-- dump date 20120504_143346 -- 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 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916000020 Walker A/P-loop; other site 485916000021 ATP binding site [chemical binding]; other site 485916000022 Q-loop/lid; other site 485916000023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 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 in DNA...; 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 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916000051 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 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 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 485916000058 ATP binding site [chemical binding]; other site 485916000059 putative Mg++ binding site [ion binding]; other site 485916000060 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 485916000061 nucleotide binding region [chemical binding]; other site 485916000062 ATP-binding site [chemical binding]; other site 485916000063 ATP-dependent DNA helicase, RecQ family; Region: recQ_fam; TIGR00614 485916000064 RQC domain; Region: RQC; cl09632 485916000065 HRDC domain; Region: HRDC; cl02578 485916000066 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 485916000067 SecA binding site; other site 485916000068 Preprotein binding site; other site 485916000069 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 485916000070 putative active site [active] 485916000071 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 485916000072 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916000073 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 485916000074 LrgA family; Region: LrgA; cl00608 485916000075 LrgB-like family; Region: LrgB; cl00596 485916000076 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 485916000077 Helix-turn-helix domains; Region: HTH; cl00088 485916000078 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 485916000079 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 485916000080 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 485916000081 B12 binding site [chemical binding]; other site 485916000082 cobalt ligand [ion binding]; other site 485916000083 Monomethylamine methyltransferase MtmB; Region: MtmB; pfam05369 485916000084 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 485916000085 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 485916000086 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 attaches...; Region: class_II_aaRS-like_core; cl00268 485916000087 motif 1; other site 485916000088 dimer interface [polypeptide binding]; other site 485916000089 active site 485916000090 motif 2; other site 485916000091 motif 3; other site 485916000092 pyrrolysine biosynthesis radical SAM protein; Region: pyrrolys_PylB; TIGR03910 485916000093 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 485916000094 FeS/SAM binding site; other site 485916000095 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 485916000096 pyrrolysine biosynthesis protein PylC; Region: pyrrolys_PylC; TIGR03909 485916000097 ATP-grasp domain; Region: ATP-grasp_4; cl03087 485916000098 pyrrolysine biosynthesis protein PylD; Region: pyrrolys_PylD; TIGR03911 485916000099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916000100 NAD(P) binding pocket [chemical binding]; other site 485916000101 pyrrolysyl-tRNA synthetase, N-terminal region; Region: PylS_Nterm; TIGR03912 485916000102 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 485916000103 Nitrogen regulatory protein P-II; Region: P-II; cl00412 485916000104 Nitrogen regulatory protein P-II; Region: P-II; smart00938 485916000105 Protein of unknown function DUF45; Region: DUF45; cl00636 485916000106 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 485916000107 SdpI/YhfL protein family; Region: SdpI; pfam13630 485916000108 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 485916000109 dimerization interface [polypeptide binding]; other site 485916000110 putative DNA binding site [nucleotide binding]; other site 485916000111 putative Zn2+ binding site [ion binding]; other site 485916000112 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 485916000113 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 485916000114 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 485916000115 germination protein YpeB; Region: spore_YpeB; TIGR02889 485916000116 hypothetical protein; Validated; Region: PRK07682 485916000117 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 485916000118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916000119 homodimer interface [polypeptide binding]; other site 485916000120 catalytic residue [active] 485916000121 AMP-binding enzyme; Region: AMP-binding; cl15778 485916000122 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 485916000123 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916000124 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916000125 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 485916000126 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 485916000127 dimer interface [polypeptide binding]; other site 485916000128 PYR/PP interface [polypeptide binding]; other site 485916000129 TPP binding site [chemical binding]; other site 485916000130 substrate binding site [chemical binding]; other site 485916000131 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 485916000132 TPP-binding site; other site 485916000133 4Fe-4S binding domain; Region: Fer4; cl02805 485916000134 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 485916000135 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 485916000136 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916000137 PAS domain S-box; Region: sensory_box; TIGR00229 485916000138 PAS domain S-box; Region: sensory_box; TIGR00229 485916000139 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916000140 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916000141 metal binding site [ion binding]; metal-binding site 485916000142 active site 485916000143 I-site; other site 485916000144 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 485916000145 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485916000146 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916000147 active site 485916000148 phosphorylation site [posttranslational modification] 485916000149 intermolecular recognition site; other site 485916000150 dimerization interface [polypeptide binding]; other site 485916000151 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 485916000152 Walker A motif; other site 485916000153 ATP binding site [chemical binding]; other site 485916000154 Walker B motif; other site 485916000155 arginine finger; other site 485916000156 Helix-turn-helix domains; Region: HTH; cl00088 485916000157 PAS domain S-box; Region: sensory_box; TIGR00229 485916000158 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 485916000159 putative active site [active] 485916000160 heme pocket [chemical binding]; other site 485916000161 PAS domain S-box; Region: sensory_box; TIGR00229 485916000162 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916000163 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916000164 PAS fold; Region: PAS_4; pfam08448 485916000165 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 485916000166 PAS domain S-box; Region: sensory_box; TIGR00229 485916000167 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916000168 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 485916000169 dimer interface [polypeptide binding]; other site 485916000170 phosphorylation site [posttranslational modification] 485916000171 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916000172 ATP binding site [chemical binding]; other site 485916000173 Mg2+ binding site [ion binding]; other site 485916000174 G-X-G motif; other site 485916000175 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 485916000176 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 485916000177 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 485916000178 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 485916000179 active site 485916000180 HIGH motif; other site 485916000181 KMSK motif region; other site 485916000182 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 485916000183 tRNA binding surface [nucleotide binding]; other site 485916000184 anticodon binding site; other site 485916000185 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 485916000186 CTP synthetase; Validated; Region: pyrG; PRK05380 485916000187 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 485916000188 Catalytic site [active] 485916000189 active site 485916000190 UTP binding site [chemical binding]; other site 485916000191 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 485916000192 active site 485916000193 putative oxyanion hole; other site 485916000194 catalytic triad [active] 485916000195 Response regulator receiver domain; Region: Response_reg; pfam00072 485916000196 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916000197 active site 485916000198 phosphorylation site [posttranslational modification] 485916000199 intermolecular recognition site; other site 485916000200 dimerization interface [polypeptide binding]; other site 485916000201 hypothetical protein; Provisional; Region: PRK08185 485916000202 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 485916000203 intersubunit interface [polypeptide binding]; other site 485916000204 active site 485916000205 zinc binding site [ion binding]; other site 485916000206 Na+ binding site [ion binding]; other site 485916000207 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 485916000208 active site 485916000209 intersubunit interactions; other site 485916000210 catalytic residue [active] 485916000211 transcription termination factor Rho; Provisional; Region: rho; PRK09376 485916000212 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 485916000213 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 485916000214 RNA binding site [nucleotide binding]; other site 485916000215 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 485916000216 multimer interface [polypeptide binding]; other site 485916000217 Walker A motif; other site 485916000218 ATP binding site [chemical binding]; other site 485916000219 Walker B motif; other site 485916000220 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916000221 putative peptidoglycan binding site; other site 485916000222 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916000223 putative peptidoglycan binding site; other site 485916000224 Peptidase family M23; Region: Peptidase_M23; pfam01551 485916000225 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 485916000226 Radical SAM superfamily; Region: Radical_SAM; pfam04055 485916000227 FeS/SAM binding site; other site 485916000228 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 485916000229 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 485916000230 peptide chain release factor 1; Validated; Region: prfA; PRK00591 485916000231 RF-1 domain; Region: RF-1; cl02875 485916000232 RF-1 domain; Region: RF-1; cl02875 485916000233 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 485916000234 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 485916000235 S-adenosylmethionine binding site [chemical binding]; other site 485916000236 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 485916000237 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485916000238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916000239 active site 485916000240 phosphorylation site [posttranslational modification] 485916000241 intermolecular recognition site; other site 485916000242 dimerization interface [polypeptide binding]; other site 485916000243 Protein of unknown function (DUF4001); Region: DUF4001; cl14848 485916000244 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 485916000245 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 485916000246 FeS/SAM binding site; other site 485916000247 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 485916000248 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 485916000249 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 485916000250 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 485916000251 TPR motif; other site 485916000252 binding surface 485916000253 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 485916000254 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 485916000255 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 485916000256 hinge; other site 485916000257 active site 485916000258 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 485916000259 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 485916000260 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916000261 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 485916000262 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 485916000263 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485916000264 Cysteine-rich domain; Region: CCG; pfam02754 485916000265 DsrC like protein; Region: DsrC; cl01101 485916000266 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 485916000267 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916000268 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 485916000269 catalytic triad [active] 485916000270 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 485916000271 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 485916000272 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916000273 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 485916000274 TPR repeat; Region: TPR_11; pfam13414 485916000275 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 485916000276 binding surface 485916000277 TPR motif; other site 485916000278 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 485916000279 binding surface 485916000280 TPR motif; other site 485916000281 Adaptin N terminal region; Region: Adaptin_N; pfam01602 485916000282 HEAT repeats; Region: HEAT_2; pfam13646 485916000283 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 485916000284 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 485916000285 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 485916000286 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 485916000287 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 485916000288 dimer interface [polypeptide binding]; other site 485916000289 PYR/PP interface [polypeptide binding]; other site 485916000290 TPP binding site [chemical binding]; other site 485916000291 substrate binding site [chemical binding]; other site 485916000292 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 485916000293 Domain of unknown function; Region: EKR; cl11037 485916000294 4Fe-4S binding domain; Region: Fer4; cl02805 485916000295 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 485916000296 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 485916000297 TPP-binding site [chemical binding]; other site 485916000298 dimer interface [polypeptide binding]; other site 485916000299 S-layer homology domain; Region: SLH; pfam00395 485916000300 S-layer homology domain; Region: SLH; pfam00395 485916000301 S-layer homology domain; Region: SLH; pfam00395 485916000302 Putative motility protein; Region: YjfB_motility; pfam14070 485916000303 GAF domain; Region: GAF_2; pfam13185 485916000304 GAF domain; Region: GAF; cl15785 485916000305 PAS domain S-box; Region: sensory_box; TIGR00229 485916000306 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 485916000307 putative active site [active] 485916000308 heme pocket [chemical binding]; other site 485916000309 PAS domain S-box; Region: sensory_box; TIGR00229 485916000310 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 485916000311 putative active site [active] 485916000312 heme pocket [chemical binding]; other site 485916000313 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 485916000314 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 485916000315 dimer interface [polypeptide binding]; other site 485916000316 phosphorylation site [posttranslational modification] 485916000317 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916000318 ATP binding site [chemical binding]; other site 485916000319 Mg2+ binding site [ion binding]; other site 485916000320 G-X-G motif; other site 485916000321 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 485916000322 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 485916000323 Walker A motif; other site 485916000324 ATP binding site [chemical binding]; other site 485916000325 Walker B motif; other site 485916000326 arginine finger; other site 485916000327 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 485916000328 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 485916000329 recombination protein RecR; Reviewed; Region: recR; PRK00076 485916000330 RecR protein; Region: RecR; pfam02132 485916000331 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 485916000332 putative active site [active] 485916000333 putative metal-binding site [ion binding]; other site 485916000334 tetramer interface [polypeptide binding]; other site 485916000335 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 485916000336 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 485916000337 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 485916000338 dimer interface [polypeptide binding]; other site 485916000339 PYR/PP interface [polypeptide binding]; other site 485916000340 TPP binding site [chemical binding]; other site 485916000341 substrate binding site [chemical binding]; other site 485916000342 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 485916000343 Domain of unknown function; Region: EKR; cl11037 485916000344 4Fe-4S binding domain; Region: Fer4; cl02805 485916000345 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 485916000346 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 485916000347 TPP-binding site [chemical binding]; other site 485916000348 dimer interface [polypeptide binding]; other site 485916000349 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 485916000350 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 485916000351 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 485916000352 homodimer interface [polypeptide binding]; other site 485916000353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916000354 catalytic residue [active] 485916000355 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 485916000356 thymidylate kinase; Validated; Region: tmk; PRK00698 485916000357 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 485916000358 TMP-binding site; other site 485916000359 ATP-binding site [chemical binding]; other site 485916000360 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 485916000361 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916000362 PSP1 C-terminal conserved region; Region: PSP1; cl00770 485916000363 Protein of unknown function (DUF972); Region: DUF972; pfam06156 485916000364 Predicted methyltransferases [General function prediction only]; Region: COG0313 485916000365 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 485916000366 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 485916000367 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 485916000368 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 485916000369 active site 485916000370 HIGH motif; other site 485916000371 KMSKS motif; other site 485916000372 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 485916000373 tRNA binding surface [nucleotide binding]; other site 485916000374 anticodon binding site; other site 485916000375 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 485916000376 active site 485916000377 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 485916000378 homodimer interface [polypeptide binding]; other site 485916000379 Walker A motif; other site 485916000380 ATP binding site [chemical binding]; other site 485916000381 hydroxycobalamin binding site [chemical binding]; other site 485916000382 Walker B motif; other site 485916000383 Domain of unknown function (DUF348); Region: DUF348; pfam03990 485916000384 Domain of unknown function (DUF348); Region: DUF348; pfam03990 485916000385 G5 domain; Region: G5; pfam07501 485916000386 3D domain; Region: 3D; cl01439 485916000387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916000388 Protein of unknown function (DUF458); Region: DUF458; cl00861 485916000389 YabG peptidase U57; Region: Peptidase_U57; cl05250 485916000390 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 485916000391 Domain of unknown function DUF20; Region: UPF0118; pfam01594 485916000392 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 485916000393 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 485916000394 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 485916000395 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 485916000396 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 485916000397 putative active site [active] 485916000398 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485916000399 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 485916000400 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 485916000401 Walker A/P-loop; other site 485916000402 ATP binding site [chemical binding]; other site 485916000403 Q-loop/lid; other site 485916000404 ABC transporter signature motif; other site 485916000405 Walker B; other site 485916000406 D-loop; other site 485916000407 H-loop/switch region; other site 485916000408 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 485916000409 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 485916000410 dimer interface [polypeptide binding]; other site 485916000411 conserved gate region; other site 485916000412 ABC-ATPase subunit interface; other site 485916000413 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 485916000414 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 485916000415 dimer interface [polypeptide binding]; other site 485916000416 conserved gate region; other site 485916000417 putative PBP binding loops; other site 485916000418 ABC-ATPase subunit interface; other site 485916000419 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 485916000420 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 485916000421 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 485916000422 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 485916000423 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916000424 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 485916000425 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 485916000426 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916000427 RHS Repeat; Region: RHS_repeat; cl11982 485916000428 RHS Repeat; Region: RHS_repeat; cl11982 485916000429 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916000430 RHS Repeat; Region: RHS_repeat; cl11982 485916000431 RHS Repeat; Region: RHS_repeat; cl11982 485916000432 RHS Repeat; Region: RHS_repeat; cl11982 485916000433 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916000434 Protein of unknown function (DUF3887); Region: DUF3887; pfam13026 485916000435 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916000436 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 485916000437 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916000438 Helix-turn-helix domains; Region: HTH; cl00088 485916000439 Winged helix-turn helix; Region: HTH_29; pfam13551 485916000440 Integrase core domain; Region: rve; cl01316 485916000441 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916000442 Helix-turn-helix domains; Region: HTH; cl00088 485916000443 Winged helix-turn helix; Region: HTH_29; pfam13551 485916000444 Integrase core domain; Region: rve; cl01316 485916000445 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916000446 RHS Repeat; Region: RHS_repeat; cl11982 485916000447 RHS Repeat; Region: RHS_repeat; cl11982 485916000448 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916000449 Helix-turn-helix domains; Region: HTH; cl00088 485916000450 Winged helix-turn helix; Region: HTH_29; pfam13551 485916000451 Winged helix-turn helix; Region: HTH_33; pfam13592 485916000452 Integrase core domain; Region: rve; cl01316 485916000453 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916000454 RHS Repeat; Region: RHS_repeat; cl11982 485916000455 RHS Repeat; Region: RHS_repeat; cl11982 485916000456 RHS Repeat; Region: RHS_repeat; cl11982 485916000457 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916000458 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 485916000459 HicB family; Region: HicB; pfam05534 485916000460 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 485916000461 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 485916000462 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916000463 RHS Repeat; Region: RHS_repeat; cl11982 485916000464 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916000465 RHS Repeat; Region: RHS_repeat; cl11982 485916000466 RHS Repeat; Region: RHS_repeat; cl11982 485916000467 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916000468 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 485916000469 non-specific DNA binding site [nucleotide binding]; other site 485916000470 salt bridge; other site 485916000471 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 485916000472 sequence-specific DNA binding site [nucleotide binding]; other site 485916000473 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 485916000474 Helix-turn-helix domains; Region: HTH; cl00088 485916000475 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 485916000476 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 485916000477 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 485916000478 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 485916000479 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 485916000480 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 485916000481 Polysulphide reductase, NrfD; Region: NrfD; cl01295 485916000482 Helix-turn-helix domains; Region: HTH; cl00088 485916000483 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 485916000484 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 485916000485 putative dimerization interface [polypeptide binding]; other site 485916000486 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 485916000487 catalytic loop [active] 485916000488 iron binding site [ion binding]; other site 485916000489 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 485916000490 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 485916000491 4Fe-4S binding domain; Region: Fer4; cl02805 485916000492 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 485916000493 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 485916000494 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 485916000495 dimer interface [polypeptide binding]; other site 485916000496 [2Fe-2S] cluster binding site [ion binding]; other site 485916000497 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 485916000498 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 485916000499 SLBB domain; Region: SLBB; pfam10531 485916000500 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 485916000501 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 485916000502 4Fe-4S binding domain; Region: Fer4; cl02805 485916000503 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 485916000504 dimer interface [polypeptide binding]; other site 485916000505 [2Fe-2S] cluster binding site [ion binding]; other site 485916000506 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916000507 ATP binding site [chemical binding]; other site 485916000508 Mg2+ binding site [ion binding]; other site 485916000509 G-X-G motif; other site 485916000510 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 485916000511 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 485916000512 putative dimer interface [polypeptide binding]; other site 485916000513 [2Fe-2S] cluster binding site [ion binding]; other site 485916000514 DRTGG domain; Region: DRTGG; cl12147 485916000515 4Fe-4S binding domain; Region: Fer4; cl02805 485916000516 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 485916000517 4Fe-4S binding domain; Region: Fer4; cl02805 485916000518 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 485916000519 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 485916000520 Putative Fe-S cluster; Region: FeS; pfam04060 485916000521 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 485916000522 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916000523 ATP binding site [chemical binding]; other site 485916000524 Mg2+ binding site [ion binding]; other site 485916000525 G-X-G motif; other site 485916000526 DRTGG domain; Region: DRTGG; cl12147 485916000527 biotin synthase; Provisional; Region: PRK07094 485916000528 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 485916000529 FeS/SAM binding site; other site 485916000530 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 485916000531 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 485916000532 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 485916000533 FeS/SAM binding site; other site 485916000534 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 485916000535 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 485916000536 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 485916000537 G1 box; other site 485916000538 GTP/Mg2+ binding site [chemical binding]; other site 485916000539 Switch I region; other site 485916000540 G2 box; other site 485916000541 Switch II region; other site 485916000542 G3 box; other site 485916000543 G4 box; other site 485916000544 G5 box; other site 485916000545 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 485916000546 Aspartase; Region: Aspartase; cd01357 485916000547 active sites [active] 485916000548 tetramer interface [polypeptide binding]; other site 485916000549 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916000550 Probable transposase; Region: OrfB_IS605; pfam01385 485916000551 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916000552 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 485916000553 dimerization interface [polypeptide binding]; other site 485916000554 active site 485916000555 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916000556 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 485916000557 catalytic residues [active] 485916000558 catalytic nucleophile [active] 485916000559 Recombinase; Region: Recombinase; pfam07508 485916000560 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916000561 Protein of unknown function (DUF2810); Region: DUF2810; cl08159 485916000562 Peptidase S7, Flavivirus NS3 serine protease; Region: Peptidase_S7; pfam00949 485916000563 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 485916000564 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 485916000565 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 485916000566 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916000567 putative peptidoglycan binding site; other site 485916000568 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 485916000569 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916000570 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916000571 Protein of unknown function, DUF606; Region: DUF606; cl01273 485916000572 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 485916000573 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 485916000574 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916000575 putative peptidoglycan binding site; other site 485916000576 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 485916000577 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 485916000578 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 485916000579 Transcriptional regulators [Transcription]; Region: GntR; COG1802 485916000580 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485916000581 DNA-binding site [nucleotide binding]; DNA binding site 485916000582 FCD domain; Region: FCD; cl11656 485916000583 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 485916000584 active site 485916000585 SpoVG; Region: SpoVG; cl00915 485916000586 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 485916000587 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 485916000588 Substrate binding site; other site 485916000589 Mg++ binding site; other site 485916000590 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 485916000591 active site 485916000592 substrate binding site [chemical binding]; other site 485916000593 CoA binding site [chemical binding]; other site 485916000594 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 485916000595 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 485916000596 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916000597 active site 485916000598 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 485916000599 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 485916000600 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 485916000601 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 485916000602 5S rRNA interface [nucleotide binding]; other site 485916000603 CTC domain interface [polypeptide binding]; other site 485916000604 L16 interface [polypeptide binding]; other site 485916000605 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 485916000606 putative active site [active] 485916000607 catalytic residue [active] 485916000608 Haemolysin-III related; Region: HlyIII; cl03831 485916000609 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916000610 DEAD-like helicases superfamily; Region: DEXDc; smart00487 485916000611 ATP binding site [chemical binding]; other site 485916000612 putative Mg++ binding site [ion binding]; other site 485916000613 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 485916000614 nucleotide binding region [chemical binding]; other site 485916000615 ATP-binding site [chemical binding]; other site 485916000616 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 485916000617 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 485916000618 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 485916000619 ATP binding site [chemical binding]; other site 485916000620 putative Mg++ binding site [ion binding]; other site 485916000621 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 485916000622 nucleotide binding region [chemical binding]; other site 485916000623 ATP-binding site [chemical binding]; other site 485916000624 TRCF domain; Region: TRCF; cl04088 485916000625 SurA N-terminal domain; Region: SurA_N_3; cl07813 485916000626 PPIC-type PPIASE domain; Region: Rotamase; cl08278 485916000627 stage V sporulation protein T; Region: spore_V_T; TIGR02851 485916000628 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 485916000629 GAF domain; Region: GAF; cl15785 485916000630 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 485916000631 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 485916000632 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 485916000633 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 485916000634 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 485916000635 IHF dimer interface [polypeptide binding]; other site 485916000636 IHF - DNA interface [nucleotide binding]; other site 485916000637 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 485916000638 Stage II sporulation protein; Region: SpoIID; pfam08486 485916000639 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 485916000640 YabP family; Region: YabP; cl06766 485916000641 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 485916000642 Septum formation initiator; Region: DivIC; cl11433 485916000643 hypothetical protein; Provisional; Region: PRK08582 485916000644 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 485916000645 RNA binding site [nucleotide binding]; other site 485916000646 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 485916000647 stage II sporulation protein E; Region: spore_II_E; TIGR02865 485916000648 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; cl00120 485916000649 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 485916000650 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 485916000651 Ligand Binding Site [chemical binding]; other site 485916000652 B3/4 domain; Region: B3_4; cl11458 485916000653 FtsH Extracellular; Region: FtsH_ext; pfam06480 485916000654 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 485916000655 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 485916000656 Walker A motif; other site 485916000657 ATP binding site [chemical binding]; other site 485916000658 Walker B motif; other site 485916000659 arginine finger; other site 485916000660 Peptidase family M41; Region: Peptidase_M41; pfam01434 485916000661 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 485916000662 active site 485916000663 multimer interface [polypeptide binding]; other site 485916000664 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 485916000665 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 485916000666 Potassium binding sites [ion binding]; other site 485916000667 Cesium cation binding sites [ion binding]; other site 485916000668 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916000669 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916000670 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916000671 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 485916000672 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 485916000673 dihydropteroate synthase; Region: DHPS; TIGR01496 485916000674 substrate binding pocket [chemical binding]; other site 485916000675 dimer interface [polypeptide binding]; other site 485916000676 inhibitor binding site; inhibition site 485916000677 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 485916000678 homooctamer interface [polypeptide binding]; other site 485916000679 active site 485916000680 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 485916000681 catalytic center binding site [active] 485916000682 ATP binding site [chemical binding]; other site 485916000683 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 485916000684 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 485916000685 Uncharacterized conserved protein [Function unknown]; Region: COG5495 485916000686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916000687 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 485916000688 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 485916000689 oligomerization interface [polypeptide binding]; other site 485916000690 active site 485916000691 metal binding site [ion binding]; metal-binding site 485916000692 pantoate--beta-alanine ligase; Region: panC; TIGR00018 485916000693 Pantoate-beta-alanine ligase; Region: PanC; cd00560 485916000694 active site 485916000695 ATP-binding site [chemical binding]; other site 485916000696 pantoate-binding site; other site 485916000697 HXXH motif; other site 485916000698 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 485916000699 tetramerization interface [polypeptide binding]; other site 485916000700 active site 485916000701 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 485916000702 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 485916000703 Helix-turn-helix domains; Region: HTH; cl00088 485916000704 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 485916000705 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 485916000706 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 485916000707 dimerization interface [polypeptide binding]; other site 485916000708 putative DNA binding site [nucleotide binding]; other site 485916000709 putative Zn2+ binding site [ion binding]; other site 485916000710 Type III pantothenate kinase; Region: Pan_kinase; cl09130 485916000711 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 485916000712 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 485916000713 FMN binding site [chemical binding]; other site 485916000714 active site 485916000715 catalytic residues [active] 485916000716 substrate binding site [chemical binding]; other site 485916000717 Predicted dehydrogenase [General function prediction only]; Region: COG5322 485916000718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916000719 NAD(P) binding pocket [chemical binding]; other site 485916000720 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 485916000721 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 485916000722 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 485916000723 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 485916000724 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 485916000725 dimer interface [polypeptide binding]; other site 485916000726 putative anticodon binding site; other site 485916000727 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 485916000728 motif 1; other site 485916000729 active site 485916000730 motif 2; other site 485916000731 motif 3; other site 485916000732 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 485916000733 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 485916000734 UvrB/uvrC motif; Region: UVR; pfam02151 485916000735 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 485916000736 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 485916000737 ADP binding site [chemical binding]; other site 485916000738 phosphagen binding site; other site 485916000739 substrate specificity loop; other site 485916000740 Clp protease ATP binding subunit; Region: clpC; CHL00095 485916000741 Clp amino terminal domain; Region: Clp_N; pfam02861 485916000742 Clp amino terminal domain; Region: Clp_N; pfam02861 485916000743 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 485916000744 Walker A motif; other site 485916000745 ATP binding site [chemical binding]; other site 485916000746 Walker B motif; other site 485916000747 arginine finger; other site 485916000748 UvrB/uvrC motif; Region: UVR; pfam02151 485916000749 