485916009886 phosphorylation site [posttranslational modification] 485916009887 intermolecular recognition site; other site 485916009888 dimerization interface [polypeptide binding]; other site 485916009889 LytTr DNA-binding domain; Region: LytTR; smart00850 485916009890 GAF domain; Region: GAF; cl17456 485916009891 Histidine kinase; Region: His_kinase; pfam06580 485916009892 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 485916009893 ATP binding site [chemical binding]; other site 485916009894 Mg2+ binding site [ion binding]; other site 485916009895 G-X-G motif; other site 485916009896 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 485916009897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 485916009898 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 485916009899 putative dimerization interface [polypeptide binding]; other site 485916009900 Flagellin N-methylase; Region: FliB; cl00497 485916009901 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 485916009902 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 485916009903 ACS interaction site; other site 485916009904 CODH interaction site; other site 485916009905 cubane metal cluster (B-cluster) [ion binding]; other site 485916009906 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 485916009907 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 485916009908 Acetyl-CoA synthase (ACS), also known as acetyl-CoA decarbonylase, is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA. ACS forms a heterotetramer with carbon monoxide dehydrogenase (CODH)...; Region: ACS_2; cd01917 485916009909 CODH interaction site; other site 485916009910 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 485916009911 Hpt domain; Region: Hpt; pfam01627 485916009912 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009913 active site 485916009914 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916009915 phosphorylation site [posttranslational modification] 485916009916 intermolecular recognition site; other site 485916009917 dimerization interface [polypeptide binding]; other site 485916009918 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 485916009919 dimer interface [polypeptide binding]; other site 485916009920 phosphorylation site [posttranslational modification] 485916009921 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 485916009922 ATP binding site [chemical binding]; other site 485916009923 Mg2+ binding site [ion binding]; other site 485916009924 G-X-G motif; other site 485916009925 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485916009926 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009927 active site 485916009928 phosphorylation site [posttranslational modification] 485916009929 intermolecular recognition site; other site 485916009930 dimerization interface [polypeptide binding]; other site 485916009931 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 485916009932 CheB methylesterase; Region: CheB_methylest; pfam01339 485916009933 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 485916009934 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 485916009935 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 485916009936 GAF domain; Region: GAF_3; pfam13492 485916009937 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916009938 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 485916009939 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 485916009940 ATP binding site [chemical binding]; other site 485916009941 Mg2+ binding site [ion binding]; other site 485916009942 G-X-G motif; other site 485916009943 Response regulator receiver domain; Region: Response_reg; pfam00072 485916009944 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009945 active site 485916009946 phosphorylation site [posttranslational modification] 485916009947 intermolecular recognition site; other site 485916009948 dimerization interface [polypeptide binding]; other site 485916009949 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485916009950 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009951 active site 485916009952 phosphorylation site [posttranslational modification] 485916009953 intermolecular recognition site; other site 485916009954 dimerization interface [polypeptide binding]; other site 485916009955 Response regulator receiver domain; Region: Response_reg; pfam00072 485916009956 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009957 active site 485916009958 phosphorylation site [posttranslational modification] 485916009959 intermolecular recognition site; other site 485916009960 dimerization interface [polypeptide binding]; other site 485916009961 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916009962 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009963 active site 485916009964 phosphorylation site [posttranslational modification] 485916009965 intermolecular recognition site; other site 485916009966 dimerization interface [polypeptide binding]; other site 485916009967 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916009968 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916009969 metal binding site [ion binding]; metal-binding site 485916009970 active site 485916009971 I-site; other site 485916009972 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 485916009973 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485916009974 putative substrate translocation pore; other site 485916009975 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 485916009976 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 485916009977 FeS/SAM binding site; other site 485916009978 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 485916009979 iron binding site [ion binding]; other site 485916009980 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 485916009981 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485916009982 active site 485916009983 HIGH motif; other site 485916009984 nucleotide binding site [chemical binding]; other site 485916009985 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 485916009986 KMSKS motif; other site 485916009987 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 485916009988 HPP family; Region: HPP; pfam04982 485916009989 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 485916009990 ABC-2 type transporter; Region: ABC2_membrane; cl17235 485916009991 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 485916009992 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 485916009993 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916009994 Walker A/P-loop; other site 485916009995 ATP binding site [chemical binding]; other site 485916009996 Q-loop/lid; other site 485916009997 ABC transporter signature motif; other site 485916009998 Walker B; other site 485916009999 D-loop; other site 485916010000 H-loop/switch region; other site 485916010001 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 485916010002 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916010003 dimer interface [polypeptide binding]; other site 485916010004 putative CheW interface [polypeptide binding]; other site 485916010005 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 485916010006 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 485916010007 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 485916010008 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 485916010009 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916010010 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916010011 Probable transposase; Region: OrfB_IS605; pfam01385 485916010012 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916010013 Transposase IS200 like; Region: Y1_Tnp; pfam01797 485916010014 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916010015 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916010016 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 485916010017 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 485916010018 active site 485916010019 DEAD-like helicases superfamily; Region: DEXDc; smart00487 485916010020 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 485916010021 ATP binding site [chemical binding]; other site 485916010022 putative Mg++ binding site [ion binding]; other site 485916010023 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 485916010024 nucleotide binding region [chemical binding]; other site 485916010025 ATP-binding site [chemical binding]; other site 485916010026 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916010027 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916010028 Probable transposase; Region: OrfB_IS605; pfam01385 485916010029 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916010030 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 485916010031 Ligand Binding Site [chemical binding]; other site 485916010032 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 485916010033 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 485916010034 NodB motif; other site 485916010035 active site 485916010036 catalytic site [active] 485916010037 Cd binding site [ion binding]; other site 485916010038 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 485916010039 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 485916010040 Walker A/P-loop; other site 485916010041 ATP binding site [chemical binding]; other site 485916010042 Q-loop/lid; other site 485916010043 ABC transporter signature motif; other site 485916010044 Walker B; other site 485916010045 D-loop; other site 485916010046 H-loop/switch region; other site 485916010047 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 485916010048 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 485916010049 Walker A/P-loop; other site 485916010050 ATP binding site [chemical binding]; other site 485916010051 Q-loop/lid; other site 485916010052 ABC transporter signature motif; other site 485916010053 Walker B; other site 485916010054 D-loop; other site 485916010055 H-loop/switch region; other site 485916010056 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 485916010057 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 485916010058 TM-ABC transporter signature motif; other site 485916010059 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 485916010060 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 485916010061 TM-ABC transporter signature motif; other site 485916010062 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 485916010063 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 485916010064 putative ligand binding site [chemical binding]; other site 485916010065 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 485916010066 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 485916010067 putative ligand binding site [chemical binding]; other site 485916010068 Esterase/lipase [General function prediction only]; Region: COG1647 485916010069 lysophospholipid transporter LplT; Provisional; Region: PRK11195 