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 485916000750 Walker A motif; other site 485916000751 ATP binding site [chemical binding]; other site 485916000752 Walker B motif; other site 485916000753 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 485916000754 DNA repair protein RadA; Provisional; Region: PRK11823 485916000755 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 485916000756 Walker A motif/ATP binding site; other site 485916000757 ATP binding site [chemical binding]; other site 485916000758 Walker B motif; other site 485916000759 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 485916000760 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 485916000761 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 485916000762 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 485916000763 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 485916000764 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 485916000765 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 485916000766 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 485916000767 putative active site [active] 485916000768 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 485916000769 substrate binding site; other site 485916000770 dimer interface; other site 485916000771 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 485916000772 homotrimer interaction site [polypeptide binding]; other site 485916000773 zinc binding site [ion binding]; other site 485916000774 CDP-binding sites; other site 485916000775 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 485916000776 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 485916000777 active site 485916000778 HIGH motif; other site 485916000779 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 485916000780 active site 485916000781 KMSKS motif; other site 485916000782 serine O-acetyltransferase; Region: cysE; TIGR01172 485916000783 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 485916000784 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 485916000785 trimer interface [polypeptide binding]; other site 485916000786 active site 485916000787 substrate binding site [chemical binding]; other site 485916000788 CoA binding site [chemical binding]; other site 485916000789 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 485916000790 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 485916000791 active site 485916000792 HIGH motif; other site 485916000793 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 485916000794 KMSKS motif; other site 485916000795 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 485916000796 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 485916000797 active site 485916000798 metal binding site [ion binding]; metal-binding site 485916000799 dimerization interface [polypeptide binding]; other site 485916000800 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 485916000801 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 485916000802 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 485916000803 YacP-like NYN domain; Region: NYN_YacP; cl01491 485916000804 RNA polymerase factor sigma-70; Validated; Region: PRK08295 485916000805 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916000806 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916000807 elongation factor Tu; Reviewed; Region: PRK00049 485916000808 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 485916000809 G1 box; other site 485916000810 GEF interaction site [polypeptide binding]; other site 485916000811 GTP/Mg2+ binding site [chemical binding]; other site 485916000812 Switch I region; other site 485916000813 G2 box; other site 485916000814 G3 box; other site 485916000815 Switch II region; other site 485916000816 G4 box; other site 485916000817 G5 box; other site 485916000818 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 485916000819 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 485916000820 Antibiotic Binding Site [chemical binding]; other site 485916000821 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 485916000822 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 485916000823 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 485916000824 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 485916000825 putative homodimer interface [polypeptide binding]; other site 485916000826 KOW motif; Region: KOW; cl00354 485916000827 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 485916000828 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 485916000829 23S rRNA interface [nucleotide binding]; other site 485916000830 L7/L12 interface [polypeptide binding]; other site 485916000831 putative thiostrepton binding site; other site 485916000832 L25 interface [polypeptide binding]; other site 485916000833 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 485916000834 mRNA/rRNA interface [nucleotide binding]; other site 485916000835 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 485916000836 23S rRNA interface [nucleotide binding]; other site 485916000837 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 485916000838 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 485916000839 peripheral dimer interface [polypeptide binding]; other site 485916000840 core dimer interface [polypeptide binding]; other site 485916000841 L10 interface [polypeptide binding]; other site 485916000842 L11 interface [polypeptide binding]; other site 485916000843 putative EF-Tu interaction site [polypeptide binding]; other site 485916000844 putative EF-G interaction site [polypeptide binding]; other site 485916000845 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 485916000846 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; cl04593 485916000847 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 485916000848 RPB1 interaction site [polypeptide binding]; other site 485916000849 RPB10 interaction site [polypeptide binding]; other site 485916000850 RPB11 interaction site [polypeptide binding]; other site 485916000851 RPB3 interaction site [polypeptide binding]; other site 485916000852 RPB12 interaction site [polypeptide binding]; other site 485916000853 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 485916000854 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 485916000855 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 485916000856 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 485916000857 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 485916000858 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 485916000859 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 485916000860 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 485916000861 G-loop; other site 485916000862 DNA binding site [nucleotide binding] 485916000863 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 485916000864 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 485916000865 S17 interaction site [polypeptide binding]; other site 485916000866 S8 interaction site; other site 485916000867 16S rRNA interaction site [nucleotide binding]; other site 485916000868 streptomycin interaction site [chemical binding]; other site 485916000869 23S rRNA interaction site [nucleotide binding]; other site 485916000870 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 485916000871 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 485916000872 elongation factor G; Reviewed; Region: PRK00007 485916000873 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 485916000874 G1 box; other site 485916000875 putative GEF interaction site [polypeptide binding]; other site 485916000876 GTP/Mg2+ binding site [chemical binding]; other site 485916000877 Switch I region; other site 485916000878 G2 box; other site 485916000879 G3 box; other site 485916000880 Switch II region; other site 485916000881 G4 box; other site 485916000882 G5 box; other site 485916000883 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 485916000884 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 485916000885 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 485916000886 elongation factor Tu; Reviewed; Region: PRK00049 485916000887 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 485916000888 G1 box; other site 485916000889 GEF interaction site [polypeptide binding]; other site 485916000890 GTP/Mg2+ binding site [chemical binding]; other site 485916000891 Switch I region; other site 485916000892 G2 box; other site 485916000893 G3 box; other site 485916000894 Switch II region; other site 485916000895 G4 box; other site 485916000896 G5 box; other site 485916000897 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 485916000898 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 485916000899 Antibiotic Binding Site [chemical binding]; other site 485916000900 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 485916000901 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 485916000902 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 485916000903 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 485916000904 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 485916000905 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 485916000906 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 485916000907 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 485916000908 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 485916000909 putative translocon binding site; other site 485916000910 protein-rRNA interface [nucleotide binding]; other site 485916000911 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 485916000912 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 485916000913 G-X-X-G motif; other site 485916000914 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 485916000915 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 485916000916 23S rRNA interface [nucleotide binding]; other site 485916000917 5S rRNA interface [nucleotide binding]; other site 485916000918 putative antibiotic binding site [chemical binding]; other site 485916000919 L25 interface [polypeptide binding]; other site 485916000920 L27 interface [polypeptide binding]; other site 485916000921 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 485916000922 23S rRNA interface [nucleotide binding]; other site 485916000923 putative translocon interaction site; other site 485916000924 signal recognition particle (SRP54) interaction site; other site 485916000925 L23 interface [polypeptide binding]; other site 485916000926 trigger factor interaction site; other site 485916000927 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 485916000928 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 485916000929 KOW motif; Region: KOW; cl00354 485916000930 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 485916000931 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 485916000932 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 485916000933 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 485916000934 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 485916000935 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 485916000936 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 485916000937 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 485916000938 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 485916000939 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 485916000940 5S rRNA interface [nucleotide binding]; other site 485916000941 23S rRNA interface [nucleotide binding]; other site 485916000942 L5 interface [polypeptide binding]; other site 485916000943 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 485916000944 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 485916000945 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 485916000946 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 485916000947 23S rRNA binding site [nucleotide binding]; other site 485916000948 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 485916000949 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 485916000950 SecY translocase; Region: SecY; pfam00344 485916000951 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 485916000952 active site 485916000953 Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]; Region: RPL14A; COG2163 485916000954 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 485916000955 rRNA binding site [nucleotide binding]; other site 485916000956 predicted 30S ribosome binding site; other site 485916000957 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 485916000958 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 485916000959 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 485916000960 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 485916000961 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 485916000962 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 485916000963 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 485916000964 RNA binding surface [nucleotide binding]; other site 485916000965 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 485916000966 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 485916000967 alphaNTD - beta interaction site [polypeptide binding]; other site 485916000968 alphaNTD homodimer interface [polypeptide binding]; other site 485916000969 alphaNTD - beta' interaction site [polypeptide binding]; other site 485916000970 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 485916000971 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 485916000972 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 485916000973 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 485916000974 Walker A/P-loop; other site 485916000975 ATP binding site [chemical binding]; other site 485916000976 Q-loop/lid; other site 485916000977 ABC transporter signature motif; other site 485916000978 Walker B; other site 485916000979 D-loop; other site 485916000980 H-loop/switch region; other site 485916000981 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 485916000982 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 485916000983 Walker A/P-loop; other site 485916000984 ATP binding site [chemical binding]; other site 485916000985 Q-loop/lid; other site 485916000986 ABC transporter signature motif; other site 485916000987 Walker B; other site 485916000988 D-loop; other site 485916000989 H-loop/switch region; other site 485916000990 Cobalt transport protein; Region: CbiQ; cl00463 485916000991 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 485916000992 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 485916000993 dimerization interface 3.5A [polypeptide binding]; other site 485916000994 active site 485916000995 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 485916000996 23S rRNA interface [nucleotide binding]; other site 485916000997 L3 interface [polypeptide binding]; other site 485916000998 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 485916000999 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 485916001000 active site 485916001001 metal binding site [ion binding]; metal-binding site 485916001002 LysE type translocator; Region: LysE; cl00565 485916001003 LysE type translocator; Region: LysE; cl00565 485916001004 hypothetical protein; Provisional; Region: PRK03881 485916001005 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 485916001006 AMMECR1; Region: AMMECR1; cl00911 485916001007 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 485916001008 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 485916001009 FeS/SAM binding site; other site 485916001010 Rhomboid family; Region: Rhomboid; cl11446 485916001011 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 485916001012 S-adenosylmethionine binding site [chemical binding]; other site 485916001013 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 485916001014 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 485916001015 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 485916001016 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 485916001017 dimer interface [polypeptide binding]; other site 485916001018 conserved gate region; other site 485916001019 putative PBP binding loops; other site 485916001020 ABC-ATPase subunit interface; other site 485916001021 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 485916001022 dimer interface [polypeptide binding]; other site 485916001023 conserved gate region; other site 485916001024 putative PBP binding loops; other site 485916001025 ABC-ATPase subunit interface; other site 485916001026 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 485916001027 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 485916001028 Walker A/P-loop; other site 485916001029 ATP binding site [chemical binding]; other site 485916001030 Q-loop/lid; other site 485916001031 ABC transporter signature motif; other site 485916001032 Walker B; other site 485916001033 D-loop; other site 485916001034 H-loop/switch region; other site 485916001035 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001036 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 485916001037 Walker A/P-loop; other site 485916001038 ATP binding site [chemical binding]; other site 485916001039 Q-loop/lid; other site 485916001040 ABC transporter signature motif; other site 485916001041 Walker B; other site 485916001042 D-loop; other site 485916001043 H-loop/switch region; other site 485916001044 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001045 ferric uptake regulator; Provisional; Region: fur; PRK09462 485916001046 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 485916001047 metal binding site 2 [ion binding]; metal-binding site 485916001048 putative DNA binding helix; other site 485916001049 metal binding site 1 [ion binding]; metal-binding site 485916001050 dimer interface [polypeptide binding]; other site 485916001051 structural Zn2+ binding site [ion binding]; other site 485916001052 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 485916001053 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 485916001054 intersubunit interface [polypeptide binding]; other site 485916001055 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 485916001056 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916001057 Walker A/P-loop; other site 485916001058 ATP binding site [chemical binding]; other site 485916001059 Q-loop/lid; other site 485916001060 ABC transporter signature motif; other site 485916001061 Walker B; other site 485916001062 D-loop; other site 485916001063 H-loop/switch region; other site 485916001064 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 485916001065 ABC-ATPase subunit interface; other site 485916001066 dimer interface [polypeptide binding]; other site 485916001067 putative PBP binding regions; other site 485916001068 Predicted permeases [General function prediction only]; Region: COG0701 485916001069 Predicted permease; Region: DUF318; pfam03773 485916001070 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 485916001071 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 485916001072 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916001073 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 485916001074 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 485916001075 glutathione reductase; Region: PLN02507 485916001076 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 485916001077 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 485916001078 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 485916001079 homodimer interaction site [polypeptide binding]; other site 485916001080 cofactor binding site; other site 485916001081 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 485916001082 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 485916001083 P-loop; other site 485916001084 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916001085 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 485916001086 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 485916001087 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 485916001088 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 485916001089 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 485916001090 dimer interface [polypeptide binding]; other site 485916001091 conserved gate region; other site 485916001092 putative PBP binding loops; other site 485916001093 ABC-ATPase subunit interface; other site 485916001094 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 485916001095 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 485916001096 Walker A/P-loop; other site 485916001097 ATP binding site [chemical binding]; other site 485916001098 Q-loop/lid; other site 485916001099 ABC transporter signature motif; other site 485916001100 Walker B; other site 485916001101 D-loop; other site 485916001102 H-loop/switch region; other site 485916001103 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001104 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 485916001105 Walker A/P-loop; other site 485916001106 ATP binding site [chemical binding]; other site 485916001107 Q-loop/lid; other site 485916001108 ABC transporter signature motif; other site 485916001109 Walker B; other site 485916001110 D-loop; other site 485916001111 H-loop/switch region; other site 485916001112 nickel import ATP-binding protein NikE; Region: nickel_nikE; TIGR02769 485916001113 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 485916001114 Walker A/P-loop; other site 485916001115 ATP binding site [chemical binding]; other site 485916001116 Q-loop/lid; other site 485916001117 ABC transporter signature motif; other site 485916001118 Walker B; other site 485916001119 D-loop; other site 485916001120 H-loop/switch region; other site 485916001121 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001122 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 485916001123 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 485916001124 Walker A/P-loop; other site 485916001125 ATP binding site [chemical binding]; other site 485916001126 Q-loop/lid; other site 485916001127 ABC transporter signature motif; other site 485916001128 Walker B; other site 485916001129 D-loop; other site 485916001130 H-loop/switch region; other site 485916001131 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001132 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 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 dimer interface [polypeptide binding]; other site 485916001135 conserved gate region; other site 485916001136 putative PBP binding loops; other site 485916001137 ABC-ATPase subunit interface; other site 485916001138 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 485916001139 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 485916001140 dimer interface [polypeptide binding]; other site 485916001141 conserved gate region; other site 485916001142 putative PBP binding loops; other site 485916001143 ABC-ATPase subunit interface; other site 485916001144 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 485916001145 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 485916001146 substrate binding site [chemical binding]; other site 485916001147 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 485916001148 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 485916001149 S-adenosylmethionine binding site [chemical binding]; other site 485916001150 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 485916001151 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 485916001152 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 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 multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916001161 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 485916001162 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 485916001163 Walker A/P-loop; other site 485916001164 ATP binding site [chemical binding]; other site 485916001165 Q-loop/lid; other site 485916001166 ABC transporter signature motif; other site 485916001167 Walker B; other site 485916001168 D-loop; other site 485916001169 H-loop/switch region; other site 485916001170 peroxiredoxin; Provisional; Region: PRK13189 485916001171 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 485916001172 dimer interface [polypeptide binding]; other site 485916001173 decamer (pentamer of dimers) interface [polypeptide binding]; other site 485916001174 catalytic triad [active] 485916001175 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 485916001176 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916001177 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 485916001178 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 485916001179 Flavin Reductases; Region: FlaRed; cl00801 485916001180 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 485916001181 S-adenosylmethionine binding site [chemical binding]; other site 485916001182 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 485916001183 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 485916001184 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 485916001185 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 485916001186 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 485916001187 dimer interface [polypeptide binding]; other site 485916001188 conserved gate region; other site 485916001189 putative PBP binding loops; other site 485916001190 ABC-ATPase subunit interface; other site 485916001191 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 485916001192 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 485916001193 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 485916001194 dimer interface [polypeptide binding]; other site 485916001195 conserved gate region; other site 485916001196 putative PBP binding loops; other site 485916001197 ABC-ATPase subunit interface; other site 485916001198 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 485916001199 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 485916001200 Walker A/P-loop; other site 485916001201 ATP binding site [chemical binding]; other site 485916001202 Q-loop/lid; other site 485916001203 ABC transporter signature motif; other site 485916001204 Walker B; other site 485916001205 D-loop; other site 485916001206 H-loop/switch region; other site 485916001207 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001208 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 485916001209 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 485916001210 Walker A/P-loop; other site 485916001211 ATP binding site [chemical binding]; other site 485916001212 Q-loop/lid; other site 485916001213 ABC transporter signature motif; other site 485916001214 Walker B; other site 485916001215 D-loop; other site 485916001216 H-loop/switch region; other site 485916001217 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001218 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 485916001219 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 485916001220 SelR domain; Region: SelR; pfam01641 485916001221 Jacalin-like plant lectin domain; Region: Jacalin; cd09612 485916001222 sugar binding site [chemical binding]; other site 485916001223 Jacalin-like lectin domain; Region: Jacalin_like; cd09302 485916001224 putative sugar binding site [chemical binding]; other site 485916001225 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 485916001226 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916001227 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916001228 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916001229 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916001230 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 485916001231 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916001232 ATP binding site [chemical binding]; other site 485916001233 Mg2+ binding site [ion binding]; other site 485916001234 G-X-G motif; other site 485916001235 Accessory gene regulator B; Region: AgrB; cl01873 485916001236 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485916001237 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001238 active site 485916001239 phosphorylation site [posttranslational modification] 485916001240 intermolecular recognition site; other site 485916001241 dimerization interface [polypeptide binding]; other site 485916001242 LytTr DNA-binding domain; Region: LytTR; cl04498 485916001243 UNC-50 family; Region: UNC-50; pfam05216 485916001244 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 485916001245 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916001246 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485916001247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001248 active site 485916001249 phosphorylation site [posttranslational modification] 485916001250 intermolecular recognition site; other site 485916001251 dimerization interface [polypeptide binding]; other site 485916001252 LytTr DNA-binding domain; Region: LytTR; cl04498 485916001253 Accessory gene regulator B; Region: AgrB; cl01873 485916001254 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 485916001255 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916001256 ATP binding site [chemical binding]; other site 485916001257 Mg2+ binding site [ion binding]; other site 485916001258 G-X-G motif; other site 485916001259 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; cd00316 485916001260 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 485916001261 Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]; Region: NifH; COG1348 485916001262 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 485916001263 Nucleotide-binding sites [chemical binding]; other site 485916001264 Walker A motif; other site 485916001265 Switch I region of nucleotide binding site; other site 485916001266 Fe4S4 binding sites [ion binding]; other site 485916001267 Switch II region of nucleotide binding site; other site 485916001268 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 485916001269 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 485916001270 SseB protein; Region: SseB; cl06279 485916001271 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 485916001272 S-layer homology domain; Region: SLH; pfam00395 485916001273 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 485916001274 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 485916001275 putative active site [active] 485916001276 homotetrameric interface [polypeptide binding]; other site 485916001277 metal binding site [ion binding]; metal-binding site 485916001278 RelB antitoxin; Region: RelB; cl01171 485916001279 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916001280 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916001281 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916001282 Probable transposase; Region: OrfB_IS605; pfam01385 485916001283 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916001284 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 485916001285 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 485916001286 S-layer homology domain; Region: SLH; pfam00395 485916001287 S-layer homology domain; Region: SLH; pfam00395 485916001288 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916001289 Helix-turn-helix domain; Region: HTH_18; pfam12833 485916001290 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485916001291 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 485916001292 DNA binding residues [nucleotide binding] 485916001293 dimerization interface [polypeptide binding]; other site 485916001294 S-layer homology domain; Region: SLH; pfam00395 485916001295 S-layer homology domain; Region: SLH; pfam00395 485916001296 S-layer homology domain; Region: SLH; pfam00395 485916001297 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 485916001298 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916001299 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 485916001300 Flavin Reductases; Region: FlaRed; cl00801 485916001301 Helix-turn-helix domains; Region: HTH; cl00088 485916001302 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485916001303 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 485916001304 active site 485916001305 nucleotide binding site [chemical binding]; other site 485916001306 HIGH motif; other site 485916001307 KMSKS motif; other site 485916001308 RNA polymerase factor sigma-70; Validated; Region: PRK06811 485916001309 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916001310 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916001311 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 485916001312 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 485916001313 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 485916001314 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916001315 Walker A/P-loop; other site 485916001316 ATP binding site [chemical binding]; other site 485916001317 Q-loop/lid; other site 485916001318 ABC transporter signature motif; other site 485916001319 Walker B; other site 485916001320 D-loop; other site 485916001321 H-loop/switch region; other site 485916001322 rod shape-determining protein MreB; Provisional; Region: PRK13927 485916001323 Cell division protein FtsA; Region: FtsA; cl11496 485916001324 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 485916001325 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 485916001326 Walker A/P-loop; other site 485916001327 ATP binding site [chemical binding]; other site 485916001328 Q-loop/lid; other site 485916001329 ABC transporter signature motif; other site 485916001330 Walker B; other site 485916001331 D-loop; other site 485916001332 H-loop/switch region; other site 485916001333 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 485916001334 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 485916001335 Walker A/P-loop; other site 485916001336 ATP binding site [chemical binding]; other site 485916001337 Q-loop/lid; other site 485916001338 ABC transporter signature motif; other site 485916001339 Walker B; other site 485916001340 D-loop; other site 485916001341 H-loop/switch region; other site 485916001342 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001343 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 485916001344 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 485916001345 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 485916001346 putative PBP binding loops; other site 485916001347 dimer interface [polypeptide binding]; other site 485916001348 ABC-ATPase subunit interface; other site 485916001349 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 485916001350 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 485916001351 dimer interface [polypeptide binding]; other site 485916001352 conserved gate region; other site 485916001353 putative PBP binding loops; other site 485916001354 ABC-ATPase subunit interface; other site 485916001355 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 485916001356 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 485916001357 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 485916001358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916001359 Helix-turn-helix domains; Region: HTH; cl00088 485916001360 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916001361 Helix-turn-helix domains; Region: HTH; cl00088 485916001362 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 485916001363 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916001364 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 485916001365 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 485916001366 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916001367 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916001368 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916001369 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916001370 Probable transposase; Region: OrfB_IS605; pfam01385 485916001371 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916001372 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 485916001373 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 485916001374 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 485916001375 Protein of unknown function (DUF419); Region: DUF419; cl15265 485916001376 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 485916001377 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916001378 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 485916001379 catalytic residues [active] 485916001380 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916001381 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916001382 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916001383 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916001384 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 485916001385 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 485916001386 EamA-like transporter family; Region: EamA; cl01037 485916001387 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 485916001388 EamA-like transporter family; Region: EamA; cl01037 485916001389 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 485916001390 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 485916001391 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916001392 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916001393 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 485916001394 binding surface 485916001395 TPR repeat; Region: TPR_11; pfam13414 485916001396 TPR motif; other site 485916001397 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 485916001398 binding surface 485916001399 TPR motif; other site 485916001400 TPR repeat; Region: TPR_11; pfam13414 485916001401 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 485916001402 binding surface 485916001403 TPR motif; other site 485916001404 Tetratricopeptide repeat; Region: TPR_12; pfam13424 485916001405 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 485916001406 Radical SAM superfamily; Region: Radical_SAM; pfam04055 485916001407 FeS/SAM binding site; other site 485916001408 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 485916001409 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 485916001410 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916001411 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 485916001412 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 485916001413 ABC-ATPase subunit interface; other site 485916001414 dimer interface [polypeptide binding]; other site 485916001415 putative PBP binding regions; other site 485916001416 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 485916001417 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 485916001418 Walker A/P-loop; other site 485916001419 ATP binding site [chemical binding]; other site 485916001420 Q-loop/lid; other site 485916001421 ABC transporter signature motif; other site 485916001422 Walker B; other site 485916001423 D-loop; other site 485916001424 H-loop/switch region; other site 485916001425 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 485916001426 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 485916001427 S-adenosylmethionine binding site [chemical binding]; other site 485916001428 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916001429 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001430 active site 485916001431 phosphorylation site [posttranslational modification] 485916001432 intermolecular recognition site; other site 485916001433 dimerization interface [polypeptide binding]; other site 485916001434 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 485916001435 DNA binding site [nucleotide binding] 485916001436 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 485916001437 dimer interface [polypeptide binding]; other site 485916001438 phosphorylation site [posttranslational modification] 485916001439 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916001440 ATP binding site [chemical binding]; other site 485916001441 Mg2+ binding site [ion binding]; other site 485916001442 G-X-G motif; other site 485916001443 VanZ like family; Region: VanZ; cl01971 485916001444 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 485916001445 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 485916001446 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 485916001447 dimer interface [polypeptide binding]; other site 485916001448 conserved gate region; other site 485916001449 ABC-ATPase subunit interface; other site 485916001450 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 485916001451 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 485916001452 dimer interface [polypeptide binding]; other site 485916001453 conserved gate region; other site 485916001454 putative PBP binding loops; other site 485916001455 ABC-ATPase subunit interface; other site 485916001456 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485916001457 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 485916001458 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 485916001459 Walker A/P-loop; other site 485916001460 ATP binding site [chemical binding]; other site 485916001461 Q-loop/lid; other site 485916001462 ABC transporter signature motif; other site 485916001463 Walker B; other site 485916001464 D-loop; other site 485916001465 H-loop/switch region; other site 485916001466 TOBE domain; Region: TOBE_2; cl01440 485916001467 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 485916001468 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 485916001469 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485916001470 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916001471 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 485916001472 DNA binding residues [nucleotide binding] 485916001473 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 485916001474 NMT1-like family; Region: NMT1_2; cl15260 485916001475 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 485916001476 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 485916001477 Walker A motif; other site 485916001478 ATP binding site [chemical binding]; other site 485916001479 Walker B motif; other site 485916001480 VanZ like family; Region: VanZ; cl01971 485916001481 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916001482 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916001483 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 485916001484 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 485916001485 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 485916001486 Walker A/P-loop; other site 485916001487 ATP binding site [chemical binding]; other site 485916001488 Q-loop/lid; other site 485916001489 ABC transporter signature motif; other site 485916001490 Walker B; other site 485916001491 D-loop; other site 485916001492 H-loop/switch region; other site 485916001493 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 485916001494 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 485916001495 dimer interface [polypeptide binding]; other site 485916001496 conserved gate region; other site 485916001497 putative PBP binding loops; other site 485916001498 ABC-ATPase subunit interface; other site 485916001499 NMT1-like family; Region: NMT1_2; cl15260 485916001500 NMT1-like family; Region: NMT1_2; cl15260 485916001501 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 485916001502 Cation transport protein; Region: TrkH; cl10514 485916001503 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 485916001504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916001505 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 485916001506 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916001507 Helix-turn-helix domains; Region: HTH; cl00088 485916001508 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 485916001509 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916001510 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916001511 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485916001512 Protein export membrane protein; Region: SecD_SecF; cl14618 485916001513 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916001514 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 485916001515 dinuclear metal binding motif [ion binding]; other site 485916001516 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916001517 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 485916001518 Haemolysin XhlA; Region: XhlA; pfam10779 485916001519 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 485916001520 Protein of unknown function; Region: DUF3658; pfam12395 485916001521 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 485916001522 metal binding site 2 [ion binding]; metal-binding site 485916001523 putative DNA binding helix; other site 485916001524 metal binding site 1 [ion binding]; metal-binding site 485916001525 dimer interface [polypeptide binding]; other site 485916001526 structural Zn2+ binding site [ion binding]; other site 485916001527 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 485916001528 catalytic residues [active] 485916001529 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 485916001530 4Fe-4S binding domain; Region: Fer4; cl02805 485916001531 S-adenosylmethionine synthetase; Validated; Region: PRK05250 485916001532 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 485916001533 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 485916001534 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 485916001535 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 485916001536 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 485916001537 FAD binding site [chemical binding]; other site 485916001538 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 485916001539 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485916001540 DNA binding residues [nucleotide binding] 485916001541 dimer interface [polypeptide binding]; other site 485916001542 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 485916001543 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916001544 Helix-turn-helix domains; Region: HTH; cl00088 485916001545 Phospholipid methyltransferase; Region: PEMT; cl00763 485916001546 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 485916001547 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 485916001548 dimer interface [polypeptide binding]; other site 485916001549 conserved gate region; other site 485916001550 putative PBP binding loops; other site 485916001551 ABC-ATPase subunit interface; other site 485916001552 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 485916001553 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 485916001554 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 485916001555 dimer interface [polypeptide binding]; other site 485916001556 conserved gate region; other site 485916001557 putative PBP binding loops; other site 485916001558 ABC-ATPase subunit interface; other site 485916001559 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 485916001560 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 485916001561 Walker A/P-loop; other site 485916001562 ATP binding site [chemical binding]; other site 485916001563 Q-loop/lid; other site 485916001564 ABC transporter signature motif; other site 485916001565 Walker B; other site 485916001566 D-loop; other site 485916001567 H-loop/switch region; other site 485916001568 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001569 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 485916001570 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 485916001571 Walker A/P-loop; other site 485916001572 ATP binding site [chemical binding]; other site 485916001573 Q-loop/lid; other site 485916001574 ABC transporter signature motif; other site 485916001575 Walker B; other site 485916001576 D-loop; other site 485916001577 H-loop/switch region; other site 485916001578 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 485916001579 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 485916001580 substrate binding site [chemical binding]; other site 485916001581 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 485916001582 phosphoethanolamine N-methyltransferase; Provisional; Region: PTZ00098 485916001583 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 485916001584 S-adenosylmethionine binding site [chemical binding]; other site 485916001585 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916001586 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 485916001587 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 485916001588 Walker A/P-loop; other site 485916001589 ATP binding site [chemical binding]; other site 485916001590 Q-loop/lid; other site 485916001591 ABC transporter signature motif; other site 485916001592 Walker B; other site 485916001593 D-loop; other site 485916001594 H-loop/switch region; other site 485916001595 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916001596 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 485916001597 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 485916001598 Walker A/P-loop; other site 485916001599 ATP binding site [chemical binding]; other site 485916001600 Q-loop/lid; other site 485916001601 ABC transporter signature motif; other site 485916001602 Walker B; other site 485916001603 D-loop; other site 485916001604 H-loop/switch region; other site 485916001605 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916001606 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 485916001607 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 485916001608 intersubunit interface [polypeptide binding]; other site 485916001609 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 485916001610 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 485916001611 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 485916001612 dimerization interface [polypeptide binding]; other site 485916001613 putative DNA binding site [nucleotide binding]; other site 485916001614 putative Zn2+ binding site [ion binding]; other site 485916001615 ABC-2 type transporter; Region: ABC2_membrane; cl11417 485916001616 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 485916001617 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916001618 Walker A/P-loop; other site 485916001619 ATP binding site [chemical binding]; other site 485916001620 Q-loop/lid; other site 485916001621 ABC transporter signature motif; other site 485916001622 Walker B; other site 485916001623 D-loop; other site 485916001624 H-loop/switch region; other site 485916001625 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 485916001626 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 485916001627 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 485916001628 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 485916001629 intersubunit interface [polypeptide binding]; other site 485916001630 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 485916001631 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 485916001632 Walker A/P-loop; other site 485916001633 ATP binding site [chemical binding]; other site 485916001634 Q-loop/lid; other site 485916001635 ABC transporter signature motif; other site 485916001636 Walker B; other site 485916001637 D-loop; other site 485916001638 H-loop/switch region; other site 485916001639 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 485916001640 dimer interface [polypeptide binding]; other site 485916001641 ABC-ATPase subunit interface; other site 485916001642 putative PBP binding regions; other site 485916001643 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 485916001644 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 485916001645 active site 485916001646 C-terminal domain interface [polypeptide binding]; other site 485916001647 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 485916001648 active site 485916001649 N-terminal domain interface [polypeptide binding]; other site 485916001650 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 485916001651 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; cl08267 485916001652 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 485916001653 S-layer homology domain; Region: SLH; pfam00395 485916001654 S-layer homology domain; Region: SLH; pfam00395 485916001655 S-layer homology domain; Region: SLH; pfam00395 485916001656 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 485916001657 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 485916001658 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916001659 Cobalt transport protein; Region: CbiQ; cl00463 485916001660 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 485916001661 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 485916001662 Walker A/P-loop; other site 485916001663 ATP binding site [chemical binding]; other site 485916001664 Q-loop/lid; other site 485916001665 ABC transporter signature motif; other site 485916001666 Walker B; other site 485916001667 D-loop; other site 485916001668 H-loop/switch region; other site 485916001669 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 485916001670 Walker A/P-loop; other site 485916001671 ATP binding site [chemical binding]; other site 485916001672 Q-loop/lid; other site 485916001673 ABC transporter signature motif; other site 485916001674 Walker B; other site 485916001675 D-loop; other site 485916001676 H-loop/switch region; other site 485916001677 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 485916001678 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 485916001679 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 485916001680 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 485916001681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916001682 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 485916001683 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 485916001684 heterotetramer interface [polypeptide binding]; other site 485916001685 active site pocket [active] 485916001686 cleavage site 485916001687 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 485916001688 feedback inhibition sensing region; other site 485916001689 homohexameric interface [polypeptide binding]; other site 485916001690 nucleotide binding site [chemical binding]; other site 485916001691 N-acetyl-L-glutamate binding site [chemical binding]; other site 485916001692 acetylornithine aminotransferase; Provisional; Region: PRK02627 485916001693 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 485916001694 inhibitor-cofactor binding pocket; inhibition site 485916001695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916001696 catalytic residue [active] 485916001697 ornithine carbamoyltransferase; Provisional; Region: PRK00779 485916001698 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 485916001699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916001700 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 485916001701 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 485916001702 ANP binding site [chemical binding]; other site 485916001703 Substrate Binding Site II [chemical binding]; other site 485916001704 Substrate Binding Site I [chemical binding]; other site 485916001705 argininosuccinate lyase; Provisional; Region: PRK00855 485916001706 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 485916001707 active sites [active] 485916001708 tetramer interface [polypeptide binding]; other site 485916001709 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 485916001710 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916001711 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916001712 putative metal binding site [ion binding]; other site 485916001713 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916001714 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916001715 putative metal binding site [ion binding]; other site 485916001716 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916001717 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916001718 putative metal binding site [ion binding]; other site 485916001719 Integral membrane protein TerC family; Region: TerC; cl10468 485916001720 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; cl09155 485916001721 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 485916001722 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 485916001723 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 485916001724 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 485916001725 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916001726 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 485916001727 homodimer interface [polypeptide binding]; other site 485916001728 substrate-cofactor binding pocket; other site 485916001729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916001730 catalytic residue [active] 485916001731 Dehydratase family; Region: ILVD_EDD; cl00340 485916001732 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 485916001733 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 485916001734 PYR/PP interface [polypeptide binding]; other site 485916001735 dimer interface [polypeptide binding]; other site 485916001736 TPP binding site [chemical binding]; other site 485916001737 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 485916001738 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 485916001739 TPP-binding site [chemical binding]; other site 485916001740 dimer interface [polypeptide binding]; other site 485916001741 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 485916001742 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 485916001743 putative valine binding site [chemical binding]; other site 485916001744 dimer interface [polypeptide binding]; other site 485916001745 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 485916001746 ketol-acid reductoisomerase; Provisional; Region: PRK05479 485916001747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916001748 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 485916001749 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 485916001750 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 485916001751 PYR/PP interface [polypeptide binding]; other site 485916001752 dimer interface [polypeptide binding]; other site 485916001753 TPP binding site [chemical binding]; other site 485916001754 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 485916001755 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 485916001756 TPP-binding site [chemical binding]; other site 485916001757 dimer interface [polypeptide binding]; other site 485916001758 2-isopropylmalate synthase; Validated; Region: PRK00915 485916001759 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 485916001760 active site 485916001761 catalytic residues [active] 485916001762 metal binding site [ion binding]; metal-binding site 485916001763 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 485916001764 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 485916001765 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 485916001766 substrate binding site [chemical binding]; other site 485916001767 ligand binding site [chemical binding]; other site 485916001768 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 485916001769 substrate binding site [chemical binding]; other site 485916001770 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 485916001771 tartrate dehydrogenase; Provisional; Region: PRK08194 485916001772 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 485916001773 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 485916001774 active site 485916001775 catalytic residues [active] 485916001776 metal binding site [ion binding]; metal-binding site 485916001777 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 485916001778 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 485916001779 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 485916001780 FeS/SAM binding site; other site 485916001781 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 485916001782 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 485916001783 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 485916001784 FeS/SAM binding site; other site 485916001785 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 485916001786 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 485916001787 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916001788 Coenzyme A binding pocket [chemical binding]; other site 485916001789 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 485916001790 Uncharacterized conserved protein [Function unknown]; Region: COG1624 485916001791 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 485916001792 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 485916001793 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 485916001794 active site 485916001795 substrate binding site [chemical binding]; other site 485916001796 metal binding site [ion binding]; metal-binding site 485916001797 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 485916001798 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 485916001799 glutaminase active site [active] 485916001800 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 485916001801 dimer interface [polypeptide binding]; other site 485916001802 active site 485916001803 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 485916001804 dimer interface [polypeptide binding]; other site 485916001805 active site 485916001806 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 485916001807 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 485916001808 active site 485916001809 NTP binding site [chemical binding]; other site 485916001810 metal binding triad [ion binding]; metal-binding site 485916001811 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 485916001812 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 485916001813 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 485916001814 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 485916001815 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 485916001816 active site 1 [active] 485916001817 dimer interface [polypeptide binding]; other site 485916001818 hexamer interface [polypeptide binding]; other site 485916001819 active site 2 [active] 485916001820 Uncharacterized conserved protein [Function unknown]; Region: COG2006 485916001821 Domain of unknown function (DUF362); Region: DUF362; pfam04015 485916001822 4Fe-4S binding domain; Region: Fer4; cl02805 485916001823 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 485916001824 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 485916001825 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 485916001826 putative binding surface; other site 485916001827 active site 485916001828 P2 response regulator binding domain; Region: P2; pfam07194 485916001829 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 485916001830 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916001831 ATP binding site [chemical binding]; other site 485916001832 Mg2+ binding site [ion binding]; other site 485916001833 G-X-G motif; other site 485916001834 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 485916001835 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 485916001836 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 485916001837 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 485916001838 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 485916001839 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 485916001840 dimerization interface [polypeptide binding]; other site 485916001841 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916001842 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916001843 dimer interface [polypeptide binding]; other site 485916001844 putative CheW interface [polypeptide binding]; other site 485916001845 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 485916001846 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 485916001847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916001848 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 485916001849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001850 active site 485916001851 phosphorylation site [posttranslational modification] 485916001852 intermolecular recognition site; other site 485916001853 dimerization interface [polypeptide binding]; other site 485916001854 CheB methylesterase; Region: CheB_methylest; pfam01339 485916001855 PAS fold; Region: PAS_4; pfam08448 485916001856 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 485916001857 putative active site [active] 485916001858 heme pocket [chemical binding]; other site 485916001859 PAS fold; Region: PAS; pfam00989 485916001860 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916001861 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 485916001862 dimer interface [polypeptide binding]; other site 485916001863 phosphorylation site [posttranslational modification] 485916001864 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916001865 ATP binding site [chemical binding]; other site 485916001866 Mg2+ binding site [ion binding]; other site 485916001867 G-X-G motif; other site 485916001868 Response regulator receiver domain; Region: Response_reg; pfam00072 485916001869 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001870 active site 485916001871 phosphorylation site [posttranslational modification] 485916001872 intermolecular recognition site; other site 485916001873 dimerization interface [polypeptide binding]; other site 485916001874 Response regulator receiver domain; Region: Response_reg; pfam00072 485916001875 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001876 active site 485916001877 phosphorylation site [posttranslational modification] 485916001878 intermolecular recognition site; other site 485916001879 dimerization interface [polypeptide binding]; other site 485916001880 S-layer homology domain; Region: SLH; pfam00395 485916001881 S-layer homology domain; Region: SLH; pfam00395 485916001882 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 485916001883 Trp docking motif [polypeptide binding]; other site 485916001884 active site 485916001885 PQQ-like domain; Region: PQQ_2; pfam13360 485916001886 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 485916001887 nucleotide binding site/active site [active] 485916001888 HIT family signature motif; other site 485916001889 catalytic residue [active] 485916001890 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 485916001891 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916001892 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 485916001893 dimerization interface [polypeptide binding]; other site 485916001894 DNA binding residues [nucleotide binding] 485916001895 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 485916001896 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 485916001897 putative metal binding site [ion binding]; other site 485916001898 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 485916001899 putative metal binding site [ion binding]; other site 485916001900 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 485916001901 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 485916001902 putative metal binding site [ion binding]; other site 485916001903 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 485916001904 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 485916001905 Catalytic site [active] 485916001906 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 485916001907 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 485916001908 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 485916001909 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 485916001910 non-specific DNA binding site [nucleotide binding]; other site 485916001911 salt bridge; other site 485916001912 sequence-specific DNA binding site [nucleotide binding]; other site 485916001913 Predicted acetyltransferase [General function prediction only]; Region: COG3153 485916001914 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916001915 Coenzyme A binding pocket [chemical binding]; other site 485916001916 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 485916001917 Phospholipid methyltransferase; Region: PEMT; cl00763 485916001918 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 485916001919 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916001920 Coenzyme A binding pocket [chemical binding]; other site 485916001921 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 485916001922 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916001923 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 485916001924 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 485916001925 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 485916001926 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 485916001927 putative active site [active] 485916001928 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 485916001929 nucleotide binding site/active site [active] 485916001930 HIT family signature motif; other site 485916001931 catalytic residue [active] 485916001932 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 485916001933 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 485916001934 dimerization interface [polypeptide binding]; other site 485916001935 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916001936 dimer interface [polypeptide binding]; other site 485916001937 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 485916001938 putative CheW interface [polypeptide binding]; other site 485916001939 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 485916001940 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 485916001941 flagellar motor protein MotS; Reviewed; Region: PRK06925 485916001942 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 485916001943 ligand binding site [chemical binding]; other site 485916001944 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 485916001945 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 485916001946 putative binding surface; other site 485916001947 active site 485916001948 P2 response regulator binding domain; Region: P2; pfam07194 485916001949 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 485916001950 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916001951 ATP binding site [chemical binding]; other site 485916001952 Mg2+ binding site [ion binding]; other site 485916001953 G-X-G motif; other site 485916001954 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 485916001955 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 485916001956 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001957 active site 485916001958 phosphorylation site [posttranslational modification] 485916001959 intermolecular recognition site; other site 485916001960 dimerization interface [polypeptide binding]; other site 485916001961 CheB methylesterase; Region: CheB_methylest; pfam01339 485916001962 putative transposase; Provisional; Region: PRK09857 485916001963 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916001964 potential frameshift: common BLAST hit: gi|134300278|ref|YP_001113774.1| response regulator receiver modulated CheB methylesterase 485916001965 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916001966 active site 485916001967 phosphorylation site [posttranslational modification] 485916001968 intermolecular recognition site; other site 485916001969 CheB methylesterase; Region: CheB_methylest; pfam01339 485916001970 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 485916001971 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 485916001972 flagellin; Provisional; Region: PRK12804 485916001973 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 485916001974 flagellar capping protein; Validated; Region: fliD; PRK07737 485916001975 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 485916001976 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 485916001977 Flagellar protein FliS; Region: FliS; cl00654 485916001978 FlaG protein; Region: FlaG; cl00591 485916001979 Global regulator protein family; Region: CsrA; cl00670 485916001980 FliW protein; Region: FliW; cl00740 485916001981 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 485916001982 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 485916001983 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 485916001984 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 485916001985 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 485916001986 FlgN protein; Region: FlgN; cl09176 485916001987 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 485916001988 S-layer homology domain; Region: SLH; pfam00395 485916001989 Uncharacterized conserved protein [Function unknown]; Region: COG5464 485916001990 Uncharacterized conserved protein [Function unknown]; Region: COG5464 485916001991 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 485916001992 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 485916001993 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 485916001994 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 485916001995 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 485916001996 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 485916001997 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 485916001998 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 485916001999 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 485916002000 FliG C-terminal domain; Region: FliG_C; pfam01706 485916002001 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 485916002002 Plant ATP synthase F0; Region: YMF19; cl07975 485916002003 Flagellar assembly protein FliH; Region: FliH; pfam02108 485916002004 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 485916002005 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 485916002006 Walker A motif/ATP binding site; other site 485916002007 Walker B motif; other site 485916002008 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 485916002009 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 485916002010 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 485916002011 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 485916002012 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 485916002013 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 485916002014 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 485916002015 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 485916002016 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 485916002017 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 485916002018 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 485916002019 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 485916002020 FliP family; Region: FliP; cl00593 485916002021 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 485916002022 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 485916002023 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 485916002024 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 485916002025 FHIPEP family; Region: FHIPEP; pfam00771 485916002026 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 485916002027 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 485916002028 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916002029 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 485916002030 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916002031 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 485916002032 Flagellar protein YcgR; Region: YcgR_2; pfam12945 485916002033 PilZ domain; Region: PilZ; cl01260 485916002034 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 485916002035 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916002036 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 485916002037 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 485916002038 DNA binding residues [nucleotide binding] 485916002039 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 485916002040 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 485916002041 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 485916002042 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 485916002043 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 485916002044 CheD chemotactic sensory transduction; Region: CheD; cl00810 485916002045 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 485916002046 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 485916002047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916002048 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 485916002049 Chemotaxis phosphatase CheX; Region: CheX; cl15816 485916002050 Chemotaxis phosphatase CheX; Region: CheX; cl15816 485916002051 Response regulator receiver domain; Region: Response_reg; pfam00072 485916002052 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916002053 active site 485916002054 phosphorylation site [posttranslational modification] 485916002055 intermolecular recognition site; other site 485916002056 dimerization interface [polypeptide binding]; other site 485916002057 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 485916002058 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 485916002059 flagellar motor switch protein; Reviewed; Region: PRK06782 485916002060 Chemotaxis phosphatase CheX; Region: CheX; cl15816 485916002061 Chemotaxis phosphatase CheX; Region: CheX; cl15816 485916002062 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 485916002063 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 485916002064 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 485916002065 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 485916002066 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 485916002067 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916002068 active site 485916002069 GMP synthase; Reviewed; Region: guaA; PRK00074 485916002070 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 485916002071 AMP/PPi binding site [chemical binding]; other site 485916002072 candidate oxyanion hole; other site 485916002073 catalytic triad [active] 485916002074 potential glutamine specificity residues [chemical binding]; other site 485916002075 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 485916002076 ATP Binding subdomain [chemical binding]; other site 485916002077 Ligand Binding sites [chemical binding]; other site 485916002078 Dimerization subdomain; other site 485916002079 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916002080 metal binding site [ion binding]; metal-binding site 485916002081 active site 485916002082 I-site; other site 485916002083 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 485916002084 AIR carboxylase; Region: AIRC; cl00310 485916002085 adenylosuccinate lyase; Provisional; Region: PRK07380 485916002086 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 485916002087 tetramer interface [polypeptide binding]; other site 485916002088 active site 485916002089 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 485916002090 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 485916002091 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 485916002092 ATP binding site [chemical binding]; other site 485916002093 active site 485916002094 substrate binding site [chemical binding]; other site 485916002095 amidophosphoribosyltransferase; Provisional; Region: PRK05793 485916002096 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 485916002097 active site 485916002098 tetramer interface [polypeptide binding]; other site 485916002099 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916002100 active site 485916002101 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 485916002102 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 485916002103 dimerization interface [polypeptide binding]; other site 485916002104 putative ATP binding site [chemical binding]; other site 485916002105 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 485916002106 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 485916002107 active site 485916002108 substrate binding site [chemical binding]; other site 485916002109 cosubstrate binding site; other site 485916002110 catalytic site [active] 485916002111 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 485916002112 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 485916002113 purine monophosphate binding site [chemical binding]; other site 485916002114 dimer interface [polypeptide binding]; other site 485916002115 putative catalytic residues [active] 485916002116 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 485916002117 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 485916002118 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 485916002119 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 485916002120 ATP-grasp domain; Region: ATP-grasp_4; cl03087 485916002121 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 485916002122 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 485916002123 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 485916002124 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916002125 Helix-turn-helix domains; Region: HTH; cl00088 485916002126 Integrase core domain; Region: rve; cl01316 485916002127 Helix-turn-helix domains; Region: HTH; cl00088 485916002128 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 485916002129 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 ATP-dependent...; Region: HisRS-like_core; cd00773 485916002130 dimer interface [polypeptide binding]; other site 485916002131 motif 1; other site 485916002132 active site 485916002133 motif 2; other site 485916002134 motif 3; other site 485916002135 ATP phosphoribosyltransferase; Region: HisG; cl15266 485916002136 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 485916002137 DNA binding residues [nucleotide binding] 485916002138 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 485916002139 catalytic residues [active] 485916002140 catalytic nucleophile [active] 485916002141 histidinol dehydrogenase; Region: hisD; TIGR00069 485916002142 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 485916002143 NAD binding site [chemical binding]; other site 485916002144 dimerization interface [polypeptide binding]; other site 485916002145 product binding site; other site 485916002146 substrate binding site [chemical binding]; other site 485916002147 zinc binding site [ion binding]; other site 485916002148 catalytic residues [active] 485916002149 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 485916002150 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 485916002151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916002152 homodimer interface [polypeptide binding]; other site 485916002153 catalytic residue [active] 485916002154 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 485916002155 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 485916002156 putative active site pocket [active] 485916002157 4-fold oligomerization interface [polypeptide binding]; other site 485916002158 metal binding residues [ion binding]; metal-binding site 485916002159 3-fold/trimer interface [polypeptide binding]; other site 485916002160 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 485916002161 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 485916002162 putative active site [active] 485916002163 oxyanion strand; other site 485916002164 catalytic triad [active] 485916002165 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 485916002166 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 485916002167 catalytic residues [active] 485916002168 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 485916002169 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 485916002170 substrate binding site [chemical binding]; other site 485916002171 glutamase interaction surface [polypeptide binding]; other site 485916002172 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 485916002173 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 