485916010070 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 485916010071 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 485916010072 putative acyl-acceptor binding pocket; other site 485916010073 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 485916010074 acyl-activating enzyme (AAE) consensus motif; other site 485916010075 AMP binding site [chemical binding]; other site 485916010076 active site 485916010077 CoA binding site [chemical binding]; other site 485916010078 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916010079 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485916010080 GTPase RsgA; Reviewed; Region: PRK01889 485916010081 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 485916010082 RNA binding site [nucleotide binding]; other site 485916010083 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 485916010084 GTPase/Zn-binding domain interface [polypeptide binding]; other site 485916010085 GTP/Mg2+ binding site [chemical binding]; other site 485916010086 G4 box; other site 485916010087 G5 box; other site 485916010088 G1 box; other site 485916010089 Switch I region; other site 485916010090 G2 box; other site 485916010091 G3 box; other site 485916010092 Switch II region; other site 485916010093 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 485916010094 catalytic loop [active] 485916010095 iron binding site [ion binding]; other site 485916010096 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 485916010097 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 485916010098 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 485916010099 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 485916010100 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 485916010101 dimer interface [polypeptide binding]; other site 485916010102 [2Fe-2S] cluster binding site [ion binding]; other site 485916010103 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 485916010104 SLBB domain; Region: SLBB; pfam10531 485916010105 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 485916010106 4Fe-4S binding domain; Region: Fer4; pfam00037 485916010107 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 485916010108 4Fe-4S binding domain; Region: Fer4; pfam00037 485916010109 NADH dehydrogenase subunit E; Validated; Region: PRK07539 485916010110 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 485916010111 putative dimer interface [polypeptide binding]; other site 485916010112 [2Fe-2S] cluster binding site [ion binding]; other site 485916010113 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 485916010114 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 485916010115 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485916010116 GAF domain; Region: GAF; pfam01590 485916010117 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 485916010118 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 485916010119 putative active site [active] 485916010120 heme pocket [chemical binding]; other site 485916010121 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 485916010122 dimer interface [polypeptide binding]; other site 485916010123 phosphorylation site [posttranslational modification] 485916010124 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 485916010125 ATP binding site [chemical binding]; other site 485916010126 Mg2+ binding site [ion binding]; other site 485916010127 G-X-G motif; other site 485916010128 FeoA domain; Region: FeoA; pfam04023 485916010129 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 485916010130 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 485916010131 G1 box; other site 485916010132 GTP/Mg2+ binding site [chemical binding]; other site 485916010133 Switch I region; other site 485916010134 G2 box; other site 485916010135 G3 box; other site 485916010136 Switch II region; other site 485916010137 G4 box; other site 485916010138 G5 box; other site 485916010139 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 485916010140 Nucleoside recognition; Region: Gate; pfam07670 485916010141 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 485916010142 Nucleoside recognition; Region: Gate; pfam07670 485916010143 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 485916010144 Methyltransferase domain; Region: Methyltransf_23; pfam13489 485916010145 S-layer homology domain; Region: SLH; pfam00395 485916010146 S-layer homology domain; Region: SLH; pfam00395 485916010147 phosphoenolpyruvate synthase; Validated; Region: PRK06241 485916010148 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 485916010149 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 485916010150 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916010151 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 485916010152 Helix-turn-helix domain; Region: HTH_17; pfam12728 485916010153 Cupin domain; Region: Cupin_2; pfam07883 485916010154 Helix-turn-helix domain; Region: HTH_18; pfam12833 485916010155 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485916010156 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 485916010157 Ligand Binding Site [chemical binding]; other site 485916010158 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916010159 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916010160 Probable transposase; Region: OrfB_IS605; pfam01385 485916010161 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916010162 Transposase IS200 like; Region: Y1_Tnp; pfam01797 485916010163 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 485916010164 dimer interface [polypeptide binding]; other site 485916010165 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 485916010166 dimer interface [polypeptide binding]; other site 485916010167 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485916010168 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916010169 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 485916010170 DNA binding residues [nucleotide binding] 485916010171 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 485916010172 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916010173 adenylosuccinate lyase; Provisional; Region: PRK09285 485916010174 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 485916010175 tetramer interface [polypeptide binding]; other site 485916010176 active site 485916010177 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 485916010178 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916010179 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916010180 metal binding site [ion binding]; metal-binding site 485916010181 active site 485916010182 I-site; other site 485916010183 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 485916010184 YcfA-like protein; Region: YcfA; cl00752 485916010185 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 485916010186 HicB family; Region: HicB; pfam05534 485916010187 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916010188 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 485916010189 non-specific DNA binding site [nucleotide binding]; other site 485916010190 salt bridge; other site 485916010191 sequence-specific DNA binding site [nucleotide binding]; other site 485916010192 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916010193 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 485916010194 putative active site [active] 485916010195 PemK-like protein; Region: PemK; pfam02452 485916010196 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916010197 KilA-N domain; Region: KilA-N; pfam04383 485916010198 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 485916010199 dimerization interface [polypeptide binding]; other site 485916010200 KilA-N domain; Region: KilA-N; pfam04383 485916010201 Recombinase; Region: Recombinase; pfam07508 485916010202 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916010203 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 485916010204 DNA binding residues [nucleotide binding] 485916010205 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 485916010206 AAA domain; Region: AAA_18; pfam13238 485916010207 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 485916010208 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 485916010209 non-specific DNA binding site [nucleotide binding]; other site 485916010210 salt bridge; other site 485916010211 sequence-specific DNA binding site [nucleotide binding]; other site 485916010212 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 485916010213 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916010214 Coenzyme A binding pocket [chemical binding]; other site 485916010215 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 485916010216 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 485916010217 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916010218 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 485916010219 trimer interface [polypeptide binding]; other site 485916010220 active site 485916010221 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 485916010222 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 485916010223 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 485916010224 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 485916010225 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 485916010226 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 485916010227 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 485916010228 putative active site pocket [active] 485916010229 dimerization interface [polypeptide binding]; other site 485916010230 putative catalytic residue [active] 485916010231 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 485916010232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 485916010233 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 485916010234 Walker A/P-loop; other site 485916010235 ATP binding site [chemical binding]; other site 485916010236 Q-loop/lid; other site 485916010237 ABC transporter signature motif; other site 485916010238 Walker B; other site 485916010239 D-loop; other site 485916010240 H-loop/switch region; other site 485916010241 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 485916010242 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 485916010243 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 485916010244 active site 485916010245 DNA binding site [nucleotide binding] 485916010246 Int/Topo IB signature motif; other site 485916010247 Helix-turn-helix of insertion element transposase; Region: HTH_Tnp_1_2; pfam13022 485916010248 Homeodomain-like domain; Region: HTH_23; pfam13384 485916010249 Winged helix-turn helix; Region: HTH_29; pfam13551 485916010250 Winged helix-turn helix; Region: HTH_33; pfam13592 485916010251 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916010252 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916010253 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 485916010254 AAA domain; Region: AAA_23; pfam13476 485916010255 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916010256 Walker A/P-loop; other site 485916010257 ATP binding site [chemical binding]; other site 485916010258 AAA domain; Region: AAA_21; pfam13304 485916010259 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916010260 ABC transporter signature motif; other site 485916010261 Walker B; other site 485916010262 D-loop; other site 485916010263 H-loop/switch region; other site 485916010264 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 485916010265 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485916010266 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 485916010267 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 485916010268 active site 485916010269 DNA binding site [nucleotide binding] 485916010270 Int/Topo IB signature motif; other site 485916010271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 485916010272 Zeta toxin; Region: Zeta_toxin; pfam06414 485916010273 Helix-turn-helix domain; Region: HTH_28; pfam13518 485916010274 Winged helix-turn helix; Region: HTH_29; pfam13551 485916010275 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916010276 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916010277 Homeodomain-like domain; Region: HTH_23; pfam13384 485916010278 Winged helix-turn helix; Region: HTH_29; pfam13551 485916010279 Winged helix-turn helix; Region: HTH_33; pfam13592 485916010280 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916010281 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916010282 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 485916010283 SmpB-tmRNA interface; other site 485916010284 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 485916010285 CoenzymeA binding site [chemical binding]; other site 485916010286 subunit interaction site [polypeptide binding]; other site 485916010287 PHB binding site; other site 485916010288 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 485916010289 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 485916010290 enolase; Provisional; Region: eno; PRK00077 485916010291 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 485916010292 dimer interface [polypeptide binding]; other site 485916010293 metal binding site [ion binding]; metal-binding site 485916010294 substrate binding pocket [chemical binding]; other site 485916010295 phosphoglyceromutase; Provisional; Region: PRK05434 485916010296 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 485916010297 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 485916010298 triosephosphate isomerase; Provisional; Region: PRK14565 485916010299 substrate binding site [chemical binding]; other site 485916010300 dimer interface [polypeptide binding]; other site 485916010301 catalytic triad [active] 485916010302 Phosphoglycerate kinase; Region: PGK; pfam00162 485916010303 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 485916010304 substrate binding site [chemical binding]; other site 485916010305 hinge regions; other site 485916010306 ADP binding site [chemical binding]; other site 485916010307 catalytic site [active] 485916010308 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 485916010309 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 485916010310 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 485916010311 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 485916010312 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 485916010313 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 485916010314 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 485916010315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 485916010316 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 485916010317 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 485916010318 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 485916010319 phosphate binding site [ion binding]; other site 485916010320 putative substrate binding pocket [chemical binding]; other site 485916010321 dimer interface [polypeptide binding]; other site 485916010322 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 485916010323 AAA domain; Region: AAA_18; pfam13238 485916010324 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 485916010325 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 485916010326 active site 485916010327 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 485916010328 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_1; cd05017 485916010329 dimer interface [polypeptide binding]; other site 485916010330 active site 485916010331 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 485916010332 dimer interface [polypeptide binding]; other site 485916010333 active site 485916010334 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 485916010335 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 485916010336 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 485916010337 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 485916010338 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 485916010339 motif II; other site 485916010340 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 485916010341 hexokinase; Provisional; Region: PTZ00107 485916010342 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 485916010343 nucleotide binding site [chemical binding]; other site 485916010344 Hexokinase; Region: Hexokinase_2; pfam03727 485916010345 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 485916010346 Part of AAA domain; Region: AAA_19; pfam13245 485916010347 Family description; Region: UvrD_C_2; pfam13538 485916010348 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 485916010349 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 485916010350 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 485916010351 active site 485916010352 dimer interface [polypeptide binding]; other site 485916010353 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 485916010354 dimer interface [polypeptide binding]; other site 485916010355 active site 485916010356 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 485916010357 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 485916010358 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 485916010359 GIY-YIG motif/motif A; other site 485916010360 active site 485916010361 catalytic site [active] 485916010362 putative DNA binding site [nucleotide binding]; other site 485916010363 metal binding site [ion binding]; metal-binding site 485916010364 UvrB/uvrC motif; Region: UVR; pfam02151 485916010365 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 485916010366 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 485916010367 DNA binding site [nucleotide binding] 485916010368 PAS domain S-box; Region: sensory_box; TIGR00229 485916010369 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916010370 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916010371 metal binding site [ion binding]; metal-binding site 485916010372 active site 485916010373 I-site; other site 485916010374 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916010375 Zn2+ binding site [ion binding]; other site 485916010376 Mg2+ binding site [ion binding]; other site 485916010377 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]; Region: COG1245 485916010378 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916010379 Walker A/P-loop; other site 485916010380 ATP binding site [chemical binding]; other site 485916010381 ABC transporter signature motif; other site 485916010382 Walker B; other site 485916010383 D-loop; other site 485916010384 H-loop/switch region; other site 485916010385 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 485916010386 putative active site [active] 485916010387 putative metal-binding site [ion binding]; other site 485916010388 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 485916010389 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 485916010390 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 485916010391 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 485916010392 excinuclease ABC subunit B; Provisional; Region: PRK05298 485916010393 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 485916010394 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 485916010395 ATP-binding site [chemical binding]; other site 485916010396 ATP binding site [chemical binding]; other site 485916010397 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 485916010398 nucleotide binding region [chemical binding]; other site 485916010399 ATP-binding site [chemical binding]; other site 485916010400 Ultra-violet resistance protein B; Region: UvrB; pfam12344 485916010401 UvrB/uvrC motif; Region: UVR; pfam02151 485916010402 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 485916010403 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 485916010404 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 485916010405 Fe-S cluster binding site [ion binding]; other site 485916010406 active site 485916010407 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 485916010408 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 485916010409 protein binding site [polypeptide binding]; other site 485916010410 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 485916010411 C-terminal peptidase (prc); Region: prc; TIGR00225 485916010412 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 485916010413 protein binding site [polypeptide binding]; other site 485916010414 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 485916010415 Catalytic dyad [active] 485916010416 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 485916010417 Peptidase family M23; Region: Peptidase_M23; pfam01551 485916010418 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 485916010419 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 485916010420 FtsX-like permease family; Region: FtsX; pfam02687 485916010421 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 485916010422 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 485916010423 Walker A/P-loop; other site 485916010424 ATP binding site [chemical binding]; other site 485916010425 Q-loop/lid; other site 485916010426 ABC transporter signature motif; other site 485916010427 Walker B; other site 485916010428 D-loop; other site 485916010429 H-loop/switch region; other site 485916010430 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 485916010431 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 485916010432 PYR/PP interface [polypeptide binding]; other site 485916010433 dimer interface [polypeptide binding]; other site 485916010434 TPP binding site [chemical binding]; other site 485916010435 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 485916010436 transketolase; Reviewed; Region: PRK05899 485916010437 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 485916010438 TPP-binding site [chemical binding]; other site 485916010439 dimer interface [polypeptide binding]; other site 485916010440 Uncharacterized conserved protein [Function unknown]; Region: COG1284 485916010441 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 485916010442 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 485916010443 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 485916010444 peptide chain release factor 2; Validated; Region: prfB; PRK00578 485916010445 This domain is found in peptide chain release factors; Region: PCRF; smart00937 485916010446 RF-1 domain; Region: RF-1; pfam00472 485916010447 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 485916010448 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 485916010449 ATP binding site [chemical binding]; other site 485916010450 putative Mg++ binding site [ion binding]; other site 485916010451 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 485916010452 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 485916010453 30S subunit binding site; other site 485916010454 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 485916010455 DNA-binding site [nucleotide binding]; DNA binding site 485916010456 RNA-binding motif; other site 485916010457 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485916010458 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916010459 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 485916010460 VanW like protein; Region: VanW; pfam04294 485916010461 G5 domain; Region: G5; pfam07501 485916010462 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 485916010463 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 485916010464 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485916010465 catalytic residue [active] 485916010466 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 485916010467 EamA-like transporter family; Region: EamA; cl17759 485916010468 comF family protein; Region: comF; TIGR00201 485916010469 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916010470 active site 485916010471 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485916010472 GAF domain; Region: GAF_3; pfam13492 485916010473 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916010474 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916010475 metal binding site [ion binding]; metal-binding site 485916010476 active site 485916010477 I-site; other site 485916010478 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 485916010479 active site 485916010480 S-adenosylmethionine synthetase; Validated; Region: PRK05250 485916010481 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 485916010482 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 485916010483 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 485916010484 S-layer homology domain; Region: SLH; pfam00395 485916010485 S-layer homology domain; Region: SLH; pfam00395 485916010486 S-layer homology domain; Region: SLH; pfam00395 485916010487 S-layer homology domain; Region: SLH; pfam00395 485916010488 S-layer homology domain; Region: SLH; pfam00395 485916010489 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485916010490 S-layer homology domain; Region: SLH; pfam00395 485916010491 S-layer homology domain; Region: SLH; pfam00395 485916010492 S-layer homology domain; Region: SLH; pfam00395 485916010493 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 485916010494 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 485916010495 Interdomain contacts; other site 485916010496 Cytokine receptor motif; other site 485916010497 Predicted integral membrane protein [Function unknown]; Region: COG5652 485916010498 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 485916010499 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 485916010500 putative NAD(P) binding site [chemical binding]; other site 485916010501 active site 485916010502 putative substrate binding site [chemical binding]; other site 485916010503 Fic family protein [Function unknown]; Region: COG3177 485916010504 Fic/DOC family; Region: Fic; pfam02661 485916010505 CoA-binding domain; Region: CoA_binding_3; pfam13727 485916010506 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 485916010507 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 485916010508 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 485916010509 NAD(P) binding site [chemical binding]; other site 485916010510 homodimer interface [polypeptide binding]; other site 485916010511 substrate binding site [chemical binding]; other site 485916010512 active site 485916010513 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 485916010514 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 485916010515 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 485916010516 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 485916010517 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 485916010518 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 485916010519 NAD(P) binding site [chemical binding]; other site 485916010520 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 485916010521 active site 485916010522 NTP binding site [chemical binding]; other site 485916010523 metal binding triad [ion binding]; metal-binding site 485916010524 antibiotic binding site [chemical binding]; other site 485916010525 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916010526 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 485916010527 non-specific DNA binding site [nucleotide binding]; other site 485916010528 salt bridge; other site 485916010529 sequence-specific DNA binding site [nucleotide binding]; other site 485916010530 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916010531 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 485916010532 non-specific DNA binding site [nucleotide binding]; other site 485916010533 salt bridge; other site 485916010534 sequence-specific DNA binding site [nucleotide binding]; other site 485916010535 Helix-turn-helix domain; Region: HTH_17; cl17695 485916010536 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 485916010537 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 485916010538 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 485916010539 YvrJ protein family; Region: YvrJ; pfam12841 485916010540 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916010541 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 485916010542 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 485916010543 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 485916010544 putative active site [active] 485916010545 putative NTP binding site [chemical binding]; other site 485916010546 putative nucleic acid binding site [nucleotide binding]; other site 485916010547 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 485916010548 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 485916010549 non-specific DNA binding site [nucleotide binding]; other site 485916010550 salt bridge; other site 485916010551 sequence-specific DNA binding site [nucleotide binding]; other site 485916010552 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 485916010553 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 485916010554 active site 485916010555 NTP binding site [chemical binding]; other site 485916010556 metal binding triad [ion binding]; metal-binding site 485916010557 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916010558 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 485916010559 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 485916010560 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 485916010561 Walker A motif; other site 485916010562 ATP binding site [chemical binding]; other site 485916010563 Walker B motif; other site 485916010564 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 485916010565 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 485916010566 DNA binding site [nucleotide binding] 485916010567 DNA protecting protein DprA; Region: dprA; TIGR00732 485916010568 HEPN domain; Region: HEPN; cl00824 485916010569 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 485916010570 active site 485916010571 NTP binding site [chemical binding]; other site 485916010572 metal binding triad [ion binding]; metal-binding site 485916010573 antibiotic binding site [chemical binding]; other site 485916010574 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916010575 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 485916010576 catalytic motif [active] 485916010577 Catalytic residue [active] 485916010578 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 485916010579 oligomeric interface; other site 485916010580 putative active site [active] 485916010581 homodimer interface [polypeptide binding]; other site 485916010582 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 485916010583 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 485916010584 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 485916010585 YvrJ protein family; Region: YvrJ; pfam12841 485916010586 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 485916010587 YwpF-like protein; Region: YwpF; pfam14183 485916010588 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 485916010589 active site 485916010590 NTP binding site [chemical binding]; other site 485916010591 metal binding triad [ion binding]; metal-binding site 485916010592 antibiotic binding site [chemical binding]; other site 485916010593 HEPN domain; Region: HEPN; pfam05168 485916010594 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916010595 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 485916010596 UDP-glucose 4-epimerase; Region: PLN02240 485916010597 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 485916010598 NAD binding site [chemical binding]; other site 485916010599 homodimer interface [polypeptide binding]; other site 485916010600 active site 485916010601 substrate binding site [chemical binding]; other site 485916010602 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 485916010603 oligomeric interface; other site 485916010604 putative active site [active] 485916010605 homodimer interface [polypeptide binding]; other site 485916010606 HEPN domain; Region: HEPN; pfam05168 485916010607 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916010608 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 485916010609 DNA protecting protein DprA; Region: dprA; TIGR00732 485916010610 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 485916010611 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 485916010612 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 485916010613 Walker A motif; other site 485916010614 ATP binding site [chemical binding]; other site 485916010615 Walker B motif; other site 485916010616 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 485916010617 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 485916010618 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 485916010619 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 485916010620 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 485916010621 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916010622 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916010623 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 485916010624 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 485916010625 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 485916010626 NAD(P) binding site [chemical binding]; other site 485916010627 homodimer interface [polypeptide binding]; other site 485916010628 substrate binding site [chemical binding]; other site 485916010629 active site 485916010630 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 485916010631 UDP-glucose 4-epimerase; Region: PLN02240 485916010632 NAD binding site [chemical binding]; other site 485916010633 homodimer interface [polypeptide binding]; other site 485916010634 active site 485916010635 substrate binding site [chemical binding]; other site 485916010636 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 485916010637 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 485916010638 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 485916010639 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 485916010640 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 485916010641 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 485916010642 active site 485916010643 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 485916010644 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 485916010645 ligand-binding site [chemical binding]; other site 485916010646 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 485916010647 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 485916010648 Transposase; Region: DDE_Tnp_ISL3; pfam01610 485916010649 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 485916010650 Transposase; Region: DDE_Tnp_ISL3; pfam01610 485916010651 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 485916010652 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 485916010653 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 485916010654 trimer interface [polypeptide binding]; other site 485916010655 active site 485916010656 substrate binding site [chemical binding]; other site 485916010657 CoA binding site [chemical binding]; other site 485916010658 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 485916010659 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916010660 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 485916010661 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 485916010662 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916010663 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 485916010664 putative ADP-binding pocket [chemical binding]; other site 485916010665 Bacterial sugar transferase; Region: Bac_transf; pfam02397 485916010666 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485916010667 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 485916010668 Walker A/P-loop; other site 485916010669 ATP binding site [chemical binding]; other site 485916010670 Q-loop/lid; other site 485916010671 ABC transporter signature motif; other site 485916010672 Walker B; other site 485916010673 D-loop; other site 485916010674 H-loop/switch region; other site 485916010675 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485916010676 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 485916010677 FtsX-like permease family; Region: FtsX; pfam02687 485916010678 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 485916010679 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 485916010680 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 485916010681 Magnesium ion binding site [ion binding]; other site 485916010682 Chain length determinant protein; Region: Wzz; cl15801 485916010683 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 485916010684 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 485916010685 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 485916010686 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 485916010687 active site 485916010688 substrate binding site [chemical binding]; other site 485916010689 metal binding site [ion binding]; metal-binding site 485916010690 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 485916010691 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 485916010692 active site 485916010693 tetramer interface; other site 485916010694 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 485916010695 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 485916010696 Mg++ binding site [ion binding]; other site 485916010697 putative catalytic motif [active] 485916010698 substrate binding site [chemical binding]; other site 485916010699 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 485916010700 Domain of unknown function (DUF4330); Region: DUF4330; pfam14221 485916010701 O-Antigen ligase; Region: Wzy_C; cl04850 485916010702 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 485916010703 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 485916010704 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916010705 putative homodimer interface [polypeptide binding]; other site 485916010706 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 485916010707 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916010708 putative homodimer interface [polypeptide binding]; other site 485916010709 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916010710 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 485916010711 Transcriptional regulator [Transcription]; Region: LytR; COG1316 485916010712 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 485916010713 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 485916010714 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 485916010715 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 485916010716 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 485916010717 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 485916010718 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 485916010719 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 485916010720 NAD binding site [chemical binding]; other site 485916010721 substrate binding site [chemical binding]; other site 485916010722 homodimer interface [polypeptide binding]; other site 485916010723 active site 485916010724 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 485916010725 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 485916010726 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 485916010727 NADP binding site [chemical binding]; other site 485916010728 active site 485916010729 putative substrate binding site [chemical binding]; other site 485916010730 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 485916010731 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 485916010732 substrate binding site; other site 485916010733 tetramer interface; other site 485916010734 GtrA-like protein; Region: GtrA; pfam04138 485916010735 Predicted membrane protein [Function unknown]; Region: COG2246 485916010736 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 485916010737 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 485916010738 Ligand binding site; other site 485916010739 Putative Catalytic site; other site 485916010740 DXD motif; other site 485916010741 shikimate kinase; Reviewed; Region: aroK; PRK00131 485916010742 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 485916010743 ligand-binding site [chemical binding]; other site 485916010744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 485916010745 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 485916010746 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 485916010747 active site 485916010748 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916010749 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 485916010750 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 485916010751 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 485916010752 Walker A/P-loop; other site 485916010753 ATP binding site [chemical binding]; other site 485916010754 Q-loop/lid; other site 485916010755 ABC transporter signature motif; other site 485916010756 Walker B; other site 485916010757 D-loop; other site 485916010758 H-loop/switch region; other site 485916010759 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 485916010760 putative carbohydrate binding site [chemical binding]; other site 485916010761 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 485916010762 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 485916010763 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 485916010764 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 485916010765 NAD binding site [chemical binding]; other site 485916010766 substrate binding site [chemical binding]; other site 485916010767 homodimer interface [polypeptide binding]; other site 485916010768 active site 485916010769 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 485916010770 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 485916010771 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 485916010772 NADP binding site [chemical binding]; other site 485916010773 active site 485916010774 putative substrate binding site [chemical binding]; other site 485916010775 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 485916010776 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 485916010777 substrate binding site; other site 485916010778 tetramer interface; other site 485916010779 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 485916010780 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 485916010781 active site 485916010782 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 485916010783 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 485916010784 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 485916010785 Probable Catalytic site; other site 485916010786 metal-binding site 485916010787 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 485916010788 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 485916010789 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 485916010790 Bacterial sugar transferase; Region: Bac_transf; pfam02397 485916010791 O-Antigen ligase; Region: Wzy_C; pfam04932 485916010792 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 485916010793 TPR motif; other site 485916010794 binding surface 485916010795 S-layer homology domain; Region: SLH; pfam00395 485916010796 S-layer homology domain; Region: SLH; pfam00395 485916010797 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 485916010798 S-layer homology domain; Region: SLH; pfam00395 485916010799 S-layer homology domain; Region: SLH; pfam00395 485916010800 S-layer homology domain; Region: SLH; pfam00395 485916010801 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 485916010802 putative active site [active] 