485916002174 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 485916002175 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 485916002176 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916002177 Family description; Region: UvrD_C_2; cl15862 485916002178 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 485916002179 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 485916002180 heme-binding site [chemical binding]; other site 485916002181 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916002182 putative CheW interface [polypeptide binding]; other site 485916002183 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 485916002184 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 485916002185 nucleotide binding pocket [chemical binding]; other site 485916002186 K-X-D-G motif; other site 485916002187 catalytic site [active] 485916002188 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 485916002189 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 485916002190 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 485916002191 Dimer interface [polypeptide binding]; other site 485916002192 BRCT sequence motif; other site 485916002193 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 485916002194 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 485916002195 Amidase; Region: Amidase; cl11426 485916002196 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 485916002197 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 485916002198 GatB domain; Region: GatB_Yqey; cl11497 485916002199 PAS domain S-box; Region: sensory_box; TIGR00229 485916002200 GAF domain; Region: GAF_2; pfam13185 485916002201 GAF domain; Region: GAF; cl15785 485916002202 GAF domain; Region: GAF; cl15785 485916002203 PAS fold; Region: PAS_4; pfam08448 485916002204 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 485916002205 PAS fold; Region: PAS_3; pfam08447 485916002206 putative active site [active] 485916002207 heme pocket [chemical binding]; other site 485916002208 PAS domain S-box; Region: sensory_box; TIGR00229 485916002209 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 485916002210 putative active site [active] 485916002211 heme pocket [chemical binding]; other site 485916002212 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916002213 metal binding site [ion binding]; metal-binding site 485916002214 active site 485916002215 I-site; other site 485916002216 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 485916002217 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830; cl07951 485916002218 xanthine permease; Region: pbuX; TIGR03173 485916002219 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 485916002220 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 485916002221 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 485916002222 intersubunit interface [polypeptide binding]; other site 485916002223 active site 485916002224 catalytic residue [active] 485916002225 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 485916002226 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 485916002227 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 485916002228 hinge; other site 485916002229 active site 485916002230 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 485916002231 Tetramer interface [polypeptide binding]; other site 485916002232 active site 485916002233 FMN-binding site [chemical binding]; other site 485916002234 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 485916002235 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 485916002236 active site 485916002237 dimer interface [polypeptide binding]; other site 485916002238 metal binding site [ion binding]; metal-binding site 485916002239 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 485916002240 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916002241 Walker A/P-loop; other site 485916002242 ATP binding site [chemical binding]; other site 485916002243 Q-loop/lid; other site 485916002244 ABC transporter signature motif; other site 485916002245 Walker B; other site 485916002246 D-loop; other site 485916002247 H-loop/switch region; other site 485916002248 ABC transporter; Region: ABC_tran_2; pfam12848 485916002249 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 485916002250 Spore germination protein; Region: Spore_permease; cl15802 485916002251 Cupin domain; Region: Cupin_2; cl09118 485916002252 Domain of unknown function (DUF378); Region: DUF378; cl00943 485916002253 SET domain; Region: SET; cl02566 485916002254 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 485916002255 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 485916002256 active site 485916002257 catalytic residues [active] 485916002258 metal binding site [ion binding]; metal-binding site 485916002259 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 485916002260 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916002261 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 485916002262 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 485916002263 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 485916002264 active site 485916002265 Substrate binding site; other site 485916002266 Mg++ binding site; other site 485916002267 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 485916002268 N-terminal domain interface [polypeptide binding]; other site 485916002269 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 485916002270 putative trimer interface [polypeptide binding]; other site 485916002271 sulfate 1 binding site; other site 485916002272 putative CoA binding site [chemical binding]; other site 485916002273 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 485916002274 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 485916002275 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485916002276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916002277 active site 485916002278 phosphorylation site [posttranslational modification] 485916002279 intermolecular recognition site; other site 485916002280 dimerization interface [polypeptide binding]; other site 485916002281 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 485916002282 Walker A motif; other site 485916002283 ATP binding site [chemical binding]; other site 485916002284 Walker B motif; other site 485916002285 arginine finger; other site 485916002286 Helix-turn-helix domains; Region: HTH; cl00088 485916002287 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916002288 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 485916002289 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 485916002290 dimer interface [polypeptide binding]; other site 485916002291 phosphorylation site [posttranslational modification] 485916002292 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916002293 ATP binding site [chemical binding]; other site 485916002294 Mg2+ binding site [ion binding]; other site 485916002295 G-X-G motif; other site 485916002296 hydrogenase 4 subunit B; Validated; Region: PRK06521 485916002297 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 485916002298 NADH dehydrogenase; Region: NADHdh; cl00469 485916002299 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 485916002300 hydrogenase 4 subunit F; Validated; Region: PRK06458 485916002301 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 485916002302 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 485916002303 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 485916002304 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 485916002305 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 485916002306 4Fe-4S binding domain; Region: Fer4; cl02805 485916002307 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 485916002308 PemK-like protein; Region: PemK; cl00995 485916002309 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 485916002310 Uncharacterized conserved protein [Function unknown]; Region: COG1543 485916002311 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 485916002312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 485916002313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916002314 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 485916002315 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 485916002316 minor groove reading motif; other site 485916002317 helix-hairpin-helix signature motif; other site 485916002318 substrate binding pocket [chemical binding]; other site 485916002319 active site 485916002320 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 485916002321 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 485916002322 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 485916002323 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 485916002324 Walker A motif; other site 485916002325 ATP binding site [chemical binding]; other site 485916002326 Walker B motif; other site 485916002327 arginine finger; other site 485916002328 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 485916002329 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 485916002330 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 485916002331 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916002332 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916002333 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 485916002334 Walker A motif; other site 485916002335 ATP binding site [chemical binding]; other site 485916002336 Walker B motif; other site 485916002337 arginine finger; other site 485916002338 Helix-turn-helix domains; Region: HTH; cl00088 485916002339 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 485916002340 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 485916002341 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 485916002342 generic binding surface I; other site 485916002343 generic binding surface II; other site 485916002344 Tryptophan RNA-binding attenuator protein; Region: TrpBP; cl03437 485916002345 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 485916002346 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 485916002347 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 485916002348 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 485916002349 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 485916002350 active site 485916002351 ADP/pyrophosphate binding site [chemical binding]; other site 485916002352 dimerization interface [polypeptide binding]; other site 485916002353 allosteric effector site; other site 485916002354 fructose-1,6-bisphosphate binding site; other site 485916002355 pyruvate kinase; Provisional; Region: PRK06354 485916002356 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; cl09155 485916002357 domain interfaces; other site 485916002358 active site 485916002359 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 485916002360 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 485916002361 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 485916002362 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 485916002363 active site 485916002364 catalytic triad [active] 485916002365 oxyanion hole [active] 485916002366 glycogen branching enzyme; Provisional; Region: PRK12313 485916002367 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 485916002368 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 485916002369 active site 485916002370 catalytic site [active] 485916002371 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 485916002372 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 485916002373 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 485916002374 ligand binding site; other site 485916002375 oligomer interface; other site 485916002376 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 485916002377 dimer interface [polypeptide binding]; other site 485916002378 N-terminal domain interface [polypeptide binding]; other site 485916002379 sulfate 1 binding site; other site 485916002380 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 485916002381 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 485916002382 ligand binding site; other site 485916002383 oligomer interface; other site 485916002384 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 485916002385 dimer interface [polypeptide binding]; other site 485916002386 N-terminal domain interface [polypeptide binding]; other site 485916002387 sulfate 1 binding site; other site 485916002388 glycogen synthase; Provisional; Region: glgA; PRK00654 485916002389 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 485916002390 ADP-binding pocket [chemical binding]; other site 485916002391 homodimer interface [polypeptide binding]; other site 485916002392 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 485916002393 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 485916002394 dimer interface [polypeptide binding]; other site 485916002395 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916002396 catalytic residue [active] 485916002397 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 485916002398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916002399 flavoprotein, HI0933 family; Region: TIGR00275 485916002400 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 485916002401 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 485916002402 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 485916002403 active site 485916002404 motif I; other site 485916002405 motif II; other site 485916002406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916002407 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916002408 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916002409 Probable transposase; Region: OrfB_IS605; pfam01385 485916002410 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916002411 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916002412 Cupin domain; Region: Cupin_2; cl09118 485916002413 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916002414 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916002415 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916002416 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 485916002417 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 485916002418 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916002419 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916002420 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916002421 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 485916002422 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 485916002423 DNA binding residues [nucleotide binding] 485916002424 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 485916002425 catalytic residues [active] 485916002426 catalytic nucleophile [active] 485916002427 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916002428 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485916002429 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 485916002430 S-adenosylmethionine binding site [chemical binding]; other site 485916002431 Putative zinc-finger; Region: zf-HC2; cl15806 485916002432 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485916002433 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916002434 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 485916002435 DNA binding residues [nucleotide binding] 485916002436 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916002437 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916002438 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 485916002439 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 485916002440 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916002441 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916002442 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 485916002443 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916002444 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916002445 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 485916002446 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 485916002447 dimer interface [polypeptide binding]; other site 485916002448 active site 485916002449 heme binding site [chemical binding]; other site 485916002450 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 485916002451 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916002452 RHS Repeat; Region: RHS_repeat; cl11982 485916002453 RHS Repeat; Region: RHS_repeat; cl11982 485916002454 RHS Repeat; Region: RHS_repeat; cl11982 485916002455 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916002456 RHS Repeat; Region: RHS_repeat; cl11982 485916002457 RHS Repeat; Region: RHS_repeat; cl11982 485916002458 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916002459 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916002460 RHS Repeat; Region: RHS_repeat; cl11982 485916002461 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916002462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 485916002463 Helix-turn-helix domains; Region: HTH; cl00088 485916002464 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 485916002465 dimerization interface [polypeptide binding]; other site 485916002466 selenophosphate synthetase; Provisional; Region: PRK00943 485916002467 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 485916002468 dimerization interface [polypeptide binding]; other site 485916002469 putative ATP binding site [chemical binding]; other site 485916002470 Uncharacterized conserved protein [Function unknown]; Region: COG1751 485916002471 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 485916002472 putative active site [active] 485916002473 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 485916002474 non-specific DNA binding site [nucleotide binding]; other site 485916002475 salt bridge; other site 485916002476 sequence-specific DNA binding site [nucleotide binding]; other site 485916002477 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 485916002478 Catalytic site [active] 485916002479 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916002480 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 485916002481 active site residue [active] 485916002482 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 485916002483 putative FMN binding site [chemical binding]; other site 485916002484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916002485 phosphomannomutase CpsG; Provisional; Region: PRK15414 485916002486 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 485916002487 active site 485916002488 substrate binding site [chemical binding]; other site 485916002489 metal binding site [ion binding]; metal-binding site 485916002490 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916002491 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916002492 Probable transposase; Region: OrfB_IS605; pfam01385 485916002493 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916002494 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916002495 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916002496 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916002497 ATP binding site [chemical binding]; other site 485916002498 Mg2+ binding site [ion binding]; other site 485916002499 G-X-G motif; other site 485916002500 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 485916002501 NeuB family; Region: NeuB; cl00496 485916002502 prephenate dehydratase; Provisional; Region: PRK11898 485916002503 Prephenate dehydratase; Region: PDT; pfam00800 485916002504 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 485916002505 putative L-Phe binding site [chemical binding]; other site 485916002506 Chorismate mutase type II; Region: CM_2; cl00693 485916002507 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 485916002508 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 485916002509 chorismate binding enzyme; Region: Chorismate_bind; cl10555 485916002510 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 485916002511 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 485916002512 glutamine binding [chemical binding]; other site 485916002513 catalytic triad [active] 485916002514 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 485916002515 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 485916002516 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 485916002517 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 485916002518 active site 485916002519 ribulose/triose binding site [chemical binding]; other site 485916002520 phosphate binding site [ion binding]; other site 485916002521 substrate (anthranilate) binding pocket [chemical binding]; other site 485916002522 product (indole) binding pocket [chemical binding]; other site 485916002523 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 monomeric; Region: PRAI; cd00405 485916002524 active site 485916002525 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 485916002526 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 485916002527 substrate binding site [chemical binding]; other site 485916002528 active site 485916002529 catalytic residues [active] 485916002530 heterodimer interface [polypeptide binding]; other site 485916002531 NeuB family; Region: NeuB; cl00496 485916002532 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 485916002533 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 485916002534 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cd09754 485916002535 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cl09909 485916002536 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 485916002537 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 485916002538 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 485916002539 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916002540 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 485916002541 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 485916002542 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 485916002543 Helix-turn-helix domains; Region: HTH; cl00088 485916002544 Winged helix-turn helix; Region: HTH_29; pfam13551 485916002545 Winged helix-turn helix; Region: HTH_33; pfam13592 485916002546 Integrase core domain; Region: rve; cl01316 485916002547 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916002548 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916002549 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 485916002550 Cache domain; Region: Cache_1; pfam02743 485916002551 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 485916002552 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 485916002553 dimerization interface [polypeptide binding]; other site 485916002554 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 485916002555 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; cl00120 485916002556 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 485916002557 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 485916002558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916002559 homodimer interface [polypeptide binding]; other site 485916002560 catalytic residue [active] 485916002561 AMP-binding domain protein; Validated; Region: PRK08315 485916002562 AMP-binding enzyme; Region: AMP-binding; cl15778 485916002563 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 485916002564 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 485916002565 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 485916002566 H+ Antiporter protein; Region: 2A0121; TIGR00900 485916002567 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 485916002568 anti sigma factor interaction site; other site 485916002569 regulatory phosphorylation site [posttranslational modification]; other site 485916002570 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 485916002571 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916002572 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 485916002573 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 485916002574 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916002575 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 485916002576 DNA binding residues [nucleotide binding] 485916002577 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 485916002578 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 485916002579 NHLM bacteriocin system secretion protein; Region: NHLM_micro_HlyD; TIGR03794 485916002580 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916002581 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916002582 NHLM bacteriocin system ABC transporter, peptidase/ATP-binding protein; Region: NHLM_micro_ABC1; TIGR03796 485916002583 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 bacteriocins; Region: Peptidase_C39D; cd02420 485916002584 putative active site [active] 485916002585 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 485916002586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916002587 Walker A/P-loop; other site 485916002588 ATP binding site [chemical binding]; other site 485916002589 Q-loop/lid; other site 485916002590 ABC transporter signature motif; other site 485916002591 Walker B; other site 485916002592 D-loop; other site 485916002593 H-loop/switch region; other site 485916002594 NHLM bacteriocin system ABC transporter, ATP-binding protein; Region: NHLM_micro_ABC2; TIGR03797 485916002595 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 485916002596 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916002597 Walker A/P-loop; other site 485916002598 ATP binding site [chemical binding]; other site 485916002599 Q-loop/lid; other site 485916002600 ABC transporter signature motif; other site 485916002601 Walker B; other site 485916002602 D-loop; other site 485916002603 H-loop/switch region; other site 485916002604 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 485916002605 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 485916002606 nif11-like peptide radical SAM maturase; Region: rSAM_nif11; TIGR04064 485916002607 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 485916002608 FeS/SAM binding site; other site 485916002609 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 485916002610 nif11-like peptide radical SAM maturase; Region: rSAM_nif11; TIGR04064 485916002611 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 485916002612 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 485916002613 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 485916002614 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 485916002615 substrate binding pocket [chemical binding]; other site 485916002616 membrane-bound complex binding site; other site 485916002617 hinge residues; other site 485916002618 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 485916002619 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 485916002620 putative active site [active] 485916002621 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916002622 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916002623 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 485916002624 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, cyanobacteria; Region: Thr-synth_2; cd01560 485916002625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916002626 catalytic residue [active] 485916002627 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 485916002628 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 485916002629 FMN binding site [chemical binding]; other site 485916002630 substrate binding site [chemical binding]; other site 485916002631 putative catalytic residue [active] 485916002632 ATP-grasp domain; Region: ATP-grasp_4; cl03087 485916002633 ATP-grasp domain; Region: ATP-grasp_4; cl03087 485916002634 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 485916002635 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 485916002636 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 485916002637 FOG: CBS domain [General function prediction only]; Region: COG0517 485916002638 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 485916002639 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 485916002640 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 485916002641 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 485916002642 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 485916002643 sensory histidine kinase AtoS; Provisional; Region: PRK11360 485916002644 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916002645 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 485916002646 dimer interface [polypeptide binding]; other site 485916002647 phosphorylation site [posttranslational modification] 485916002648 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916002649 ATP binding site [chemical binding]; other site 485916002650 Mg2+ binding site [ion binding]; other site 485916002651 G-X-G motif; other site 485916002652 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485916002653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916002654 active site 485916002655 phosphorylation site [posttranslational modification] 485916002656 intermolecular recognition site; other site 485916002657 dimerization interface [polypeptide binding]; other site 485916002658 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 485916002659 Walker A motif; other site 485916002660 ATP binding site [chemical binding]; other site 485916002661 Walker B motif; other site 485916002662 arginine finger; other site 485916002663 Helix-turn-helix domains; Region: HTH; cl00088 485916002664 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 485916002665 THUMP domain; Region: THUMP; cl12076 485916002666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916002667 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 485916002668 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 485916002669 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 485916002670 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 485916002671 active site 485916002672 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 485916002673 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485916002674 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916002675 active site 485916002676 phosphorylation site [posttranslational modification] 485916002677 intermolecular recognition site; other site 485916002678 dimerization interface [polypeptide binding]; other site 485916002679 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 485916002680 Walker A motif; other site 485916002681 ATP binding site [chemical binding]; other site 485916002682 Walker B motif; other site 485916002683 arginine finger; other site 485916002684 Helix-turn-helix domains; Region: HTH; cl00088 485916002685 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 485916002686 Sulfate transporter family; Region: Sulfate_transp; cl15842 485916002687 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 485916002688 Sulfate transporter family; Region: Sulfate_transp; cl15842 485916002689 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 485916002690 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 485916002691 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 485916002692 Helix-turn-helix domains; Region: HTH; cl00088 485916002693 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 485916002694 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 485916002695 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 485916002696 Ligand Binding Site [chemical binding]; other site 485916002697 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 485916002698 Flagellin N-methylase; Region: FliB; cl00497 485916002699 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 485916002700 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 485916002701 protein binding site [polypeptide binding]; other site 485916002702 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485916002703 Cysteine-rich domain; Region: CCG; pfam02754 485916002704 Cysteine-rich domain; Region: CCG; pfam02754 485916002705 FAD binding domain; Region: FAD_binding_4; pfam01565 485916002706 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 485916002707 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 485916002708 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 485916002709 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 485916002710 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 485916002711 PhoU domain; Region: PhoU; pfam01895 485916002712 PhoU domain; Region: PhoU; pfam01895 485916002713 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 485916002714 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 485916002715 catalytic residue [active] 485916002716 putative FPP diphosphate binding site; other site 485916002717 putative FPP binding hydrophobic cleft; other site 485916002718 dimer interface [polypeptide binding]; other site 485916002719 putative IPP diphosphate binding site; other site 485916002720 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 485916002721 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 485916002722 Glyco_18 domain; Region: Glyco_18; smart00636 485916002723 active site 485916002724 Virulence protein [General function prediction only]; Region: COG3943 485916002725 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 485916002726 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916002727 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 485916002728 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 485916002729 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 485916002730 metal binding site 2 [ion binding]; metal-binding site 485916002731 putative DNA binding helix; other site 485916002732 metal binding site 1 [ion binding]; metal-binding site 485916002733 dimer interface [polypeptide binding]; other site 485916002734 structural Zn2+ binding site [ion binding]; other site 485916002735 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 485916002736 S-adenosylmethionine binding site [chemical binding]; other site 485916002737 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 485916002738 NeuB family; Region: NeuB; cl00496 485916002739 Prephenate dehydrogenase; Region: PDH; pfam02153 485916002740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916002741 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 485916002742 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 485916002743 sensory histidine kinase AtoS; Provisional; Region: PRK11360 485916002744 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 485916002745 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916002746 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 485916002747 phosphorylation site [posttranslational modification] 485916002748 dimer interface [polypeptide binding]; other site 485916002749 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916002750 ATP binding site [chemical binding]; other site 485916002751 Mg2+ binding site [ion binding]; other site 485916002752 G-X-G motif; other site 485916002753 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485916002754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916002755 active site 485916002756 phosphorylation site [posttranslational modification] 485916002757 intermolecular recognition site; other site 485916002758 dimerization interface [polypeptide binding]; other site 485916002759 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 485916002760 Walker A motif; other site 485916002761 ATP binding site [chemical binding]; other site 485916002762 Walker B motif; other site 485916002763 arginine finger; other site 485916002764 Helix-turn-helix domains; Region: HTH; cl00088 485916002765 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 485916002766 FOG: CBS domain [General function prediction only]; Region: COG0517 485916002767 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 485916002768 FOG: CBS domain [General function prediction only]; Region: COG0517 485916002769 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_8; cd04621 485916002770 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 485916002771 dimerization interface [polypeptide binding]; other site 485916002772 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916002773 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916002774 dimer interface [polypeptide binding]; other site 485916002775 putative CheW interface [polypeptide binding]; other site 485916002776 Nitrogen regulatory protein P-II; Region: P-II; cl00412 485916002777 Nitrogen regulatory protein P-II; Region: P-II; smart00938 485916002778 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 485916002779 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 485916002780 Nitrogen regulatory protein P-II; Region: P-II; cl00412 485916002781 Nitrogen regulatory protein P-II; Region: P-II; smart00938 485916002782 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 485916002783 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 485916002784 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 485916002785 active site 485916002786 catalytic residues [active] 485916002787 metal binding site [ion binding]; metal-binding site 485916002788 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 485916002789 nitrogenase iron protein; Region: nifH; TIGR01287 485916002790 Nucleotide-binding sites [chemical binding]; other site 485916002791 Walker A motif; other site 485916002792 Switch I region of nucleotide binding site; other site 485916002793 Fe4S4 binding sites [ion binding]; other site 485916002794 Switch II region of nucleotide binding site; other site 485916002795 Nitrogen regulatory protein P-II; Region: P-II; cl00412 485916002796 Nitrogen regulatory protein P-II; Region: P-II; smart00938 485916002797 Nitrogen regulatory protein P-II; Region: P-II; cl00412 485916002798 Nitrogen regulatory protein P-II; Region: P-II; smart00938 485916002799 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 485916002800 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 485916002801 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 485916002802 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 485916002803 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 485916002804 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 485916002805 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 485916002806 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 485916002807 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 485916002808 Radical SAM superfamily; Region: Radical_SAM; pfam04055 485916002809 FeS/SAM binding site; other site 485916002810 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 485916002811 dimer interface [polypeptide binding]; other site 485916002812 [2Fe-2S] cluster binding site [ion binding]; other site 485916002813 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; pfam09582 485916002814 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 485916002815 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 485916002816 active site 485916002817 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 485916002818 dimer interface [polypeptide binding]; other site 485916002819 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 485916002820 Ligand Binding Site [chemical binding]; other site 485916002821 Molecular Tunnel; other site 485916002822 NAD synthetase; Provisional; Region: PRK13981 485916002823 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 485916002824 multimer interface [polypeptide binding]; other site 485916002825 active site 485916002826 catalytic triad [active] 485916002827 protein interface 1 [polypeptide binding]; other site 485916002828 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 485916002829 homodimer interface [polypeptide binding]; other site 485916002830 NAD binding pocket [chemical binding]; other site 485916002831 ATP binding pocket [chemical binding]; other site 485916002832 Mg binding site [ion binding]; other site 485916002833 active-site loop [active] 485916002834 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 485916002835 histidinol-phosphatase; Provisional; Region: PRK07328 485916002836 PHP-associated; Region: PHP_C; pfam13263 485916002837 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 485916002838 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 485916002839 catalytic triad [active] 485916002840 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916002841 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916002842 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916002843 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485916002844 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 485916002845 Walker A/P-loop; other site 485916002846 ATP binding site [chemical binding]; other site 485916002847 Q-loop/lid; other site 485916002848 ABC transporter signature motif; other site 485916002849 Walker B; other site 485916002850 D-loop; other site 485916002851 H-loop/switch region; other site 485916002852 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485916002853 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 485916002854 FtsX-like permease family; Region: FtsX; cl15850 485916002855 Helix-turn-helix domains; Region: HTH; cl00088 485916002856 Winged helix-turn helix; Region: HTH_29; pfam13551 485916002857 Integrase core domain; Region: rve; cl01316 485916002858 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 485916002859 cell division protein MraZ; Reviewed; Region: PRK00326 485916002860 MraZ protein; Region: MraZ; pfam02381 485916002861 MraZ protein; Region: MraZ; pfam02381 485916002862 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 485916002863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916002864 Septum formation initiator; Region: DivIC; cl11433 485916002865 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 485916002866 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 485916002867 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 485916002868 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 485916002869 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 485916002870 