485916010803 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 485916010804 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 485916010805 HlyD family secretion protein; Region: HlyD_3; pfam13437 485916010806 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916010807 HlyD family secretion protein; Region: HlyD_3; pfam13437 485916010808 Transcriptional regulators [Transcription]; Region: MarR; COG1846 485916010809 MarR family; Region: MarR; pfam01047 485916010810 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 485916010811 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916010812 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916010813 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 485916010814 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916010815 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 485916010816 DNA binding residues [nucleotide binding] 485916010817 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806 485916010818 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 485916010819 active site 485916010820 catalytic triad [active] 485916010821 S-layer homology domain; Region: SLH; pfam00395 485916010822 S-layer homology domain; Region: SLH; pfam00395 485916010823 rod shape-determining protein Mbl; Provisional; Region: PRK13928 485916010824 MreB and similar proteins; Region: MreB_like; cd10225 485916010825 nucleotide binding site [chemical binding]; other site 485916010826 Mg binding site [ion binding]; other site 485916010827 putative protofilament interaction site [polypeptide binding]; other site 485916010828 RodZ interaction site [polypeptide binding]; other site 485916010829 Stage III sporulation protein D; Region: SpoIIID; pfam12116 485916010830 S-layer homology domain; Region: SLH; pfam00395 485916010831 S-layer homology domain; Region: SLH; pfam00395 485916010832 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 485916010833 Peptidase family M23; Region: Peptidase_M23; pfam01551 485916010834 Stage II sporulation protein; Region: SpoIID; pfam08486 485916010835 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 485916010836 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 485916010837 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 485916010838 hinge; other site 485916010839 active site 485916010840 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 485916010841 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 485916010842 gamma subunit interface [polypeptide binding]; other site 485916010843 epsilon subunit interface [polypeptide binding]; other site 485916010844 LBP interface [polypeptide binding]; other site 485916010845 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 485916010846 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 485916010847 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 485916010848 alpha subunit interaction interface [polypeptide binding]; other site 485916010849 Walker A motif; other site 485916010850 ATP binding site [chemical binding]; other site 485916010851 Walker B motif; other site 485916010852 inhibitor binding site; inhibition site 485916010853 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 485916010854 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 485916010855 core domain interface [polypeptide binding]; other site 485916010856 delta subunit interface [polypeptide binding]; other site 485916010857 epsilon subunit interface [polypeptide binding]; other site 485916010858 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 485916010859 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 485916010860 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 485916010861 beta subunit interaction interface [polypeptide binding]; other site 485916010862 Walker A motif; other site 485916010863 ATP binding site [chemical binding]; other site 485916010864 Walker B motif; other site 485916010865 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 485916010866 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 485916010867 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 485916010868 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 485916010869 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 485916010870 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 485916010871 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 485916010872 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 485916010873 ATP synthase I chain; Region: ATP_synt_I; pfam03899 485916010874 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 485916010875 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 485916010876 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 485916010877 active site 485916010878 homodimer interface [polypeptide binding]; other site 485916010879 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in uncharacterized protein from Archaeoglobus fulgidus (Af0060) and its bacterial homologs; Region: NTP-PPase_Af0060_like; cd11533 485916010880 homodimer interface [polypeptide binding]; other site 485916010881 metal binding site [ion binding]; metal-binding site 485916010882 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 485916010883 catalytic motif [active] 485916010884 Zn binding site [ion binding]; other site 485916010885 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 485916010886 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 485916010887 dimer interface [polypeptide binding]; other site 485916010888 active site 485916010889 glycine-pyridoxal phosphate binding site [chemical binding]; other site 485916010890 folate binding site [chemical binding]; other site 485916010891 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 485916010892 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 485916010893 Low molecular weight phosphatase family; Region: LMWPc; cd00115 485916010894 active site 485916010895 Predicted membrane protein [Function unknown]; Region: COG1971 485916010896 Domain of unknown function DUF; Region: DUF204; pfam02659 485916010897 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 485916010898 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 485916010899 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 485916010900 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 485916010901 ABC-ATPase subunit interface; other site 485916010902 dimer interface [polypeptide binding]; other site 485916010903 putative PBP binding regions; other site 485916010904 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 485916010905 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 485916010906 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 485916010907 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 485916010908 metal binding site [ion binding]; metal-binding site 485916010909 ferric uptake regulator; Provisional; Region: fur; PRK09462 485916010910 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 485916010911 metal binding site 2 [ion binding]; metal-binding site 485916010912 putative DNA binding helix; other site 485916010913 metal binding site 1 [ion binding]; metal-binding site 485916010914 dimer interface [polypeptide binding]; other site 485916010915 structural Zn2+ binding site [ion binding]; other site 485916010916 High-affinity nickel-transport protein; Region: NicO; cl00964 485916010917 High-affinity nickel-transport protein; Region: NicO; cl00964 485916010918 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 485916010919 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 485916010920 glutamine binding [chemical binding]; other site 485916010921 catalytic triad [active] 485916010922 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 485916010923 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 485916010924 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 485916010925 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 485916010926 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 485916010927 homodimer interface [polypeptide binding]; other site 485916010928 substrate-cofactor binding pocket; other site 485916010929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916010930 catalytic residue [active] 485916010931 Fic family protein [Function unknown]; Region: COG3177 485916010932 Fic/DOC family; Region: Fic; pfam02661 485916010933 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 485916010934 Acyltransferase family; Region: Acyl_transf_3; pfam01757 485916010935 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 485916010936 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 485916010937 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 485916010938 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 485916010939 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 485916010940 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 485916010941 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 485916010942 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 485916010943 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485916010944 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916010945 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 485916010946 E-class dimer interface [polypeptide binding]; other site 485916010947 P-class dimer interface [polypeptide binding]; other site 485916010948 active site 485916010949 Cu2+ binding site [ion binding]; other site 485916010950 Zn2+ binding site [ion binding]; other site 485916010951 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 485916010952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916010953 active site 485916010954 phosphorylation site [posttranslational modification] 485916010955 intermolecular recognition site; other site 485916010956 dimerization interface [polypeptide binding]; other site 485916010957 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916010958 Zn2+ binding site [ion binding]; other site 485916010959 Mg2+ binding site [ion binding]; other site 485916010960 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 485916010961 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 485916010962 putative active site [active] 485916010963 heme pocket [chemical binding]; other site 485916010964 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 485916010965 dimer interface [polypeptide binding]; other site 485916010966 phosphorylation site [posttranslational modification] 485916010967 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 485916010968 ATP binding site [chemical binding]; other site 485916010969 Mg2+ binding site [ion binding]; other site 485916010970 G-X-G motif; other site 485916010971 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916010972 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916010973 active site 485916010974 phosphorylation site [posttranslational modification] 485916010975 intermolecular recognition site; other site 485916010976 dimerization interface [polypeptide