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 485916002871 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 485916002872 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916002873 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485916002874 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 485916002875 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 485916002876 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916002877 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485916002878 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 485916002879 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 485916002880 Mg++ binding site [ion binding]; other site 485916002881 putative catalytic motif [active] 485916002882 putative substrate binding site [chemical binding]; other site 485916002883 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 485916002884 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916002885 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485916002886 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 485916002887 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 485916002888 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 485916002889 active site 485916002890 homodimer interface [polypeptide binding]; other site 485916002891 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 485916002892 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 485916002893 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916002894 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485916002895 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 485916002896 FAD binding domain; Region: FAD_binding_4; pfam01565 485916002897 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 485916002898 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 485916002899 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 485916002900 hinge; other site 485916002901 active site 485916002902 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 485916002903 Cell division protein FtsQ; Region: FtsQ; pfam03799 485916002904 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 485916002905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 485916002906 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 485916002907 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 485916002908 cell division protein FtsA; Region: ftsA; TIGR01174 485916002909 Cell division protein FtsA; Region: FtsA; cl11496 485916002910 Cell division protein FtsA; Region: FtsA; cl11496 485916002911 cell division protein FtsZ; Validated; Region: PRK09330 485916002912 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 485916002913 nucleotide binding site [chemical binding]; other site 485916002914 SulA interaction site; other site 485916002915 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 485916002916 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 485916002917 sporulation sigma factor SigE; Reviewed; Region: PRK08301 485916002918 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916002919 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 485916002920 DNA binding residues [nucleotide binding] 485916002921 sporulation sigma factor SigG; Reviewed; Region: PRK08215 485916002922 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916002923 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 485916002924 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 485916002925 DNA binding residues [nucleotide binding] 485916002926 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 485916002927 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 485916002928 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 485916002929 ATP cone domain; Region: ATP-cone; pfam03477 485916002930 ATP cone domain; Region: ATP-cone; pfam03477 485916002931 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 485916002932 DNA-directed RNA polymerase subunit A''; Provisional; Region: PRK14898 485916002933 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; cl15780 485916002934 thioester formation/cholesterol transfer; other site 485916002935 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; cl15780 485916002936 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 485916002937 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 485916002938 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 485916002939 FeS/SAM binding site; other site 485916002940 autolysin; Reviewed; Region: PRK06347 485916002941 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916002942 putative peptidoglycan binding site; other site 485916002943 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 485916002944 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 485916002945 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485916002946 Beta-Casp domain; Region: Beta-Casp; cl12567 485916002947 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 485916002948 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 485916002949 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 485916002950 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916002951 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916002952 active site 485916002953 phosphorylation site [posttranslational modification] 485916002954 intermolecular recognition site; other site 485916002955 dimerization interface [polypeptide binding]; other site 485916002956 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 485916002957 DNA binding site [nucleotide binding] 485916002958 Reticulon; Region: Reticulon; pfam02453 485916002959 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 485916002960 dimerization interface [polypeptide binding]; other site 485916002961 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 485916002962 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 485916002963 putative active site [active] 485916002964 heme pocket [chemical binding]; other site 485916002965 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 485916002966 dimer interface [polypeptide binding]; other site 485916002967 phosphorylation site [posttranslational modification] 485916002968 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916002969 ATP binding site [chemical binding]; other site 485916002970 Mg2+ binding site [ion binding]; other site 485916002971 G-X-G motif; other site 485916002972 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 485916002973 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 485916002974 Walker A/P-loop; other site 485916002975 ATP binding site [chemical binding]; other site 485916002976 Q-loop/lid; other site 485916002977 ABC transporter signature motif; other site 485916002978 Walker B; other site 485916002979 D-loop; other site 485916002980 H-loop/switch region; other site 485916002981 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 485916002982 PhoU domain; Region: PhoU; pfam01895 485916002983 PhoU domain; Region: PhoU; pfam01895 485916002984 HlyD family secretion protein; Region: HlyD_2; pfam12700 485916002985 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916002986 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 485916002987 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 485916002988 catalytic residue [active] 485916002989 Protein of unknown function (DUF552); Region: DUF552; cl00775 485916002990 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916002991 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 485916002992 YGGT family; Region: YGGT; cl00508 485916002993 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 485916002994 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 485916002995 DivIVA protein; Region: DivIVA; pfam05103 485916002996 DivIVA domain; Region: DivI1A_domain; TIGR03544 485916002997 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 485916002998 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 485916002999 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485916003000 active site 485916003001 HIGH motif; other site 485916003002 nucleotide binding site [chemical binding]; other site 485916003003 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 485916003004 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 485916003005 active site 485916003006 KMSKS motif; other site 485916003007 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 485916003008 tRNA binding surface [nucleotide binding]; other site 485916003009 anticodon binding site; other site 485916003010 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 485916003011 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 485916003012 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 485916003013 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 485916003014 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 485916003015 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 485916003016 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916003017 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 485916003018 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 485916003019 putative active site [active] 485916003020 putative metal binding site [ion binding]; other site 485916003021 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 485916003022 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 485916003023 dimer interface [polypeptide binding]; other site 485916003024 conserved gate region; other site 485916003025 putative PBP binding loops; other site 485916003026 ABC-ATPase subunit interface; other site 485916003027 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 485916003028 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 485916003029 dimer interface [polypeptide binding]; other site 485916003030 conserved gate region; other site 485916003031 putative PBP binding loops; other site 485916003032 ABC-ATPase subunit interface; other site 485916003033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003034 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003035 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 485916003036 Transcriptional regulator; Region: Transcrip_reg; cl00361 485916003037 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 485916003038 dimanganese center [ion binding]; other site 485916003039 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916003040 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916003041 Asp23 family; Region: Asp23; cl00574 485916003042 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 includes...; Region: RuvC_resolvase; cd00529 485916003043 active site 485916003044 putative DNA-binding cleft [nucleotide binding]; other site 485916003045 dimer interface [polypeptide binding]; other site 485916003046 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 485916003047 RuvA N terminal domain; Region: RuvA_N; pfam01330 485916003048 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 485916003049 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 485916003050 Walker A motif; other site 485916003051 ATP binding site [chemical binding]; other site 485916003052 Walker B motif; other site 485916003053 arginine finger; other site 485916003054 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 485916003055 Amino acid permease; Region: AA_permease_2; pfam13520 485916003056 Amino acid permease; Region: AA_permease_2; pfam13520 485916003057 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 485916003058 MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess...; Region: ABC_MutS-like; cd03283 485916003059 Walker A/P-loop; other site 485916003060 ATP binding site [chemical binding]; other site 485916003061 Q-loop/lid; other site 485916003062 ABC transporter signature motif; other site 485916003063 Walker B; other site 485916003064 D-loop; other site 485916003065 H-loop/switch region; other site 485916003066 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 485916003067 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 485916003068 Stage II sporulation protein; Region: SpoIID; pfam08486 485916003069 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 485916003070 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 485916003071 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 485916003072 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 485916003073 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 485916003074 Preprotein translocase subunit; Region: YajC; cl00806 485916003075 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 485916003076 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 485916003077 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 485916003078 Protein export membrane protein; Region: SecD_SecF; cl14618 485916003079 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 485916003080 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 485916003081 Protein export membrane protein; Region: SecD_SecF; cl14618 485916003082 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 485916003083 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 485916003084 Cation efflux family; Region: Cation_efflux; cl00316 485916003085 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 485916003086 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916003087 Outer spore coat protein E (CotE); Region: CotE; pfam10628 485916003088 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 485916003089 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 485916003090 active site 485916003091 ATP binding site [chemical binding]; other site 485916003092 substrate binding site [chemical binding]; other site 485916003093 Outer spore coat protein E (CotE); Region: CotE; pfam10628 485916003094 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916003095 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916003096 active site 485916003097 metal binding site [ion binding]; metal-binding site 485916003098 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916003099 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 485916003100 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 485916003101 ATP-grasp domain; Region: ATP-grasp_4; cl03087 485916003102 WbqC-like protein family; Region: WbqC; pfam08889 485916003103 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 485916003104 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 485916003105 inhibitor-cofactor binding pocket; inhibition site 485916003106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916003107 catalytic residue [active] 485916003108 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 485916003109 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 485916003110 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 485916003111 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 485916003112 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 485916003113 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 485916003114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003115 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 485916003116 Flagellin N-methylase; Region: FliB; cl00497 485916003117 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 485916003118 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 485916003119 PDGLE domain; Region: PDGLE; cl07986 485916003120 Cobalt transport protein; Region: CbiQ; cl00463 485916003121 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13647 485916003122 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 485916003123 Walker A/P-loop; other site 485916003124 ATP binding site [chemical binding]; other site 485916003125 Q-loop/lid; other site 485916003126 ABC transporter signature motif; other site 485916003127 Walker B; other site 485916003128 D-loop; other site 485916003129 H-loop/switch region; other site 485916003130 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 485916003131 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916003132 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 485916003133 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 485916003134 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 485916003135 catalytic triad [active] 485916003136 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 485916003137 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 485916003138 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 485916003139 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 485916003140 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 485916003141 Uncharacterized conserved protein [Function unknown]; Region: COG2718 485916003142 SpoVR like protein; Region: SpoVR; pfam04293 485916003143 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 485916003144 putative efflux protein, MATE family; Region: matE; TIGR00797 485916003145 MatE; Region: MatE; cl10513 485916003146 MatE; Region: MatE; cl10513 485916003147 TIGR04076 family protein; Region: TIGR04076 485916003148 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 485916003149 NodB motif; other site 485916003150 putative active site [active] 485916003151 putative catalytic site [active] 485916003152 Zn binding site [ion binding]; other site 485916003153 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 485916003154 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 485916003155 active site 485916003156 metal binding site [ion binding]; metal-binding site 485916003157 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 485916003158 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 485916003159 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 485916003160 generic binding surface II; other site 485916003161 ssDNA binding site; other site 485916003162 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 485916003163 ATP binding site [chemical binding]; other site 485916003164 putative Mg++ binding site [ion binding]; other site 485916003165 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 485916003166 nucleotide binding region [chemical binding]; other site 485916003167 ATP-binding site [chemical binding]; other site 485916003168 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 485916003169 Germination protease; Region: Peptidase_A25; cl04057 485916003170 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; cl15754 485916003171 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 485916003172 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 485916003173 active site 485916003174 (T/H)XGH motif; other site 485916003175 Acetokinase family; Region: Acetate_kinase; cl01029 485916003176 propionate/acetate kinase; Provisional; Region: PRK12379 485916003177 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 485916003178 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 485916003179 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 485916003180 Nucleoside recognition; Region: Gate; cl00486 485916003181 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 485916003182 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 485916003183 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 485916003184 Helix-turn-helix domains; Region: HTH; cl00088 485916003185 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 485916003186 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 485916003187 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 485916003188 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 485916003189 dimer interface [polypeptide binding]; other site 485916003190 active site 485916003191 CoA binding pocket [chemical binding]; other site 485916003192 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 485916003193 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 485916003194 FMN binding site [chemical binding]; other site 485916003195 substrate binding site [chemical binding]; other site 485916003196 putative catalytic residue [active] 485916003197 Acyl transferase domain; Region: Acyl_transf_1; cl08282 485916003198 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 485916003199 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 485916003200 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 485916003201 NAD(P) binding site [chemical binding]; other site 485916003202 homotetramer interface [polypeptide binding]; other site 485916003203 homodimer interface [polypeptide binding]; other site 485916003204 active site 485916003205 Phosphopantetheine attachment site; Region: PP-binding; cl09936 485916003206 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 485916003207 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 485916003208 dimer interface [polypeptide binding]; other site 485916003209 active site 485916003210 ribonuclease III; Reviewed; Region: rnc; PRK00102 485916003211 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 485916003212 dimerization interface [polypeptide binding]; other site 485916003213 active site 485916003214 metal binding site [ion binding]; metal-binding site 485916003215 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 485916003216 dsRNA binding site [nucleotide binding]; other site 485916003217 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 485916003218 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 485916003219 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 485916003220 P loop; other site 485916003221 GTP binding site [chemical binding]; other site 485916003222 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 485916003223 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 485916003224 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 485916003225 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 485916003226 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003227 oligomerization interface [polypeptide binding]; other site 485916003228 active site 485916003229 NAD+ binding site [chemical binding]; other site 485916003230 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 485916003231 intersubunit interface [polypeptide binding]; other site 485916003232 active site 485916003233 Zn2+ binding site [ion binding]; other site 485916003234 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 485916003235 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 485916003236 active site 485916003237 putative substrate binding pocket [chemical binding]; other site 485916003238 intracellular protease, PfpI family; Region: PfpI; TIGR01382 485916003239 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 485916003240 proposed catalytic triad [active] 485916003241 conserved cys residue [active] 485916003242 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916003243 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 485916003244 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 485916003245 inhibitor-cofactor binding pocket; inhibition site 485916003246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916003247 catalytic residue [active] 485916003248 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 485916003249 DNA binding residues [nucleotide binding] 485916003250 signal recognition particle protein; Provisional; Region: PRK10867 485916003251 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 485916003252 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 485916003253 P loop; other site 485916003254 GTP binding site [chemical binding]; other site 485916003255 Signal peptide binding domain; Region: SRP_SPB; pfam02978 485916003256 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 485916003257 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 485916003258 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 485916003259 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 485916003260 RimM N-terminal domain; Region: RimM; pfam01782 485916003261 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 485916003262 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 485916003263 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 485916003264 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 485916003265 Catalytic site [active] 485916003266 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 485916003267 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 485916003268 GTP/Mg2+ binding site [chemical binding]; other site 485916003269 G4 box; other site 485916003270 G5 box; other site 485916003271 G1 box; other site 485916003272 Switch I region; other site 485916003273 G2 box; other site 485916003274 G3 box; other site 485916003275 Switch II region; other site 485916003276 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 485916003277 RNA/DNA hybrid binding site [nucleotide binding]; other site 485916003278 active site 485916003279 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 485916003280 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 485916003281 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 485916003282 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 485916003283 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 485916003284 NADH dehydrogenase; Region: NADHdh; cl00469 485916003285 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 485916003286 4Fe-4S binding domain; Region: Fer4; cl02805 485916003287 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 485916003288 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 485916003289 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 485916003290 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 485916003291 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 485916003292 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 485916003293 Multicomponent K+:H+antiporter; Region: 2a6301s04; TIGR00944 485916003294 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 485916003295 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 485916003296 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 485916003297 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 485916003298 Restriction endonuclease; Region: Mrr_cat; cl00516 485916003299 Uncharacterized conserved protein [Function unknown]; Region: COG1284 485916003300 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 485916003301 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 485916003302 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 485916003303 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 485916003304 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 485916003305 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003306 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 485916003307 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 485916003308 4Fe-4S binding domain; Region: Fer4; cl02805 485916003309 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 485916003310 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 485916003311 DNA topoisomerase I; Validated; Region: PRK05582 485916003312 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 485916003313 active site 485916003314 interdomain interaction site; other site 485916003315 putative metal-binding site [ion binding]; other site 485916003316 nucleotide binding site [chemical binding]; other site 485916003317 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 485916003318 domain I; other site 485916003319 DNA binding groove [nucleotide binding] 485916003320 phosphate binding site [ion binding]; other site 485916003321 domain II; other site 485916003322 domain III; other site 485916003323 nucleotide binding site [chemical binding]; other site 485916003324 catalytic site [active] 485916003325 domain IV; other site 485916003326 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 485916003327 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 485916003328 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 485916003329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003330 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 485916003331 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 485916003332 DNA binding site [nucleotide binding] 485916003333 Int/Topo IB signature motif; other site 485916003334 active site 485916003335 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 485916003336 active site 485916003337 HslU subunit interaction site [polypeptide binding]; other site 485916003338 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 485916003339 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003340 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 485916003341 Walker A motif; other site 485916003342 ATP binding site [chemical binding]; other site 485916003343 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003344 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 485916003345 transcriptional repressor CodY; Validated; Region: PRK04158 485916003346 CodY GAF-like domain; Region: CodY; pfam06018 485916003347 Helix-turn-helix domains; Region: HTH; cl00088 485916003348 Clp protease; Region: CLP_protease; pfam00574 485916003349 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 485916003350 oligomer interface [polypeptide binding]; other site 485916003351 active site residues [active] 485916003352 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 485916003353 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 485916003354 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 485916003355 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 485916003356 P loop nucleotide binding; other site 485916003357 switch II; other site 485916003358 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 485916003359 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 485916003360 switch II; other site 485916003361 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 485916003362 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 485916003363 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003364 Walker A/P-loop; other site 485916003365 ATP binding site [chemical binding]; other site 485916003366 Q-loop/lid; other site 485916003367 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 485916003368 ABC transporter signature motif; other site 485916003369 Walker B; other site 485916003370 D-loop; other site 485916003371 H-loop/switch region; other site 485916003372 ABC transporter; Region: ABC_tran_2; pfam12848 485916003373 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 485916003374 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916003375 putative peptidoglycan binding site; other site 485916003376 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916003377 putative peptidoglycan binding site; other site 485916003378 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916003379 putative peptidoglycan binding site; other site 485916003380 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916003381 putative peptidoglycan binding site; other site 485916003382 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916003383 putative peptidoglycan binding site; other site 485916003384 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 485916003385 DNA binding residues [nucleotide binding] 485916003386 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 485916003387 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 485916003388 catalytic residues [active] 485916003389 catalytic nucleophile [active] 485916003390 Coat F domain; Region: Coat_F; cl15836 485916003391 stage V sporulation protein T; Region: spore_V_T; TIGR02851 485916003392 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 485916003393 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 485916003394 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 485916003395 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 485916003396 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 485916003397 putative active site [active] 485916003398 catalytic site [active] 485916003399 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 485916003400 putative active site [active] 485916003401 catalytic site [active] 485916003402 Mechanosensitive ion channel; Region: MS_channel; pfam00924 485916003403 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 485916003404 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 485916003405 substrate binding pocket [chemical binding]; other site 485916003406 chain length determination region; other site 485916003407 substrate-Mg2+ binding site; other site 485916003408 catalytic residues [active] 485916003409 aspartate-rich region 1; other site 485916003410 active site lid residues [active] 485916003411 aspartate-rich region 2; other site 485916003412 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 485916003413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003414 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 485916003415 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 485916003416 tRNA; other site 485916003417 putative tRNA binding site [nucleotide binding]; other site 485916003418 putative NADP binding site [chemical binding]; other site 485916003419 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 485916003420 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 485916003421 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 485916003422 domain interfaces; other site 485916003423 active site 485916003424 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 485916003425 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 485916003426 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 485916003427 active site 485916003428 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 485916003429 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 485916003430 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 485916003431 FeS/SAM binding site; other site 485916003432 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 485916003433 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 485916003434 dimer interface [polypeptide binding]; other site 485916003435 active site 485916003436 Schiff base residues; other site 485916003437 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 485916003438 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 485916003439 FeS/SAM binding site; other site 485916003440 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 485916003441 Helix-turn-helix domains; Region: HTH; cl00088 485916003442 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 485916003443 Helix-turn-helix domains; Region: HTH; cl00088 485916003444 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 485916003445 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 485916003446 inhibitor-cofactor binding pocket; inhibition site 485916003447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916003448 catalytic residue [active] 485916003449 Putative cyclase; Region: Cyclase; cl00814 485916003450 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 485916003451 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 485916003452 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003453 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 485916003454 MoxR-like ATPases [General function prediction only]; Region: COG0714 485916003455 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 485916003456 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003457 Walker A motif; other site 485916003458 ATP binding site [chemical binding]; other site 485916003459 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 485916003460 Flagellin N-methylase; Region: FliB; cl00497 485916003461 4Fe-4S binding domain; Region: Fer4; cl02805 485916003462 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 485916003463 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 485916003464 P-loop; other site 485916003465 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003466 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 485916003467 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 485916003468 ACS interaction site; other site 485916003469 CODH interaction site; other site 485916003470 cubane metal cluster (B-cluster) [ion binding]; other site 485916003471 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 485916003472 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 485916003473 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 485916003474 CODH interaction site; other site 485916003475 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 485916003476 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 485916003477 Putative Fe-S cluster; Region: FeS; pfam04060 485916003478 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 485916003479 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 485916003480 catalytic loop [active] 485916003481 iron binding site [ion binding]; other site 485916003482 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 485916003483 catalytic site [active] 485916003484 metal binding site [ion binding]; metal-binding site 485916003485 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 485916003486 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 485916003487 P-loop; other site 485916003488 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003489 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 485916003490 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 485916003491 substrate binding pocket [chemical binding]; other site 485916003492 dimer interface [polypeptide binding]; other site 485916003493 inhibitor binding site; inhibition site 485916003494 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003495 4Fe-4S binding domain; Region: Fer4; cl02805 485916003496 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003498 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003499 4Fe-4S binding domain; Region: Fer4; cl02805 485916003500 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 485916003501 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 485916003502 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 485916003503 acetyl-CoA decarbonylase/synthase complex subunit alpha; Validated; Region: PRK00941 485916003504 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 485916003505 4Fe-4S binding domain; Region: Fer4; cl02805 485916003506 putative oxidoreductase; Provisional; Region: PRK13984 485916003507 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 485916003508 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 485916003509 FAD binding pocket [chemical binding]; other site 485916003510 FAD binding motif [chemical binding]; other site 485916003511 phosphate binding motif [ion binding]; other site 485916003512 beta-alpha-beta structure motif; other site 485916003513 NAD binding pocket [chemical binding]; other site 485916003514 Iron coordination center [ion binding]; other site 485916003515 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485916003516 Cysteine-rich domain; Region: CCG; pfam02754 485916003517 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 485916003518 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 485916003519 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 485916003520 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 485916003521 FAD binding site [chemical binding]; other site 485916003522 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 485916003523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003524 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 485916003525 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 485916003526 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 485916003527 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 485916003528 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 485916003529 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 485916003530 Walker A motif; other site 485916003531 ATP binding site [chemical binding]; other site 485916003532 Walker B motif; other site 485916003533 arginine finger; other site 485916003534 CbiD; Region: CbiD; cl00828 485916003535 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 485916003536 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 485916003537 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 485916003538 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 485916003539 S-adenosylmethionine binding site [chemical binding]; other site 485916003540 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 485916003541 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 485916003542 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 485916003543 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 485916003544 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 485916003545 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 485916003546 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 485916003547 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 485916003548 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 485916003549 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 485916003550 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 485916003551 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 485916003552 Precorrin-8X methylmutase; Region: CbiC; pfam02570 485916003553 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916003554 putative peptidoglycan binding site; other site 485916003555 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 485916003556 Transglycosylase; Region: Transgly; cl07896 485916003557 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 485916003558 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 485916003559 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 485916003560 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916003561 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 485916003562 Restriction endonuclease; Region: Mrr_cat; cl00516 485916003563 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 485916003564 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 485916003565 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 485916003566 inhibitor-cofactor binding pocket; inhibition site 485916003567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916003568 catalytic residue [active] 485916003569 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 485916003570 Restriction endonuclease; Region: Mrr_cat; cl00516 485916003571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 485916003572 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 485916003573 aspartate aminotransferase; Provisional; Region: PRK06836 485916003574 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 485916003575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916003576 homodimer interface [polypeptide binding]; other site 485916003577 catalytic residue [active] 485916003578 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 485916003579 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 485916003580 putative NAD(P) binding site [chemical binding]; other site 485916003581 active site 485916003582 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 485916003583 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916003584 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916003585 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 485916003586 PAS fold; Region: PAS; pfam00989 485916003587 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916003588 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 485916003589 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 485916003590 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 485916003591 ATP binding site [chemical binding]; other site 485916003592 putative Mg++ binding site [ion binding]; other site 485916003593 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 485916003594 nucleotide binding region [chemical binding]; other site 485916003595 ATP-binding site [chemical binding]; other site 485916003596 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 485916003597 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 485916003598 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 485916003599 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 485916003600 active site 485916003601 Acyl transferase domain; Region: Acyl_transf_1; cl08282 485916003602 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 485916003603 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 485916003604 putative NADP binding site [chemical binding]; other site 485916003605 active site 485916003606 Phosphopantetheine attachment site; Region: PP-binding; cl09936 485916003607 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]; Region: COG2108 485916003608 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 485916003609 FeS/SAM binding site; other site 485916003610 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 485916003611 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 485916003612 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 485916003613 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 485916003614 secreted effector protein PipB; Provisional; Region: PRK15197 485916003615 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 485916003616 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 485916003617 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 485916003618 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485916003619 DNA binding residues [nucleotide binding] 485916003620 putative dimer interface [polypeptide binding]; other site 485916003621 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 485916003622 Uncharacterized conserved protein [Function unknown]; Region: COG2006 485916003623 4Fe-4S binding domain; Region: Fer4; cl02805 485916003624 4Fe-4S binding domain; Region: Fer4; cl02805 485916003625 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916003626 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916003627 active site 485916003628 phosphorylation site [posttranslational modification] 485916003629 intermolecular recognition site; other site 485916003630 dimerization interface [polypeptide binding]; other site 485916003631 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 485916003632 DNA binding site [nucleotide binding] 485916003633 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 485916003634 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 485916003635 dimer interface [polypeptide binding]; other site 485916003636 phosphorylation site [posttranslational modification] 485916003637 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916003638 adenylate kinase; Reviewed; Region: adk; PRK00279 485916003639 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 485916003640 AMP-binding site [chemical binding]; other site 485916003641 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 485916003642 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485916003643 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 485916003644 S-adenosylmethionine binding site [chemical binding]; other site 485916003645 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 485916003646 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485916003647 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485916003648 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 485916003649 dimer interface [polypeptide binding]; other site 485916003650 substrate binding site [chemical binding]; other site 485916003651 metal binding site [ion binding]; metal-binding site 485916003652 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 485916003653 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 485916003654 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 485916003655 pyruvate carboxylase subunit B; Validated; Region: PRK09282 485916003656 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 485916003657 carboxyltransferase (CT) interaction site; other site 485916003658 biotinylation site [posttranslational modification]; other site 485916003659 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485916003660 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916003661 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916003662 active site 485916003663 metal binding site [ion binding]; metal-binding site 485916003664 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 485916003665 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 485916003666 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003667 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003668 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 485916003669 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 485916003670 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 485916003671 Cysteine-rich domain; Region: CCG; pfam02754 485916003672 Cysteine-rich domain; Region: CCG; pfam02754 485916003673 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003674 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 485916003675 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003676 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003678 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003679 4Fe-4S binding domain; Region: Fer4; cl02805 485916003680 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 485916003681 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 485916003682 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 485916003683 Cysteine-rich domain; Region: CCG; pfam02754 485916003684 Cysteine-rich domain; Region: CCG; pfam02754 485916003685 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003687 4Fe-4S binding domain; Region: Fer4; cl02805 485916003688 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 485916003689 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 485916003690 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 485916003691 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 485916003692 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 485916003693 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 485916003694 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 485916003695 FAD binding pocket [chemical binding]; other site 485916003696 FAD binding motif [chemical binding]; other site 485916003697 phosphate binding motif [ion binding]; other site 485916003698 beta-alpha-beta structure motif; other site 485916003699 NAD binding pocket [chemical binding]; other site 485916003700 Iron coordination center [ion binding]; other site 485916003701 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 485916003702 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916003703 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 485916003704 DNA binding residues [nucleotide binding] 485916003705 Putative zinc-finger; Region: zf-HC2; cl15806 485916003706 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 485916003707 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 485916003708 homodecamer interface [polypeptide binding]; other site 485916003709 GTP cyclohydrolase I; Provisional; Region: PLN03044 485916003710 active site 485916003711 putative catalytic site residues [active] 485916003712 zinc binding site [ion binding]; other site 485916003713 GTP-CH-I/GFRP interaction surface; other site 485916003714 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 485916003715 Survival protein SurE; Region: SurE; cl00448 485916003716 stage V sporulation protein B; Region: spore_V_B; TIGR02900 485916003717 MatE; Region: MatE; cl10513 485916003718 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 485916003719 elongation factor G; Reviewed; Region: PRK12740 485916003720 G1 box; other site 485916003721 putative GEF interaction site [polypeptide binding]; other site 485916003722 GTP/Mg2+ binding site [chemical binding]; other site 485916003723 Switch I region; other site 485916003724 G2 box; other site 485916003725 G3 box; other site 485916003726 Switch II region; other site 485916003727 G4 box; other site 485916003728 G5 box; other site 485916003729 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 485916003730 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 485916003731 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 485916003732 Domain of unknown function (DUF202); Region: DUF202; cl09954 485916003733 PilZ domain; Region: PilZ; cl01260 485916003734 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916003735 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916003736 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 485916003737 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916003738 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 485916003739 RNA/DNA hybrid binding site [nucleotide binding]; other site 485916003740 active site 485916003741 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 485916003742 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 485916003743 dimerization interface [polypeptide binding]; other site 485916003744 domain crossover interface; other site 485916003745 redox-dependent activation switch; other site 485916003746 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 485916003747 Sulfatase; Region: Sulfatase; cl10460 485916003748 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916003749 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 485916003750 dimerization interface [polypeptide binding]; other site 485916003751 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 485916003752 dimer interface [polypeptide binding]; other site 485916003753 phosphorylation site [posttranslational modification] 485916003754 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916003755 ATP binding site [chemical binding]; other site 485916003756 Mg2+ binding site [ion binding]; other site 485916003757 G-X-G motif; other site 485916003758 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916003759 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916003760 active site 485916003761 phosphorylation site [posttranslational modification] 485916003762 intermolecular recognition site; other site 485916003763 dimerization interface [polypeptide binding]; other site 485916003764 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 485916003765 DNA binding site [nucleotide binding] 485916003766 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 485916003767 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 485916003768 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 485916003769 protein binding site [polypeptide binding]; other site 485916003770 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003772 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003773 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916003774 4Fe-4S binding domain; Region: Fer4; cl02805 485916003775 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 catalyze...; Region: LT_GEWL; cd00254 485916003776 N-acetyl-D-glucosamine binding site [chemical binding]; other site 485916003777 catalytic residue [active] 485916003778 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 485916003779 DNA binding site [nucleotide binding] 485916003780 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 485916003781 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 485916003782 CoenzymeA binding site [chemical binding]; other site 485916003783 subunit interaction site [polypeptide binding]; other site 485916003784 PHB binding site; other site 485916003785 AMP-binding enzyme; Region: AMP-binding; cl15778 485916003786 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 485916003787 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003788 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 485916003789 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 485916003790 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 485916003791 NurA domain; Region: NurA; cl09134 485916003792 HerA helicase [Replication, recombination, and repair]; Region: COG0433 485916003793 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 485916003794 active site 485916003795 metal binding site [ion binding]; metal-binding site 485916003796 DNA binding site [nucleotide binding] 485916003797 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 485916003798 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003799 Walker A/P-loop; other site 485916003800 ATP binding site [chemical binding]; other site 485916003801 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 485916003802 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003803 ABC transporter signature motif; other site 485916003804 Walker B; other site 485916003805 D-loop; other site 485916003806 H-loop/switch region; other site 485916003807 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 485916003808 CGGC domain; Region: CGGC; cl02356 485916003809 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 485916003810 putative active site [active] 485916003811 putative metal binding site [ion binding]; other site 485916003812 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 485916003813 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 485916003814 Helix-turn-helix domains; Region: HTH; cl00088 485916003815 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 485916003816 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 485916003817 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003818 Walker A motif; other site 485916003819 ATP binding site [chemical binding]; other site 485916003820 Walker B motif; other site 485916003821 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 485916003822 RNA binding site [nucleotide binding]; other site 485916003823 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 485916003824 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 485916003825 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 485916003826 active site 485916003827 metal binding site [ion binding]; metal-binding site 485916003828 interdomain interaction site; other site 485916003829 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 485916003830 hypothetical protein; Reviewed; Region: PRK00024 485916003831 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 485916003832 MPN+ (JAMM) motif; other site 485916003833 Zinc-binding site [ion binding]; other site 485916003834 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 485916003835 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 485916003836 DNA binding site [nucleotide binding] 485916003837 Int/Topo IB signature motif; other site 485916003838 active site 485916003839 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 485916003840 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 485916003841 ATP binding site [chemical binding]; other site 485916003842 putative Mg++ binding site [ion binding]; other site 485916003843 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 485916003844 nucleotide binding region [chemical binding]; other site 485916003845 ATP-binding site [chemical binding]; other site 485916003846 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 485916003847 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 485916003848 ATP binding site [chemical binding]; other site 485916003849 putative Mg++ binding site [ion binding]; other site 485916003850 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 485916003851 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 485916003852 ATP-binding site [chemical binding]; other site 485916003853 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 485916003854 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 485916003855 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003856 Family description; Region: UvrD_C_2; cl15862 485916003857 Helix-turn-helix domains; Region: HTH; cl00088 485916003858 Winged helix-turn helix; Region: HTH_29; pfam13551 485916003859 Integrase core domain; Region: rve; cl01316 485916003860 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003861 Walker A/P-loop; other site 485916003862 ATP binding site [chemical binding]; other site 485916003863 AAA domain; Region: AAA_21; pfam13304 485916003864 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003865 Protein of unknown function DUF262; Region: DUF262; cl14890 485916003866 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916003867 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916003868 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 485916003869 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 485916003870 DNA binding site [nucleotide binding] 485916003871 Int/Topo IB signature motif; other site 485916003872 active site 485916003873 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 485916003874 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 485916003875 DNA binding site [nucleotide binding] 485916003876 Int/Topo IB signature motif; other site 485916003877 active site 485916003878 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 485916003879 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 485916003880 DNA binding site [nucleotide binding] 485916003881 Int/Topo IB signature motif; other site 485916003882 active site 485916003883 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 485916003884 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 485916003885 Integrase core domain; Region: rve; cl01316 485916003886 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 485916003887 Transposase domain (DUF772); Region: DUF772; cl15789 485916003888 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 485916003889 Transposase domain (DUF772); Region: DUF772; cl15789 485916003890 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 485916003891 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 485916003892 FeS/SAM binding site; other site 485916003893 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 485916003894 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 485916003895 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 485916003896 ATP binding site [chemical binding]; other site 485916003897 putative Mg++ binding site [ion binding]; other site 485916003898 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 485916003899 nucleotide binding region [chemical binding]; other site 485916003900 ATP-binding site [chemical binding]; other site 485916003901 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 485916003902 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485916003903 DNA-binding site [nucleotide binding]; DNA binding site 485916003904 UTRA domain; Region: UTRA; cl01230 485916003905 Creatinine amidohydrolase; Region: Creatininase; cl00618 485916003906 Helix-turn-helix domains; Region: HTH; cl00088 485916003907 Winged helix-turn helix; Region: HTH_29; pfam13551 485916003908 Winged helix-turn helix; Region: HTH_33; pfam13592 485916003909 Integrase core domain; Region: rve; cl01316 485916003910 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916003911 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 485916003912 non-specific DNA binding site [nucleotide binding]; other site 485916003913 salt bridge; other site 485916003914 sequence-specific DNA binding site [nucleotide binding]; other site 485916003915 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916003916 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 485916003917 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 485916003918 ATP binding site [chemical binding]; other site 485916003919 putative Mg++ binding site [ion binding]; other site 485916003920 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 485916003921 nucleotide binding region [chemical binding]; other site 485916003922 ATP-binding site [chemical binding]; other site 485916003923 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 485916003924 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 485916003925 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 485916003926 Divergent AAA domain; Region: AAA_4; pfam04326 485916003927 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 485916003928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916003929 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916003930 Probable transposase; Region: OrfB_IS605; pfam01385 485916003931 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916003932 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 485916003933 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 485916003934 NifU-like domain; Region: NifU; cl00484 485916003935 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 485916003936 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003937 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 485916003938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916003939 S-layer homology domain; Region: SLH; pfam00395 485916003940 YodL-like; Region: YodL; pfam14191 485916003941 SpoVG; Region: SpoVG; cl00915 485916003942 SAF domain; Region: SAF; cl00555 485916003943 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 485916003944 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 485916003945 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003946 Walker A motif; other site 485916003947 ATP binding site [chemical binding]; other site 485916003948 Walker B motif; other site 485916003949 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 485916003950 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 485916003951 Protein of unknown function (DUF3852); Region: DUF3852; pfam12963 485916003952 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; cl15754 485916003953 cofactor binding site; other site 485916003954 DNA binding site [nucleotide binding] 485916003955 substrate interaction site [chemical binding]; other site 485916003956 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; cl15754 485916003957 AAA-like domain; Region: AAA_10; pfam12846 485916003958 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 485916003959 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 485916003960 putative active site pocket [active] 485916003961 dimerization interface [polypeptide binding]; other site 485916003962 putative catalytic residue [active] 485916003963 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 485916003964 Sel1 repeat; Region: Sel1; cl02723 485916003965 Sel1 repeat; Region: Sel1; cl02723 485916003966 Sel1 repeat; Region: Sel1; cl02723 485916003967 Sel1 repeat; Region: Sel1; cl02723 485916003968 Sel1 repeat; Region: Sel1; cl02723 485916003969 Sel1 repeat; Region: Sel1; cl02723 485916003970 Sel1 repeat; Region: Sel1; cl02723 485916003971 CHC2 zinc finger; Region: zf-CHC2; cl15369 485916003972 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 485916003973 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 485916003974 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 485916003975 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003976 Walker A motif; other site 485916003977 ATP binding site [chemical binding]; other site 485916003978 Walker B motif; other site 485916003979 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485916003980 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916003981 DNA binding residues [nucleotide binding] 485916003982 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916003983 DNA binding residues [nucleotide binding] 485916003984 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 485916003985 H+ Antiporter protein; Region: 2A0121; TIGR00900 485916003986 putative substrate translocation pore; other site 485916003987 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003988 Walker A/P-loop; other site 485916003989 ATP binding site [chemical binding]; other site 485916003990 Q-loop/lid; other site 485916003991 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 485916003992 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916003993 AAA domain; Region: AAA_21; pfam13304 485916003994 Walker A/P-loop; other site 485916003995 ATP binding site [chemical binding]; other site 485916003996 Q-loop/lid; other site 485916003997 ABC transporter signature motif; other site 485916003998 Walker B; other site 485916003999 D-loop; other site 485916004000 H-loop/switch region; other site 485916004001 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 485916004002 non-specific DNA binding site [nucleotide binding]; other site 485916004003 salt bridge; other site 485916004004 sequence-specific DNA binding site [nucleotide binding]; other site 485916004005 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916004006 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916004007 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916004008 DNA binding residues [nucleotide binding] 485916004009 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 485916004010 catalytic residues [active] 485916004011 catalytic nucleophile [active] 485916004012 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 485916004013 catalytic residues [active] 485916004014 catalytic nucleophile [active] 485916004015 Recombinase; Region: Recombinase; pfam07508 485916004016 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916004017 Recombinase; Region: Recombinase; pfam07508 485916004018 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916004019 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 485916004020 catalytic residues [active] 485916004021 catalytic nucleophile [active] 485916004022 Recombinase; Region: Recombinase; pfam07508 485916004023 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916004024 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916004025 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 485916004026 catalytic residues [active] 485916004027 catalytic nucleophile [active] 485916004028 Recombinase; Region: Recombinase; pfam07508 485916004029 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916004030 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916004031 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 485916004032 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; cl15754 485916004033 cofactor binding site; other site 485916004034 DNA binding site [nucleotide binding] 485916004035 substrate interaction site [chemical binding]; other site 485916004036 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; cl15754 485916004037 Catalytic GIY-YIG domain of type II restriction enzyme R.Cfr42I and similar proteins; Region: GIY-YIG_RE_Cfr42I; cd10453 485916004038 GIY-YIG motif/motif A; other site 485916004039 putative active site [active] 485916004040 putative metal binding site [ion binding]; other site 485916004041 trimethylamine-N-oxide reductase TorA; Region: torA; TIGR02164 485916004042 hypothetical protein; Provisional; Region: PRK10396 485916004043 SEC-C motif; Region: SEC-C; pfam02810 485916004044 SAP domain; Region: SAP; cl02640 485916004045 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 485916004046 SEC-C motif; Region: SEC-C; pfam02810 485916004047 Divergent AAA domain; Region: AAA_4; pfam04326 485916004048 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 485916004049 additional DNA contacts [nucleotide binding]; other site 485916004050 mismatch recognition site; other site 485916004051 active site 485916004052 zinc binding site [ion binding]; other site 485916004053 DNA intercalation site [nucleotide binding]; other site 485916004054 heat shock protein 90; Provisional; Region: PTZ00130 485916004055 Divergent AAA domain; Region: AAA_4; pfam04326 485916004056 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 485916004057 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 485916004058 nucleotide binding region [chemical binding]; other site 485916004059 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04537 485916004060 ATP-binding site [chemical binding]; other site 485916004061 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 485916004062 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 485916004063 non-specific DNA binding site [nucleotide binding]; other site 485916004064 salt bridge; other site 485916004065 sequence-specific DNA binding site [nucleotide binding]; other site 485916004066 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916004067 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916004068 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 485916004069 Family description; Region: UvrD_C_2; cl15862 485916004070 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 485916004071 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 485916004072 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916004073 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916004074 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 485916004075 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 485916004076 active site 485916004077 NAD binding site [chemical binding]; other site 485916004078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916004079 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 485916004080 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 485916004081 Rubredoxin; Region: Rubredoxin; pfam00301 485916004082 iron binding site [ion binding]; other site 485916004083 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916004084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004085 active site 485916004086 phosphorylation site [posttranslational modification] 485916004087 intermolecular recognition site; other site 485916004088 dimerization interface [polypeptide binding]; other site 485916004089 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 485916004090 DNA binding site [nucleotide binding] 485916004091 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916004092 PAS fold; Region: PAS_4; pfam08448 485916004093 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916004094 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916004095 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 485916004096 dimer interface [polypeptide binding]; other site 485916004097 phosphorylation site [posttranslational modification] 485916004098 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916004099 ATP binding site [chemical binding]; other site 485916004100 Mg2+ binding site [ion binding]; other site 485916004101 G-X-G motif; other site 485916004102 Response regulator receiver domain; Region: Response_reg; pfam00072 485916004103 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004104 active site 485916004105 phosphorylation site [posttranslational modification] 485916004106 intermolecular recognition site; other site 485916004107 dimerization interface [polypeptide binding]; other site 485916004108 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 485916004109 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004110 active site 485916004111 phosphorylation site [posttranslational modification] 485916004112 intermolecular recognition site; other site 485916004113 dimerization interface [polypeptide binding]; other site 485916004114 Response regulator receiver domain; Region: Response_reg; pfam00072 485916004115 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004116 active site 485916004117 phosphorylation site [posttranslational modification] 485916004118 intermolecular recognition site; other site 485916004119 dimerization interface [polypeptide binding]; other site 485916004120 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 485916004121 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]; Region: COG3357 485916004122 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 485916004123 diiron binding motif [ion binding]; other site 485916004124 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 485916004125 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 485916004126 non-heme iron binding site [ion binding]; other site 485916004127 dimer interface [polypeptide binding]; other site 485916004128 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 485916004129 non-heme iron binding site [ion binding]; other site 485916004130 dimer interface [polypeptide binding]; other site 485916004131 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 485916004132 Ligand Binding Site [chemical binding]; other site 485916004133 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 485916004134 diiron binding motif [ion binding]; other site 485916004135 Rubredoxin [Energy production and conversion]; Region: COG1773 485916004136 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 485916004137 iron binding site [ion binding]; other site 485916004138 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916004139 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 485916004140 dimer interface [polypeptide binding]; other site 485916004141 phosphorylation site [posttranslational modification] 485916004142 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916004143 ATP binding site [chemical binding]; other site 485916004144 Mg2+ binding site [ion binding]; other site 485916004145 G-X-G motif; other site 485916004146 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 485916004147 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 485916004148 NodB motif; other site 485916004149 active site 485916004150 catalytic site [active] 485916004151 Cd binding site [ion binding]; other site 485916004152 CAAX protease self-immunity; Region: Abi; cl00558 485916004153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916004154 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 485916004155 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 485916004156 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916004157 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916004158 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916004159 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485916004160 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 485916004161 Walker A/P-loop; other site 485916004162 ATP binding site [chemical binding]; other site 485916004163 Q-loop/lid; other site 485916004164 ABC transporter signature motif; other site 485916004165 Walker B; other site 485916004166 D-loop; other site 485916004167 H-loop/switch region; other site 485916004168 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916004169 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916004170 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 485916004171 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 485916004172 Cache domain; Region: Cache_1; pfam02743 485916004173 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 485916004174 dimerization interface [polypeptide binding]; other site 485916004175 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 485916004176 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 485916004177 putative active site [active] 485916004178 heme pocket [chemical binding]; other site 485916004179 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 485916004180 dimer interface [polypeptide binding]; other site 485916004181 phosphorylation site [posttranslational modification] 485916004182 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916004183 ATP binding site [chemical binding]; other site 485916004184 Mg2+ binding site [ion binding]; other site 485916004185 G-X-G motif; other site 485916004186 Response regulator receiver domain; Region: Response_reg; pfam00072 485916004187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004188 active site 485916004189 phosphorylation site [posttranslational modification] 485916004190 intermolecular recognition site; other site 485916004191 dimerization interface [polypeptide binding]; other site 485916004192 Response regulator receiver domain; Region: Response_reg; pfam00072 485916004193 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004194 active site 485916004195 phosphorylation site [posttranslational modification] 485916004196 intermolecular recognition site; other site 485916004197 dimerization interface [polypeptide binding]; other site 485916004198 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 485916004199 Response regulator receiver domain; Region: Response_reg; pfam00072 485916004200 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004201 active site 485916004202 phosphorylation site [posttranslational modification] 485916004203 intermolecular recognition site; other site 485916004204 dimerization interface [polypeptide binding]; other site 485916004205 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916004206 metal binding site [ion binding]; metal-binding site 485916004207 active site 485916004208 I-site; other site 485916004209 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 485916004210 non-specific DNA binding site [nucleotide binding]; other site 485916004211 salt bridge; other site 485916004212 sequence-specific DNA binding site [nucleotide binding]; other site 485916004213 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 485916004214 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 485916004215 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 485916004216 putative NAD(P) binding site [chemical binding]; other site 485916004217 catalytic Zn binding site [ion binding]; other site 485916004218 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 485916004219 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 485916004220 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 485916004221 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 485916004222 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916004223 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 485916004224 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 485916004225 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 485916004226 Walker A/P-loop; other site 485916004227 ATP binding site [chemical binding]; other site 485916004228 Q-loop/lid; other site 485916004229 ABC transporter signature motif; other site 485916004230 Walker B; other site 485916004231 D-loop; other site 485916004232 H-loop/switch region; other site 485916004233 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 485916004234 putative carbohydrate binding site [chemical binding]; other site 485916004235 ABC-2 type transporter; Region: ABC2_membrane; cl11417 485916004236 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 485916004237 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 485916004238 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 485916004239 FeS/SAM binding site; other site 485916004240 Uncharacterized conserved protein [Function unknown]; Region: COG2006 485916004241 Domain of unknown function (DUF362); Region: DUF362; pfam04015 485916004242 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 485916004243 active site 485916004244 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 485916004245 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 485916004246 ThiC family; Region: ThiC; cl08031 485916004247 ThiC family; Region: ThiC; cl08031 485916004248 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916004249 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 485916004250 active site 485916004251 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 485916004252 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 485916004253 hybrid cluster protein; Provisional; Region: PRK05290 485916004254 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 485916004255 ACS interaction site; other site 485916004256 CODH interaction site; other site 485916004257 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 485916004258 hybrid metal cluster; other site 485916004259 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 485916004260 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 485916004261 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 485916004262 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 485916004263 FAD binding pocket [chemical binding]; other site 485916004264 FAD binding motif [chemical binding]; other site 485916004265 phosphate binding motif [ion binding]; other site 485916004266 beta-alpha-beta structure motif; other site 485916004267 NAD binding pocket [chemical binding]; other site 485916004268 Iron coordination center [ion binding]; other site 485916004269 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 485916004270 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916004271 4Fe-4S binding domain; Region: Fer4; cl02805 485916004272 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916004273 