binding]; other site 485916010977 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 485916010978 DNA binding site [nucleotide binding] 485916010979 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 485916010980 hypothetical protein; Provisional; Region: PRK08236 485916010981 nucleosidase; Provisional; Region: PRK05634 485916010982 Protein of unknown function DUF45; Region: DUF45; pfam01863 485916010983 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 485916010984 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 485916010985 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 485916010986 ATP binding site [chemical binding]; other site 485916010987 putative Mg++ binding site [ion binding]; other site 485916010988 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916010989 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 485916010990 non-specific DNA binding site [nucleotide binding]; other site 485916010991 salt bridge; other site 485916010992 sequence-specific DNA binding site [nucleotide binding]; other site 485916010993 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 485916010994 BRO family, N-terminal domain; Region: Bro-N; cl10591 485916010995 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 485916010996 Integrase core domain; Region: rve; pfam00665 485916010997 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 485916010998 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 485916010999 non-specific DNA binding site [nucleotide binding]; other site 485916011000 salt bridge; other site 485916011001 sequence-specific DNA binding site [nucleotide binding]; other site 485916011002 AAA domain; Region: AAA_22; pfam13401 485916011003 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 485916011004 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 485916011005 Walker A motif; other site 485916011006 ATP binding site [chemical binding]; other site 485916011007 Walker B motif; other site 485916011008 arginine finger; other site 485916011009 Mor transcription activator family; Region: Mor; cl02360 485916011010 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 485916011011 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 485916011012 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 485916011013 putative homodimer interface [polypeptide binding]; other site 485916011014 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 485916011015 heterodimer interface [polypeptide binding]; other site 485916011016 homodimer interface [polypeptide binding]; other site 485916011017 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 485916011018 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 485916011019 active site 485916011020 metal binding site [ion binding]; metal-binding site 485916011021 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 485916011022 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 485916011023 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 485916011024 peptidase; Reviewed; Region: PRK13004 485916011025 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 485916011026 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 485916011027 Phage XkdN-like protein; Region: XkdN; pfam08890 485916011028 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 485916011029 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 485916011030 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 485916011031 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 485916011032 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 485916011033 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 485916011034 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 485916011035 four helix bundle protein; Region: TIGR02436 485916011036 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 485916011037 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 485916011038 putative active site [active] 485916011039 putative NTP binding site [chemical binding]; other site 485916011040 putative nucleic acid binding site [nucleotide binding]; other site 485916011041 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 485916011042 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 485916011043 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 485916011044 HsdM N-terminal domain; Region: HsdM_N; pfam12161 485916011045 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 485916011046 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 485916011047 active site 485916011048 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 485916011049 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916011050 metal binding site [ion binding]; metal-binding site 485916011051 active site 485916011052 I-site; other site 485916011053 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916011054 Zn2+ binding site [ion binding]; other site 485916011055 Mg2+ binding site [ion binding]; other site 485916011056 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 485916011057 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 485916011058 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 485916011059 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 485916011060 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 485916011061 NAD(P) binding site [chemical binding]; other site 485916011062 catalytic residues [active] 485916011063 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 485916011064 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 485916011065 active site 485916011066 NAD binding site [chemical binding]; other site 485916011067 metal binding site [ion binding]; metal-binding site 485916011068 mycofactocin system glycosyltransferase; Region: mycofact_glyco; TIGR03965 485916011069 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 485916011070 active site 485916011071 mycofactocin radical SAM maturase; Region: mycofact_rSAM; TIGR03962 485916011072 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 485916011073 FeS/SAM binding site; other site 485916011074 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 485916011075 putative mycofactocin binding protein MftB; Region: mycofact_MftB; TIGR03967 485916011076 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 485916011077 Ligand binding site [chemical binding]; other site 485916011078 Electron transfer flavoprotein domain; Region: ETF; pfam01012 485916011079 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 485916011080 putative oxidoreductase FixC; Provisional; Region: PRK10157 485916011081 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 485916011082 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 485916011083 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 485916011084 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 485916011085 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 485916011086 putative active site [active] 485916011087 putative FMN binding site [chemical binding]; other site 485916011088 putative substrate binding site [chemical binding]; other site 485916011089 putative catalytic residue [active] 485916011090 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 485916011091 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 485916011092 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 485916011093 phosphate binding site [ion binding]; other site 485916011094 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 485916011095 Bacterial Ig-like domain; Region: Big_5; pfam13205 485916011096 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 485916011097 Predicted permeases [General function prediction only]; Region: COG0701 485916011098 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 485916011099 dimerization interface [polypeptide binding]; other site 485916011100 putative DNA binding site [nucleotide binding]; other site 485916011101 putative Zn2+ binding site [ion binding]; other site 485916011102 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 485916011103 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 485916011104 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 485916011105 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 485916011106 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 485916011107 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 485916011108 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 485916011109 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 485916011110 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 485916011111 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 485916011112 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 485916011113 Uncharacterized conserved protein [Function unknown]; Region: COG1633 485916011114 dinuclear metal binding motif [ion binding]; other site 485916011115 Transposase IS200 like; Region: Y1_Tnp; pfam01797 485916011116 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 485916011117 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 485916011118 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916011119 Coenzyme A binding pocket [chemical binding]; other site 485916011120 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916011121 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 485916011122 Serpin (serine protease inhibitor); Region: Serpin; pfam00079 485916011123 reactive center loop; other site 485916011124 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 485916011125 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 485916011126 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 485916011127 nucleoside/Zn binding site; other site 485916011128 dimer interface [polypeptide binding]; other site 485916011129 catalytic motif [active] 485916011130 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 485916011131 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 485916011132 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 485916011133 NAD binding site [chemical binding]; other site 485916011134 homodimer interface [polypeptide binding]; other site 485916011135 active site 485916011136 substrate binding site [chemical binding]; other site 485916011137 Predicted integral membrane protein [Function unknown]; Region: COG5542 485916011138 Predicted membrane protein [Function unknown]; Region: COG2246 485916011139 GtrA-like protein; Region: GtrA; pfam04138 485916011140 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 485916011141 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 485916011142 Ligand binding site; other site 485916011143 Putative Catalytic site; other site 485916011144 DXD motif; other site 485916011145 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 485916011146 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 485916011147 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916011148 SNF2 Helicase protein; Region: DUF3670; pfam12419 485916011149 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 485916011150 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 485916011151 ATP binding site [chemical binding]; other site 485916011152 putative Mg++ binding site [ion binding]; other site 485916011153 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 485916011154 nucleotide binding region [chemical binding]; other site 485916011155 ATP-binding site [chemical binding]; other site 485916011156 SWIM zinc finger; Region: SWIM; pfam04434 485916011157 glutamine synthetase, type I; Region: GlnA; TIGR00653 485916011158 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 485916011159 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 485916011160 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 485916011161 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 485916011162 putative active site [active] 485916011163 catalytic site [active] 485916011164 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 485916011165 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_2; cd09105 485916011166 putative active site [active] 485916011167 catalytic site [active] 485916011168 Homeodomain-like domain; Region: HTH_23; pfam13384 485916011169 Winged helix-turn helix; Region: HTH_29; pfam13551 485916011170 Winged helix-turn helix; Region: HTH_33; pfam13592 485916011171 DDE superfamily endonuclease; Region: DDE_3; pfam13358 485916011172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 485916011173 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 485916011174 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485916011175 putative substrate translocation pore; other site 485916011176 Transcriptional regulator PadR-like family; Region: PadR; cl17335 485916011177 Predicted transcriptional regulators [Transcription]; Region: COG1695 485916011178 Response regulator receiver domain; Region: Response_reg; pfam00072 485916011179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916011180 active site 485916011181 phosphorylation site [posttranslational modification] 485916011182 intermolecular recognition site; other site 485916011183 dimerization interface [polypeptide binding]; other site 485916011184 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 485916011185 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 485916011186 putative active site [active] 485916011187 heme pocket [chemical binding]; other site 485916011188 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 485916011189 putative active site [active] 485916011190 heme pocket [chemical binding]; other site 485916011191 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 485916011192 dimer interface [polypeptide binding]; other site 485916011193 phosphorylation site [posttranslational modification] 485916011194 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 485916011195 ATP binding site [chemical binding]; other site 485916011196 Mg2+ binding site [ion binding]; other site 485916011197 G-X-G motif; other site 485916011198 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 485916011199 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 485916011200 inhibitor-cofactor binding pocket; inhibition site 485916011201 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916011202 catalytic residue [active] 485916011203 AAA domain; Region: AAA_26; pfam13500 485916011204 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 485916011205 biotin synthase; Region: bioB; TIGR00433 485916011206 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 485916011207 FeS/SAM binding site; other site 485916011208 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 485916011209 BioY family; Region: BioY; pfam02632 485916011210 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 485916011211 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 485916011212 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 485916011213 seryl-tRNA synthetase; Provisional; Region: PRK05431 485916011214 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 485916011215 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 485916011216 dimer interface [polypeptide binding]; other site 485916011217 active site 485916011218 motif 1; other site 485916011219 motif 2; other site 485916011220 motif 3; other site 485916011221 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 485916011222 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 485916011223 ligand binding site [chemical binding]; other site 485916011224 NAD binding site [chemical binding]; other site 485916011225 dimerization interface [polypeptide binding]; other site 485916011226 catalytic site [active] 485916011227 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 485916011228 putative L-serine binding site [chemical binding]; other site 485916011229 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 485916011230 homodimer interface [polypeptide binding]; other site 485916011231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916011232 catalytic residue [active] 485916011233 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 485916011234 dimerization interface [polypeptide binding]; other site 485916011235 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916011236 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916011237 dimer interface [polypeptide binding]; other site 485916011238 putative CheW interface [polypeptide binding]; other site 485916011239 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; cl01805 485916011240 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916011241 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 485916011242 non-specific DNA binding site [nucleotide binding]; other site 485916011243 salt bridge; other site 485916011244 sequence-specific DNA binding site [nucleotide binding]; other site 485916011245 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 485916011246 PAS domain; Region: PAS_9; pfam13426 485916011247 putative active site [active] 485916011248 heme pocket [chemical binding]; other site 485916011249 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916011250 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916011251 active site 485916011252 phosphorylation site [posttranslational modification] 485916011253 intermolecular recognition site; other site 485916011254 dimerization interface [polypeptide binding]; other site 485916011255 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 485916011256 DNA binding site [nucleotide binding] 485916011257 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 485916011258 predicted active site [active] 485916011259 catalytic triad [active] 485916011260 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 485916011261 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 485916011262 active site 485916011263 multimer interface [polypeptide binding]; other site 485916011264 replicative DNA helicase; Region: DnaB; TIGR00665 485916011265 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 485916011266 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 485916011267 Walker A motif; other site 485916011268 ATP binding site [chemical binding]; other site 485916011269 Walker B motif; other site 485916011270 DNA binding loops [nucleotide binding] 485916011271 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 485916011272 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 485916011273 Walker A motif; other site 485916011274 ATP binding site [chemical binding]; other site 485916011275 Walker B motif; other site 485916011276 arginine finger; other site 485916011277 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 485916011278 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 485916011279 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 485916011280 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 485916011281 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 485916011282 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 485916011283 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 485916011284 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 485916011285 dimer interface [polypeptide binding]; other site 485916011286 ssDNA binding site [nucleotide binding]; other site 485916011287 tetramer (dimer of dimers) interface [polypeptide binding]; other site 485916011288 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 485916011289 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 485916011290 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 485916011291 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 485916011292 oligomer interface [polypeptide binding]; other site 485916011293 putative active site [active] 485916011294 metal binding site [ion binding]; metal-binding site 485916011295 Colicin V production protein; Region: Colicin_V; pfam02674 485916011296 Uncharacterized membrane protein [Function unknown]; Region: COG3949 485916011297 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 485916011298 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 485916011299 ParB-like nuclease domain; Region: ParBc; pfam02195 485916011300 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 485916011301 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 485916011302 P-loop; other site 485916011303 Magnesium ion binding site [ion binding]; other site 485916011304 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 485916011305 Magnesium ion binding site [ion binding]; other site 485916011306 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 485916011307 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 485916011308 S-adenosylmethionine binding site [chemical binding]; other site 485916011309 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 485916011310 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 485916011311 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 485916011312 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 485916011313 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 485916011314 trmE is a tRNA modification GTPase; Region: trmE; cd04164 485916011315 G1 box; other site 485916011316 GTP/Mg2+ binding site [chemical binding]; other site 485916011317 Switch I region; other site 485916011318 G2 box; other site 485916011319 Switch II region; other site 485916011320 G3 box; other site 485916011321 G4 box; other site 485916011322 G5 box; other site 485916011323 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 485916011324 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 485916011325 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 485916011326 G-X-X-G motif; other site 485916011327 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 485916011328 RxxxH motif; other site 485916011329 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 485916011330 Haemolytic domain; Region: Haemolytic; pfam01809 485916011331 ribonuclease P; Reviewed; Region: rnpA; PRK00499 485916011332 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399