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916004274 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 485916004275 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916004276 Predicted transcriptional regulator [Transcription]; Region: COG1959 485916004277 Helix-turn-helix domains; Region: HTH; cl00088 485916004278 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916004279 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 485916004280 hybrid cluster protein; Provisional; Region: PRK05290 485916004281 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 485916004282 ACS interaction site; other site 485916004283 CODH interaction site; other site 485916004284 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 485916004285 hybrid metal cluster; other site 485916004286 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 485916004287 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 485916004288 FeS/SAM binding site; other site 485916004289 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 485916004290 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 485916004291 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 485916004292 enterobactin exporter EntS; Provisional; Region: PRK10489 485916004293 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 485916004294 putative substrate translocation pore; other site 485916004295 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916004296 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG4066 485916004297 Uncharacterized protein conserved in archaea (DUF2115); Region: DUF2115; cl01681 485916004298 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 485916004299 putative substrate translocation pore; other site 485916004300 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485916004301 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 485916004302 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 485916004303 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 485916004304 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 485916004305 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485916004306 putative substrate translocation pore; other site 485916004307 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 485916004308 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 485916004309 CPxP motif; other site 485916004310 Sulphur transport; Region: Sulf_transp; cl01018 485916004311 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916004312 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916004313 potential frameshift: common BLAST hit: gi|83591052|ref|YP_431061.1| RNA-directed DNA polymerase (Reverse transcriptase) 485916004314 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 485916004315 putative active site [active] 485916004316 putative NTP binding site [chemical binding]; other site 485916004317 putative nucleic acid binding site [nucleotide binding]; other site 485916004318 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 485916004319 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916004320 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 485916004321 active site 485916004322 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 485916004323 dimer interface [polypeptide binding]; other site 485916004324 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 485916004325 Ligand Binding Site [chemical binding]; other site 485916004326 Molecular Tunnel; other site 485916004327 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 485916004328 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 485916004329 Walker A/P-loop; other site 485916004330 ATP binding site [chemical binding]; other site 485916004331 Q-loop/lid; other site 485916004332 ABC transporter signature motif; other site 485916004333 Walker B; other site 485916004334 D-loop; other site 485916004335 H-loop/switch region; other site 485916004336 Predicted transcriptional regulators [Transcription]; Region: COG1725 485916004337 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485916004338 DNA-binding site [nucleotide binding]; DNA binding site 485916004339 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485916004340 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 485916004341 ligand binding site [chemical binding]; other site 485916004342 flexible hinge region; other site 485916004343 Helix-turn-helix domains; Region: HTH; cl00088 485916004344 putative switch regulator; other site 485916004345 non-specific DNA interactions [nucleotide binding]; other site 485916004346 DNA binding site [nucleotide binding] 485916004347 sequence specific DNA binding site [nucleotide binding]; other site 485916004348 putative cAMP binding site [chemical binding]; other site 485916004349 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 485916004350 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916004351 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 485916004352 4Fe-4S binding domain; Region: Fer4; cl02805 485916004353 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 485916004354 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 485916004355 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 485916004356 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 485916004357 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 485916004358 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 485916004359 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 485916004360 substrate binding pocket [chemical binding]; other site 485916004361 aspartate-rich region 1; other site 485916004362 UbiA prenyltransferase family; Region: UbiA; cl00337 485916004363 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 485916004364 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 485916004365 FeS/SAM binding site; other site 485916004366 NMT1-like family; Region: NMT1_2; cl15260 485916004367 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 485916004368 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 485916004369 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 485916004370 FeS/SAM binding site; other site 485916004371 selenocysteine synthase; Provisional; Region: PRK04311 485916004372 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 485916004373 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 485916004374 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 485916004375 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 485916004376 G1 box; other site 485916004377 putative GEF interaction site [polypeptide binding]; other site 485916004378 GTP/Mg2+ binding site [chemical binding]; other site 485916004379 Switch I region; other site 485916004380 G2 box; other site 485916004381 G3 box; other site 485916004382 Switch II region; other site 485916004383 G4 box; other site 485916004384 G5 box; other site 485916004385 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 485916004386 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 485916004387 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 485916004388 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 485916004389 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 485916004390 Uncharacterized conserved protein [Function unknown]; Region: COG1565 485916004391 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 485916004392 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916004393 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 485916004394 FeoA domain; Region: FeoA; cl00838 485916004395 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 485916004396 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 485916004397 G1 box; other site 485916004398 GTP/Mg2+ binding site [chemical binding]; other site 485916004399 Switch I region; other site 485916004400 G2 box; other site 485916004401 G3 box; other site 485916004402 Switch II region; other site 485916004403 G4 box; other site 485916004404 G5 box; other site 485916004405 Nucleoside recognition; Region: Gate; cl00486 485916004406 Nucleoside recognition; Region: Gate; cl00486 485916004407 FeoA domain; Region: FeoA; cl00838 485916004408 FeoA domain; Region: FeoA; cl00838 485916004409 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 485916004410 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 485916004411 G1 box; other site 485916004412 GTP/Mg2+ binding site [chemical binding]; other site 485916004413 Switch I region; other site 485916004414 G2 box; other site 485916004415 G3 box; other site 485916004416 Switch II region; other site 485916004417 G4 box; other site 485916004418 G5 box; other site 485916004419 Nucleoside recognition; Region: Gate; cl00486 485916004420 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 485916004421 Nucleoside recognition; Region: Gate; cl00486 485916004422 GAF domain; Region: GAF_2; pfam13185 485916004423 GAF domain; Region: GAF; cl15785 485916004424 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916004425 Zn2+ binding site [ion binding]; other site 485916004426 Mg2+ binding site [ion binding]; other site 485916004427 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916004428 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916004429 dimer interface [polypeptide binding]; other site 485916004430 putative CheW interface [polypeptide binding]; other site 485916004431 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 485916004432 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 485916004433 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 485916004434 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916004435 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 485916004436 active site 485916004437 metal binding site [ion binding]; metal-binding site 485916004438 Membrane protein of unknown function; Region: DUF360; cl00850 485916004439 Flagellin N-methylase; Region: FliB; cl00497 485916004440 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 485916004441 Rubrerythrin [Energy production and conversion]; Region: COG1592 485916004442 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 485916004443 binuclear metal center [ion binding]; other site 485916004444 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 485916004445 iron binding site [ion binding]; other site 485916004446 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 485916004447 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 485916004448 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 485916004449 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 485916004450 dimer interface [polypeptide binding]; other site 485916004451 substrate binding site [chemical binding]; other site 485916004452 ATP binding site [chemical binding]; other site 485916004453 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 485916004454 substrate binding site [chemical binding]; other site 485916004455 multimerization interface [polypeptide binding]; other site 485916004456 ATP binding site [chemical binding]; other site 485916004457 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 485916004458 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 485916004459 Putative glucoamylase; Region: Glycoamylase; pfam10091 485916004460 Putative carbohydrate binding domain; Region: CBM_X; cl05621 485916004461 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 485916004462 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 485916004463 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 485916004464 Putative carbohydrate binding domain; Region: CBM_X; cl05621 485916004465 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 485916004466 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 485916004467 PAS fold; Region: PAS_4; pfam08448 485916004468 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 485916004469 putative active site [active] 485916004470 heme pocket [chemical binding]; other site 485916004471 PAS domain S-box; Region: sensory_box; TIGR00229 485916004472 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 485916004473 putative active site [active] 485916004474 heme pocket [chemical binding]; other site 485916004475 PAS domain S-box; Region: sensory_box; TIGR00229 485916004476 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916004477 putative active site [active] 485916004478 heme pocket [chemical binding]; other site 485916004479 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916004480 metal binding site [ion binding]; metal-binding site 485916004481 active site 485916004482 I-site; other site 485916004483 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 485916004484 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916004485 sensory histidine kinase AtoS; Provisional; Region: PRK11360 485916004486 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916004487 metal binding site [ion binding]; metal-binding site 485916004488 active site 485916004489 I-site; other site 485916004490 Membrane transport protein; Region: Mem_trans; cl09117 485916004491 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 485916004492 thiS-thiF/thiG interaction site; other site 485916004493 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 485916004494 ThiS interaction site; other site 485916004495 putative active site [active] 485916004496 tetramer interface [polypeptide binding]; other site 485916004497 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 485916004498 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 485916004499 FeS/SAM binding site; other site 485916004500 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 485916004501 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 485916004502 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 485916004503 putative ATP binding site [chemical binding]; other site 485916004504 putative substrate interface [chemical binding]; other site 485916004505 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 485916004506 thiamine phosphate binding site [chemical binding]; other site 485916004507 active site 485916004508 pyrophosphate binding site [ion binding]; other site 485916004509 ThiC family; Region: ThiC; cl08031 485916004510 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 485916004511 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 485916004512 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 485916004513 PhoU domain; Region: PhoU; pfam01895 485916004514 PhoU domain; Region: PhoU; pfam01895 485916004515 endonuclease IV; Provisional; Region: PRK01060 485916004516 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 485916004517 AP (apurinic/apyrimidinic) site pocket; other site 485916004518 DNA interaction; other site 485916004519 Metal-binding active site; metal-binding site 485916004520 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 485916004521 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 485916004522 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 485916004523 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 485916004524 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485916004525 catalytic residue [active] 485916004526 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916004527 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 485916004528 dimer interface [polypeptide binding]; other site 485916004529 ADP-ribose binding site [chemical binding]; other site 485916004530 active site 485916004531 nudix motif; other site 485916004532 metal binding site [ion binding]; metal-binding site 485916004533 septum formation inhibitor; Reviewed; Region: minC; PRK00513 485916004534 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 485916004535 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 485916004536 glycogen synthase; Provisional; Region: glgA; PRK00654 485916004537 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 485916004538 ADP-binding pocket [chemical binding]; other site 485916004539 homodimer interface [polypeptide binding]; other site 485916004540 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 485916004541 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 485916004542 FAD binding site [chemical binding]; other site 485916004543 homotetramer interface [polypeptide binding]; other site 485916004544 substrate binding pocket [chemical binding]; other site 485916004545 catalytic base [active] 485916004546 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 485916004547 Ligand binding site [chemical binding]; other site 485916004548 Electron transfer flavoprotein domain; Region: ETF; pfam01012 485916004549 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 485916004550 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 485916004551 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 485916004552 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 485916004553 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485916004554 Cysteine-rich domain; Region: CCG; pfam02754 485916004555 Cysteine-rich domain; Region: CCG; pfam02754 485916004556 putative acyltransferase; Provisional; Region: PRK05790 485916004557 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 485916004558 dimer interface [polypeptide binding]; other site 485916004559 active site 485916004560 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 485916004561 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916004562 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 485916004563 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 485916004564 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 485916004565 substrate binding site [chemical binding]; other site 485916004566 oxyanion hole (OAH) forming residues; other site 485916004567 trimer interface [polypeptide binding]; other site 485916004568 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 485916004569 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 485916004570 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 485916004571 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 485916004572 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 485916004573 putative catalytic cysteine [active] 485916004574 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 485916004575 putative active site [active] 485916004576 metal binding site [ion binding]; metal-binding site 485916004577 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 485916004578 RelB antitoxin; Region: RelB; cl01171 485916004579 Protein of unknown function (DUF3160); Region: DUF3160; pfam11369 485916004580 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 485916004581 putative active site [active] 485916004582 EcsC protein family; Region: EcsC; pfam12787 485916004583 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916004584 Zn2+ binding site [ion binding]; other site 485916004585 Mg2+ binding site [ion binding]; other site 485916004586 CO dehydrogenase/acetyl-CoA synthase gamma subunit (corrinoid Fe-S protein) [Energy production and conversion]; Region: CdhE; COG1456 485916004587 Putative Fe-S cluster; Region: FeS; pfam04060 485916004588 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916004589 Response regulator receiver domain; Region: Response_reg; pfam00072 485916004590 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004591 active site 485916004592 phosphorylation site [posttranslational modification] 485916004593 intermolecular recognition site; other site 485916004594 dimerization interface [polypeptide binding]; other site 485916004595 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 485916004596 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 485916004597 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916004598 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 485916004599 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 485916004600 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 485916004601 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 485916004602 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916004603 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 485916004604 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 485916004605 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 485916004606 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 485916004607 Rubredoxin; Region: Rubredoxin; pfam00301 485916004608 iron binding site [ion binding]; other site 485916004609 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916004610 G1 box; other site 485916004611 GTP/Mg2+ binding site [chemical binding]; other site 485916004612 G2 box; other site 485916004613 Switch I region; other site 485916004614 G3 box; other site 485916004615 Switch II region; other site 485916004616 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916004617 Dynamin family; Region: Dynamin_N; pfam00350 485916004618 G1 box; other site 485916004619 GTP/Mg2+ binding site [chemical binding]; other site 485916004620 G2 box; other site 485916004621 Switch I region; other site 485916004622 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916004623 G3 box; other site 485916004624 Switch II region; other site 485916004625 GTP/Mg2+ binding site [chemical binding]; other site 485916004626 G4 box; other site 485916004627 G5 box; other site 485916004628 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 485916004629 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485916004630 Cysteine-rich domain; Region: CCG; pfam02754 485916004631 Cysteine-rich domain; Region: CCG; pfam02754 485916004632 Predicted amidohydrolase [General function prediction only]; Region: COG0388 485916004633 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 485916004634 active site 485916004635 catalytic triad [active] 485916004636 dimer interface [polypeptide binding]; other site 485916004637 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 485916004638 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 485916004639 active site clefts [active] 485916004640 zinc binding site [ion binding]; other site 485916004641 dimer interface [polypeptide binding]; other site 485916004642 MgtE intracellular N domain; Region: MgtE_N; cl15244 485916004643 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 485916004644 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 485916004645 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 485916004646 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 485916004647 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 485916004648 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 485916004649 dimerization interface [polypeptide binding]; other site 485916004650 putative DNA binding site [nucleotide binding]; other site 485916004651 putative Zn2+ binding site [ion binding]; other site 485916004652 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 485916004653 metal-binding site [ion binding] 485916004654 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 485916004655 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 485916004656 metal-binding site [ion binding] 485916004657 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916004658 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 485916004659 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 485916004660 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 485916004661 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 485916004662 putative substrate translocation pore; other site 485916004663 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 485916004664 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 485916004665 active site 485916004666 metal binding site [ion binding]; metal-binding site 485916004667 DNA binding site [nucleotide binding] 485916004668 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916004669 AAA domain; Region: AAA_27; pfam13514 485916004670 Walker A/P-loop; other site 485916004671 ATP binding site [chemical binding]; other site 485916004672 ABC transporter signature motif; other site 485916004673 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485916004674 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 485916004675 putative phosphate binding site [ion binding]; other site 485916004676 putative catalytic site [active] 485916004677 active site 485916004678 metal binding site A [ion binding]; metal-binding site 485916004679 DNA binding site [nucleotide binding] 485916004680 putative AP binding site [nucleotide binding]; other site 485916004681 putative metal binding site B [ion binding]; other site 485916004682 Uncharacterized conserved protein [Function unknown]; Region: COG3391 485916004683 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 485916004684 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 485916004685 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 485916004686 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 485916004687 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 485916004688 Integral membrane protein DUF95; Region: DUF95; cl00572 485916004689 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 485916004690 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 485916004691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916004692 catalytic residue [active] 485916004693 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 485916004694 Protein of unknown function (DUF541); Region: SIMPL; cl01077 485916004695 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 485916004696 active site 485916004697 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 485916004698 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 485916004699 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 includes...; Region: RuvC_resolvase; cl00243 485916004700 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 485916004701 RNA binding site [nucleotide binding]; other site 485916004702 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 485916004703 putative homodimer interface [polypeptide binding]; other site 485916004704 putative active site pocket [active] 485916004705 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 485916004706 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916004707 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916004708 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485916004709 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916004710 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 485916004711 DNA binding residues [nucleotide binding] 485916004712 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 485916004713 translocation protein TolB; Provisional; Region: tolB; PRK02889 485916004714 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 485916004715 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 485916004716 Walker A/P-loop; other site 485916004717 ATP binding site [chemical binding]; other site 485916004718 Q-loop/lid; other site 485916004719 ABC transporter signature motif; other site 485916004720 Walker B; other site 485916004721 D-loop; other site 485916004722 H-loop/switch region; other site 485916004723 ABC-2 type transporter; Region: ABC2_membrane; cl11417 485916004724 RloB-like protein; Region: RloB; pfam13707 485916004725 Predicted ATPases [General function prediction only]; Region: COG1106 485916004726 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916004727 ABC transporter signature motif; other site 485916004728 Walker B; other site 485916004729 D-loop; other site 485916004730 H-loop/switch region; other site 485916004731 KilA-N domain; Region: KilA-N; pfam04383 485916004732 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 485916004733 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 485916004734 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 485916004735 G1 box; other site 485916004736 putative GEF interaction site [polypeptide binding]; other site 485916004737 GTP/Mg2+ binding site [chemical binding]; other site 485916004738 Switch I region; other site 485916004739 G2 box; other site 485916004740 G3 box; other site 485916004741 Switch II region; other site 485916004742 G4 box; other site 485916004743 G5 box; other site 485916004744 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 485916004745 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 485916004746 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 485916004747 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 485916004748 putative active site [active] 485916004749 stage V sporulation protein B; Region: spore_V_B; TIGR02900 485916004750 MatE; Region: MatE; cl10513 485916004751 MatE; Region: MatE; cl10513 485916004752 Thiamine pyrophosphokinase; Region: TPK; cd07995 485916004753 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 485916004754 active site 485916004755 dimerization interface [polypeptide binding]; other site 485916004756 thiamine binding site [chemical binding]; other site 485916004757 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 485916004758 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 inactive in...; Region: YhaM_OBF_like; cd04492 485916004759 generic binding surface II; other site 485916004760 generic binding surface I; other site 485916004761 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916004762 Zn2+ binding site [ion binding]; other site 485916004763 Mg2+ binding site [ion binding]; other site 485916004764 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 485916004765 dimerization interface [polypeptide binding]; other site 485916004766 putative DNA binding site [nucleotide binding]; other site 485916004767 putative Zn2+ binding site [ion binding]; other site 485916004768 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 485916004769 Protein of unknown function (DUF421); Region: DUF421; cl00990 485916004770 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 485916004771 NodB motif; other site 485916004772 active site 485916004773 catalytic site [active] 485916004774 metal binding site [ion binding]; metal-binding site 485916004775 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916004776 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916004777 Predicted amidohydrolase [General function prediction only]; Region: COG0388 485916004778 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 485916004779 active site 485916004780 catalytic triad [active] 485916004781 dimer interface [polypeptide binding]; other site 485916004782 DsrE/DsrF-like family; Region: DrsE; cl00672 485916004783 Predicted acetyltransferase [General function prediction only]; Region: COG3153 485916004784 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916004785 Coenzyme A binding pocket [chemical binding]; other site 485916004786 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 485916004787 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916004788 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 485916004789 DNA binding residues [nucleotide binding] 485916004790 Putative zinc-finger; Region: zf-HC2; cl15806 485916004791 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 485916004792 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916004793 Walker A/P-loop; other site 485916004794 ATP binding site [chemical binding]; other site 485916004795 Q-loop/lid; other site 485916004796 ABC transporter signature motif; other site 485916004797 Walker B; other site 485916004798 D-loop; other site 485916004799 H-loop/switch region; other site 485916004800 ABC-2 type transporter; Region: ABC2_membrane; cl11417 485916004801 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 485916004802 metal-binding site [ion binding] 485916004803 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 485916004804 Cell division protein FtsA; Region: FtsA; cl11496 485916004805 Cell division protein FtsA; Region: FtsA; cl11496 485916004806 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 485916004807 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916004808 active site 485916004809 metal binding site [ion binding]; metal-binding site 485916004810 DNA binding site [nucleotide binding] 485916004811 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916004812 DNA topoisomerase III; Provisional; Region: PRK07726 485916004813 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 485916004814 active site 485916004815 putative interdomain interaction site [polypeptide binding]; other site 485916004816 putative metal-binding site [ion binding]; other site 485916004817 putative nucleotide binding site [chemical binding]; other site 485916004818 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; cl11986 485916004819 domain I; other site 485916004820 phosphate binding site [ion binding]; other site 485916004821 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 485916004822 domain II; other site 485916004823 domain III; other site 485916004824 nucleotide binding site [chemical binding]; other site 485916004825 DNA binding groove [nucleotide binding] 485916004826 catalytic site [active] 485916004827 domain IV; other site 485916004828 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 485916004829 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 485916004830 putative substrate translocation pore; other site 485916004831 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 485916004832 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 485916004833 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 485916004834 Walker A motif; other site 485916004835 ATP binding site [chemical binding]; other site 485916004836 Walker B motif; other site 485916004837 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 485916004838 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 485916004839 putative active site [active] 485916004840 putative NTP binding site [chemical binding]; other site 485916004841 putative nucleic acid binding site [nucleotide binding]; other site 485916004842 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 485916004843 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916004844 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916004845 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 485916004846 active site 485916004847 catalytic triad [active] 485916004848 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 485916004849 S-layer homology domain; Region: SLH; pfam00395 485916004850 S-layer homology domain; Region: SLH; pfam00395 485916004851 S-layer homology domain; Region: SLH; pfam00395 485916004852 Integrase core domain; Region: rve; cl01316 485916004853 Integrase core domain; Region: rve_3; cl15866 485916004854 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 485916004855 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 485916004856 Walker A motif; other site 485916004857 ATP binding site [chemical binding]; other site 485916004858 Walker B motif; other site 485916004859 arginine finger; other site 485916004860 Helix-turn-helix domains; Region: HTH; cl00088 485916004861 Winged helix-turn helix; Region: HTH_29; pfam13551 485916004862 Winged helix-turn helix; Region: HTH_33; pfam13592 485916004863 Integrase core domain; Region: rve; cl01316 485916004864 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916004865 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916004866 Probable transposase; Region: OrfB_IS605; pfam01385 485916004867 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916004868 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916004869 Helix-turn-helix domains; Region: HTH; cl00088 485916004870 Winged helix-turn helix; Region: HTH_29; pfam13551 485916004871 Winged helix-turn helix; Region: HTH_33; pfam13592 485916004872 Integrase core domain; Region: rve; cl01316 485916004873 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 485916004874 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916004875 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 485916004876 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916004877 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916004878 Helix-turn-helix of insertion element transposase; Region: HTH_Tnp_1_2; pfam13022 485916004879 Helix-turn-helix domains; Region: HTH; cl00088 485916004880 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 485916004881 Int/Topo IB signature motif; other site 485916004882 active site 485916004883 DNA binding site [nucleotide binding] 485916004884 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 485916004885 Helix-turn-helix domains; Region: HTH; cl00088 485916004886 Winged helix-turn helix; Region: HTH_29; pfam13551 485916004887 Integrase core domain; Region: rve; cl01316 485916004888 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 485916004889 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 485916004890 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 485916004891 amidase catalytic site [active] 485916004892 Zn binding residues [ion binding]; other site 485916004893 substrate binding site [chemical binding]; other site 485916004894 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916004895 putative peptidoglycan binding site; other site 485916004896 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 485916004897 Helix-turn-helix domains; Region: HTH; cl00088 485916004898 Winged helix-turn helix; Region: HTH_29; pfam13551 485916004899 Integrase core domain; Region: rve; cl01316 485916004900 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 485916004901 Helix-turn-helix domains; Region: HTH; cl00088 485916004902 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916004903 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916004904 hypothetical protein; Validated; Region: PRK08116 485916004905 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916004906 AAA domain; Region: AAA_25; pfam13481 485916004907 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916004908 Walker A motif; other site 485916004909 ATP binding site [chemical binding]; other site 485916004910 Walker B motif; other site 485916004911 BRO family, N-terminal domain; Region: Bro-N; cl10591 485916004912 DNA primase (bacterial type) [DNA replication, recombination, and repair]; Region: DnaG; COG0358 485916004913 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 485916004914 active site 485916004915 metal binding site [ion binding]; metal-binding site 485916004916 interdomain interaction site; other site 485916004917 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485916004918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916004919 active site 485916004920 phosphorylation site [posttranslational modification] 485916004921 intermolecular recognition site; other site 485916004922 dimerization interface [polypeptide binding]; other site 485916004923 LytTr DNA-binding domain; Region: LytTR; cl04498 485916004924 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 485916004925 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916004926 ATP binding site [chemical binding]; other site 485916004927 Mg2+ binding site [ion binding]; other site 485916004928 G-X-G motif; other site 485916004929 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485916004930 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916004931 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 485916004932 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 485916004933 active site 485916004934 catalytic site [active] 485916004935 substrate binding site [chemical binding]; other site 485916004936 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 485916004937 active site 485916004938 DNA binding site [nucleotide binding] 485916004939 catalytic site [active] 485916004940 BRO family, N-terminal domain; Region: Bro-N; cl10591 485916004941 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 485916004942 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 485916004943 putative active site [active] 485916004944 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 485916004945 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 485916004946 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 485916004947 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 485916004948 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 485916004949 trimer interface [polypeptide binding]; other site 485916004950 active site 485916004951 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916004952 putative peptidoglycan binding site; other site 485916004953 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 485916004954 Thymidylate synthase complementing protein; Region: Thy1; cl03630 485916004955 Protein of unknown function (DUF3908); Region: DUF3908; pfam13048 485916004956 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 485916004957 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 485916004958 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 485916004959 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916004960 Helix-turn-helix domains; Region: HTH; cl00088 485916004961 Winged helix-turn helix; Region: HTH_29; pfam13551 485916004962 Winged helix-turn helix; Region: HTH_33; pfam13592 485916004963 Integrase core domain; Region: rve; cl01316 485916004964 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 485916004965 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916004966 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 485916004967 Helix-turn-helix domains; Region: HTH; cl00088 485916004968 Winged helix-turn helix; Region: HTH_29; pfam13551 485916004969 Integrase core domain; Region: rve; cl01316 485916004970 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 485916004971 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 485916004972 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 485916004973 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 485916004974 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 485916004975 active site 485916004976 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 485916004977 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 485916004978 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 485916004979 homodimer interface [polypeptide binding]; other site 485916004980 Walker A motif; other site 485916004981 ATP binding site [chemical binding]; other site 485916004982 hydroxycobalamin binding site [chemical binding]; other site 485916004983 Walker B motif; other site 485916004984 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 485916004985 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 485916004986 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 485916004987 B12 binding site [chemical binding]; other site 485916004988 cobalt ligand [ion binding]; other site 485916004989 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 485916004990 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 485916004991 Walker A; other site 485916004992 FOG: CBS domain [General function prediction only]; Region: COG0517 485916004993 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 485916004994 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 485916004995 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916004996 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916004997 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 485916004998 Walker A motif; other site 485916004999 ATP binding site [chemical binding]; other site 485916005000 Walker B motif; other site 485916005001 arginine finger; other site 485916005002 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 485916005003 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 485916005004 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 485916005005 GAF domain; Region: GAF_2; pfam13185 485916005006 GAF domain; Region: GAF; cl15785 485916005007 sensory histidine kinase AtoS; Provisional; Region: PRK11360 485916005008 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 485916005009 dimer interface [polypeptide binding]; other site 485916005010 phosphorylation site [posttranslational modification] 485916005011 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916005012 ATP binding site [chemical binding]; other site 485916005013 Mg2+ binding site [ion binding]; other site 485916005014 G-X-G motif; other site 485916005015 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 485916005016 active site 485916005017 FMN binding site [chemical binding]; other site 485916005018 substrate binding site [chemical binding]; other site 485916005019 putative catalytic residue [active] 485916005020 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916005021 Helix-turn-helix domains; Region: HTH; cl00088 485916005022 Helix-turn-helix domains; Region: HTH; cl00088 485916005023 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 485916005024 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485916005025 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 485916005026 Helix-turn-helix domains; Region: HTH; cl00088 485916005027 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 485916005028 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916005029 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916005030 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485916005031 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916005032 Walker A/P-loop; other site 485916005033 ATP binding site [chemical binding]; other site 485916005034 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 485916005035 LysE type translocator; Region: LysE; cl00565 485916005036 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916005037 TfoX N-terminal domain; Region: TfoX_N; cl01167 485916005038 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 485916005039 active site 485916005040 FMN binding site [chemical binding]; other site 485916005041 substrate binding site [chemical binding]; other site 485916005042 putative catalytic residue [active] 485916005043 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 485916005044 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 485916005045 Ligand binding site [chemical binding]; other site 485916005046 Electron transfer flavoprotein domain; Region: ETF; pfam01012 485916005047 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 485916005048 4Fe-4S binding domain; Region: Fer4; cl02805 485916005049 4Fe-4S binding domain; Region: Fer4; cl02805 485916005050 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 485916005051 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 485916005052 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 485916005053 oxidoreductase; Provisional; Region: PRK10015 485916005054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916005055 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 485916005056 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 485916005057 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485916005058 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916005059 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916005060 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916005061 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916005062 Helix-turn-helix domains; Region: HTH; cl00088 485916005063 QacR-like protein, C-terminal region; Region: TetR_C_5; pfam08360 485916005064 MTH865-like family; Region: MTH865; cl01962 485916005065 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 485916005066 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485916005067 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 485916005068 ligand binding site [chemical binding]; other site 485916005069 flexible hinge region; other site 485916005070 Helix-turn-helix domains; Region: HTH; cl00088 485916005071 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916005072 ATP binding site [chemical binding]; other site 485916005073 Mg2+ binding site [ion binding]; other site 485916005074 G-X-G motif; other site 485916005075 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 485916005076 GIY-YIG motif/motif A; other site 485916005077 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 485916005078 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 485916005079 FOG: CBS domain [General function prediction only]; Region: COG0517 485916005080 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 485916005081 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916005082 metal binding site [ion binding]; metal-binding site 485916005083 active site 485916005084 I-site; other site 485916005085 putative hydrolase; Validated; Region: PRK09248 485916005086 RNase P subunit p30; Region: RNase_P_p30; cl03389 485916005087 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 485916005088 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 485916005089 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 485916005090 dimer interface [polypeptide binding]; other site 485916005091 conserved gate region; other site 485916005092 putative PBP binding loops; other site 485916005093 ABC-ATPase subunit interface; other site 485916005094 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 485916005095 dimer interface [polypeptide binding]; other site 485916005096 conserved gate region; other site 485916005097 putative PBP binding loops; other site 485916005098 ABC-ATPase subunit interface; other site 485916005099 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 485916005100 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916005101 dimer interface [polypeptide binding]; other site 485916005102 putative CheW interface [polypeptide binding]; other site 485916005103 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 485916005104 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916005105 active site 485916005106 phosphorylation site [posttranslational modification] 485916005107 intermolecular recognition site; other site 485916005108 dimerization interface [polypeptide binding]; other site 485916005109 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 485916005110 DNA binding site [nucleotide binding] 485916005111 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 485916005112 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 485916005113 homodimer interface [polypeptide binding]; other site 485916005114 Walker A motif; other site 485916005115 ATP binding site [chemical binding]; other site 485916005116 hydroxycobalamin binding site [chemical binding]; other site 485916005117 Walker B motif; other site 485916005118 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 485916005119 active site 485916005120 Trp docking motif [polypeptide binding]; other site 485916005121 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 485916005122 dockerin binding interface; other site 485916005123 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005124 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005125 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 485916005126 dockerin binding interface; other site 485916005127 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005128 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 485916005129 dockerin binding interface; other site 485916005130 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005131 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005132 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 485916005133 dockerin binding interface; other site 485916005134 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005135 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005136 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005137 S-layer homology domain; Region: SLH; pfam00395 485916005138 S-layer homology domain; Region: SLH; pfam00395 485916005139 S-layer homology domain; Region: SLH; pfam00395 485916005140 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 485916005141 Trp docking motif [polypeptide binding]; other site 485916005142 active site 485916005143 PQQ-like domain; Region: PQQ_2; pfam13360 485916005144 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005145 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 485916005146 Trp docking motif [polypeptide binding]; other site 485916005147 FOG: WD40-like repeat [Function unknown]; Region: COG1520 485916005148 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005149 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005150 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005151 S-layer homology domain; Region: SLH; pfam00395 485916005152 S-layer homology domain; Region: SLH; pfam00395 485916005153 S-layer homology domain; Region: SLH; pfam00395 485916005154 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 485916005155 Trp docking motif [polypeptide binding]; other site 485916005156 FOG: WD40-like repeat [Function unknown]; Region: COG1520 485916005157 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 485916005158 Trp docking motif [polypeptide binding]; other site 485916005159 FOG: WD40-like repeat [Function unknown]; Region: COG1520 485916005160 active site 485916005161 Cobalt transport protein; Region: CbiQ; cl00463 485916005162 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 485916005163 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 485916005164 Walker A/P-loop; other site 485916005165 ATP binding site [chemical binding]; other site 485916005166 Q-loop/lid; other site 485916005167 ABC transporter signature motif; other site 485916005168 Walker B; other site 485916005169 D-loop; other site 485916005170 H-loop/switch region; other site 485916005171 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 485916005172 Walker A/P-loop; other site 485916005173 ATP binding site [chemical binding]; other site 485916005174 Q-loop/lid; other site 485916005175 ABC transporter signature motif; other site 485916005176 Walker B; other site 485916005177 D-loop; other site 485916005178 H-loop/switch region; other site 485916005179 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 485916005180 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005181 LytTr DNA-binding domain; Region: LytTR; cl04498 485916005182 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005183 Response regulator receiver domain; Region: Response_reg; pfam00072 485916005184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916005185 active site 485916005186 phosphorylation site [posttranslational modification] 485916005187 intermolecular recognition site; other site 485916005188 dimerization interface [polypeptide binding]; other site 485916005189 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 485916005190 Bacterial Ig-like domain; Region: Big_5; cl01012 485916005191 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005192 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 485916005193 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005194 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005195 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005196 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005197 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005198 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005199 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005200 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005201 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 485916005202 dockerin binding interface; other site 485916005203 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 485916005204 S-layer homology domain; Region: SLH; pfam00395 485916005205 S-layer homology domain; Region: SLH; pfam00395 485916005206 S-layer homology domain; Region: SLH; pfam00395 485916005207 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 485916005208 N-carbamolyputrescine amidase; Region: PLN02747 485916005209 active site 485916005210 catalytic triad [active] 485916005211 dimer interface [polypeptide binding]; other site 485916005212 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 485916005213 Predicted amidohydrolase [General function prediction only]; Region: COG0388 485916005214 active site 485916005215 catalytic triad [active] 485916005216 dimer interface [polypeptide binding]; other site 485916005217 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 485916005218 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005219 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005220 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 485916005221 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005222 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005223 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005224 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916005225 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916005226 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005227 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 485916005228 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 485916005229 dimer interface [polypeptide binding]; other site 485916005230 active site 485916005231 citrylCoA binding site [chemical binding]; other site 485916005232 Citrate synthase; Region: Citrate_synt; pfam00285 485916005233 oxalacetate/citrate binding site [chemical binding]; other site 485916005234 coenzyme A binding site [chemical binding]; other site 485916005235 catalytic triad [active] 485916005236 Protein of unknown function (DUF763); Region: DUF763; cl00620 485916005237 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 485916005238 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916005239 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 485916005240 Cation efflux family; Region: Cation_efflux; cl00316 485916005241 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]; Region: COG3357 485916005242 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 485916005243 Protein of unknown function (DUF541); Region: SIMPL; cl01077 485916005244 Protein of unknown function (DUF445); Region: DUF445; pfam04286 485916005245 Protein of unknown function (DUF445); Region: DUF445; pfam04286 485916005246 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 485916005247 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 485916005248 S-adenosylmethionine binding site [chemical binding]; other site 485916005249 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 485916005250 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 485916005251 DNA binding residues [nucleotide binding] 485916005252 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 485916005253 catalytic residues [active] 485916005254 catalytic nucleophile [active] 485916005255 DNA topoisomerase III; Provisional; Region: PRK07726 485916005256 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 485916005257 active site 485916005258 putative interdomain interaction site [polypeptide binding]; other site 485916005259 putative metal-binding site [ion binding]; other site 485916005260 putative nucleotide binding site [chemical binding]; other site 485916005261 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 485916005262 domain I; other site 485916005263 DNA binding groove [nucleotide binding] 485916005264 phosphate binding site [ion binding]; other site 485916005265 domain II; other site 485916005266 domain III; other site 485916005267 nucleotide binding site [chemical binding]; other site 485916005268 catalytic site [active] 485916005269 domain IV; other site 485916005270 oligoendopeptidase F; Region: pepF; TIGR00181 485916005271 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 485916005272 active site 485916005273 Zn binding site [ion binding]; other site 485916005274 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 485916005275 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 485916005276 dimer interface [polypeptide binding]; other site 485916005277 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 485916005278 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 485916005279 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 485916005280 HSP70 interaction site [polypeptide binding]; other site 485916005281 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 485916005282 substrate binding site [polypeptide binding]; other site 485916005283 dimer interface [polypeptide binding]; other site 485916005284 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 485916005285 Clp amino terminal domain; Region: Clp_N; pfam02861 485916005286 Clp amino terminal domain; Region: Clp_N; pfam02861 485916005287 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 485916005288 Walker A motif; other site 485916005289 ATP binding site [chemical binding]; other site 485916005290 Walker B motif; other site 485916005291 arginine finger; other site 485916005292 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 485916005293 Walker A motif; other site 485916005294 ATP binding site [chemical binding]; other site 485916005295 Walker B motif; other site 485916005296 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 485916005297 YdjC-like protein; Region: YdjC; cl01344 485916005298 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 485916005299 ArsC family; Region: ArsC; pfam03960 485916005300 putative ArsC-like catalytic residues; other site 485916005301 putative TRX-like catalytic residues [active] 485916005302 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 485916005303 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 485916005304 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 485916005305 active site 485916005306 catalytic residues [active] 485916005307 metal binding site [ion binding]; metal-binding site 485916005308 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 485916005309 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 485916005310 S-adenosylmethionine binding site [chemical binding]; other site 485916005311 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 485916005312 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 485916005313 putative catalytic cysteine [active] 485916005314 S-layer homology domain; Region: SLH; pfam00395 485916005315 S-layer homology domain; Region: SLH; pfam00395 485916005316 Bacterial Ig-like domain; Region: Big_5; cl01012 485916005317 Bacterial Ig-like domain; Region: Big_5; cl01012 485916005318 S-layer homology domain; Region: SLH; pfam00395 485916005319 S-layer homology domain; Region: SLH; pfam00395 485916005320 S-layer homology domain; Region: SLH; pfam00395 485916005321 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 485916005322 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 485916005323 dimerization interface [polypeptide binding]; other site 485916005324 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916005325 dimer interface [polypeptide binding]; other site 485916005326 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 485916005327 putative CheW interface [polypeptide binding]; other site 485916005328 Transposase domain (DUF772); Region: DUF772; cl15789 485916005329 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 485916005330 Transposase domain (DUF772); Region: DUF772; cl15789 485916005331 Helix-turn-helix domains; Region: HTH; cl00088 485916005332 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916005333 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916005334 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916005335 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485916005336 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916005337 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916005338 active site 485916005339 phosphorylation site [posttranslational modification] 485916005340 intermolecular recognition site; other site 485916005341 dimerization interface [polypeptide binding]; other site 485916005342 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 485916005343 DNA binding site [nucleotide binding] 485916005344 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 485916005345 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 485916005346 dimer interface [polypeptide binding]; other site 485916005347 phosphorylation site [posttranslational modification] 485916005348 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916005349 ATP binding site [chemical binding]; other site 485916005350 Mg2+ binding site [ion binding]; other site 485916005351 G-X-G motif; other site 485916005352 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 485916005353 Protein export membrane protein; Region: SecD_SecF; cl14618 485916005354 Helix-turn-helix domains; Region: HTH; cl00088 485916005355 putative transposase OrfB; Reviewed; Region: PHA02517 485916005356 HTH-like domain; Region: HTH_21; pfam13276 485916005357 Integrase core domain; Region: rve; cl01316 485916005358 Integrase core domain; Region: rve_3; cl15866 485916005359 Helix-turn-helix domains; Region: HTH; cl00088 485916005360 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916005361 Helix-turn-helix domains; Region: HTH; cl00088 485916005362 Winged helix-turn helix; Region: HTH_29; pfam13551 485916005363 Winged helix-turn helix; Region: HTH_33; pfam13592 485916005364 Integrase core domain; Region: rve; cl01316 485916005365 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 485916005366 Helix-turn-helix domains; Region: HTH; cl00088 485916005367 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 485916005368 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 485916005369 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916005370 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 485916005371 Recombinase; Region: Recombinase; pfam07508 485916005372 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 485916005373 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916005374 active site 485916005375 phosphorylation site [posttranslational modification] 485916005376 intermolecular recognition site; other site 485916005377 dimerization interface [polypeptide binding]; other site 485916005378 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 485916005379 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 485916005380 Thiamine pyrophosphokinase; Region: TPK; cl08415 485916005381 Thiamine pyrophosphokinase C terminal; Region: TPPK_C; pfam12555 485916005382 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 485916005383 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 485916005384 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 485916005385 active site 485916005386 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 485916005387 peptidase T-like protein; Region: PepT-like; TIGR01883 485916005388 metal binding site [ion binding]; metal-binding site 485916005389 putative dimer interface [polypeptide binding]; other site 485916005390 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 485916005391 Integral membrane protein DUF95; Region: DUF95; cl00572 485916005392 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 485916005393 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 485916005394 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 485916005395 Int/Topo IB signature motif; other site 485916005396 active site 485916005397 Sulfatase; Region: Sulfatase; cl10460 485916005398 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 485916005399 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 485916005400 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 485916005401 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 485916005402 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 485916005403 Sulfatase; Region: Sulfatase; cl10460 485916005404 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 485916005405 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916005406 Walker A/P-loop; other site 485916005407 ATP binding site [chemical binding]; other site 485916005408 Q-loop/lid; other site 485916005409 ABC transporter signature motif; other site 485916005410 Walker B; other site 485916005411 D-loop; other site 485916005412 H-loop/switch region; other site 485916005413 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 485916005414 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 485916005415 tetramer interface [polypeptide binding]; other site 485916005416 TPP-binding site [chemical binding]; other site 485916005417 heterodimer interface [polypeptide binding]; other site 485916005418 phosphorylation loop region [posttranslational modification] 485916005419 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 485916005420 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 485916005421 alpha subunit interface [polypeptide binding]; other site 485916005422 TPP binding site [chemical binding]; other site 485916005423 heterodimer interface [polypeptide binding]; other site 485916005424 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 485916005425 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 485916005426 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 485916005427 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 485916005428 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 485916005429 anti sigma factor interaction site; other site 485916005430 regulatory phosphorylation site [posttranslational modification]; other site 485916005431 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916005432 ATP binding site [chemical binding]; other site 485916005433 Mg2+ binding site [ion binding]; other site 485916005434 G-X-G motif; other site 485916005435 sporulation sigma factor SigF; Validated; Region: PRK05572 485916005436 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916005437 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 485916005438 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 485916005439 DNA binding residues [nucleotide binding] 485916005440 Dodecin; Region: Dodecin; cl01328 485916005441 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 485916005442 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 485916005443 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 485916005444 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 485916005445 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485916005446 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 485916005447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 485916005448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 485916005449 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 485916005450 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 485916005451 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 485916005452 putative homotetramer interface [polypeptide binding]; other site 485916005453 putative homodimer interface [polypeptide binding]; other site 485916005454 putative allosteric switch controlling residues; other site 485916005455 putative metal binding site [ion binding]; other site 485916005456 putative homodimer-homodimer interface [polypeptide binding]; other site 485916005457 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 485916005458 metal-binding site [ion binding] 485916005459 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 485916005460 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 485916005461 metal-binding site [ion binding] 485916005462 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916005463 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 485916005464 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 485916005465 ATP binding site [chemical binding]; other site 485916005466 putative Mg++ binding site [ion binding]; other site 485916005467 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 485916005468 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 485916005469 nucleotide binding region [chemical binding]; other site 485916005470 ATP-binding site [chemical binding]; other site 485916005471 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 485916005472 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 485916005473 GIY-YIG motif/motif A; other site 485916005474 putative active site [active] 485916005475 putative metal binding site [ion binding]; other site 485916005476 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 485916005477 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 485916005478 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916005479 catalytic residue [active] 485916005480 diaminopimelate decarboxylase; Region: lysA; TIGR01048 485916005481 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 485916005482 active site 485916005483 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 485916005484 substrate binding site [chemical binding]; other site 485916005485 catalytic residues [active] 485916005486 dimer interface [polypeptide binding]; other site 485916005487 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 485916005488 DHH family; Region: DHH; pfam01368 485916005489 FOG: CBS domain [General function prediction only]; Region: COG0517 485916005490 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 485916005491 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 485916005492 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 485916005493 active site 485916005494 NTP binding site [chemical binding]; other site 485916005495 metal binding triad [ion binding]; metal-binding site 485916005496 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 485916005497 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 485916005498 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 485916005499 active site 485916005500 putative substrate binding region [chemical binding]; other site 485916005501 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 485916005502 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 485916005503 active site 485916005504 HIGH motif; other site 485916005505 dimer interface [polypeptide binding]; other site 485916005506 KMSKS motif; other site 485916005507 TolB amino-terminal domain; Region: TolB_N; cl00639 485916005508 Immunoglobulin-like domain of bacterial spore germination; Region: Gmad2; pfam10648 485916005509 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 485916005510 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 485916005511 Nucleoside recognition; Region: Gate; cl00486 485916005512 Nucleoside recognition; Region: Gate; cl00486 485916005513 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 485916005514 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 485916005515 RNA binding surface [nucleotide binding]; other site 485916005516 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 485916005517 active site 485916005518 HutP; Region: HutP; cl07944 485916005519 NeuB family; Region: NeuB; cl00496 485916005520 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 485916005521 cytidylate kinase; Provisional; Region: cmk; PRK00023 485916005522 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 485916005523 CMP-binding site; other site 485916005524 The sites determining sugar specificity; other site 485916005525 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 485916005526 putative acyl-acceptor binding pocket; other site 485916005527 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 485916005528 LytB protein; Region: LYTB; cl00507 485916005529 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 485916005530 RNA binding site [nucleotide binding]; other site 485916005531 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 485916005532 RNA binding site [nucleotide binding]; other site 485916005533 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 485916005534 RNA binding site [nucleotide binding]; other site 485916005535 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 485916005536 RNA binding site [nucleotide binding]; other site 485916005537 domain interface; other site 485916005538 Protein of unknown function (DUF1614); Region: DUF1614; cl15407 485916005539 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 485916005540 stage II sporulation protein P; Region: spore_II_P; TIGR02867 485916005541 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 485916005542 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 485916005543 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 485916005544 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 485916005545 Protein of unknown function (DUF512); Region: DUF512; pfam04459 485916005546 GTP-binding protein Der; Reviewed; Region: PRK00093 485916005547 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 485916005548 G1 box; other site 485916005549 GTP/Mg2+ binding site [chemical binding]; other site 485916005550 Switch I region; other site 485916005551 G2 box; other site 485916005552 Switch II region; other site 485916005553 G3 box; other site 485916005554 G4 box; other site 485916005555 G5 box; other site 485916005556 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 485916005557 G1 box; other site 485916005558 GTP/Mg2+ binding site [chemical binding]; other site 485916005559 Switch I region; other site 485916005560 G2 box; other site 485916005561 G3 box; other site 485916005562 Switch II region; other site 485916005563 G4 box; other site 485916005564 G5 box; other site 485916005565 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 485916005566 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 485916005567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916005568 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 485916005569 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; cl09772 485916005570 hypothetical protein; Provisional; Region: PRK04435 485916005571 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 485916005572 homoserine dehydrogenase; Provisional; Region: PRK06349 485916005573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916005574 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 485916005575 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 485916005576 homoserine kinase; Provisional; Region: PRK01212 485916005577 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 485916005578 aspartate kinase; Reviewed; Region: PRK06635 485916005579 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 485916005580 putative nucleotide binding site [chemical binding]; other site 485916005581 putative catalytic residues [active] 485916005582 putative Mg ion binding site [ion binding]; other site 485916005583 putative aspartate binding site [chemical binding]; other site 485916005584 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 485916005585 putative allosteric regulatory site; other site 485916005586 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 485916005587 putative allosteric regulatory residue; other site 485916005588 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 485916005589 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 485916005590 Ligand Binding Site [chemical binding]; other site 485916005591 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 485916005592 AIR carboxylase; Region: AIRC; cl00310 485916005593 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 485916005594 Probable transposase; Region: OrfB_IS605; pfam01385 485916005595 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916005596 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916005597 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 485916005598 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 485916005599 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 485916005600 FeS/SAM binding site; other site 485916005601 Protein of unknown function (DUF964); Region: DUF964; cl01483 485916005602 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 485916005603 MutS domain I; Region: MutS_I; pfam01624 485916005604 MutS domain II; Region: MutS_II; pfam05188 485916005605 MutS family domain IV; Region: MutS_IV; pfam05190 485916005606 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 485916005607 Walker A/P-loop; other site 485916005608 ATP binding site [chemical binding]; other site 485916005609 Q-loop/lid; other site 485916005610 ABC transporter signature motif; other site 485916005611 Walker B; other site 485916005612 D-loop; other site 485916005613 H-loop/switch region; other site 485916005614 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 485916005615 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 485916005616 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 485916005617 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 485916005618 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 485916005619 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916005620 ATP binding site [chemical binding]; other site 485916005621 Mg2+ binding site [ion binding]; other site 485916005622 G-X-G motif; other site 485916005623 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 485916005624 ATP binding site [chemical binding]; other site 485916005625 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 485916005626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916005627 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916005628 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 485916005629 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 485916005630 Sm1 motif; other site 485916005631 intra - hexamer interaction site; other site 485916005632 inter - hexamer interaction site [polypeptide binding]; other site 485916005633 nucleotide binding pocket [chemical binding]; other site 485916005634 Sm2 motif; other site 485916005635 stage V sporulation protein K; Region: spore_V_K; TIGR02881 485916005636 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 485916005637 Walker A motif; other site 485916005638 ATP binding site [chemical binding]; other site 485916005639 Walker B motif; other site 485916005640 arginine finger; other site 485916005641 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 485916005642 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 485916005643 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485916005644 catalytic residue [active] 485916005645 LexA repressor; Validated; Region: PRK00215 485916005646 Helix-turn-helix domains; Region: HTH; cl00088 485916005647 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 485916005648 Catalytic site [active] 485916005649 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 485916005650 Fumarase C-terminus; Region: Fumerase_C; cl00795 485916005651 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 485916005652 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 485916005653 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 485916005654 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485916005655 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 485916005656 S-adenosylmethionine binding site [chemical binding]; other site 485916005657 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 485916005658 diiron binding motif [ion binding]; other site 485916005659 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916005660 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 485916005661 putative ADP-binding pocket [chemical binding]; other site 485916005662 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 485916005663 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 485916005664 FeS/SAM binding site; other site 485916005665 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cd00363 485916005666 active site 485916005667 ADP/pyrophosphate binding site [chemical binding]; other site 485916005668 dimerization interface [polypeptide binding]; other site 485916005669 allosteric effector site; other site 485916005670 fructose-1,6-bisphosphate binding site; other site 485916005671 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 485916005672 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 485916005673 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 485916005674 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 485916005675 ATP-grasp domain; Region: ATP-grasp_4; cl03087 485916005676 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 485916005677 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 485916005678 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916005679 Coenzyme A binding pocket [chemical binding]; other site 485916005680 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916005681 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916005682 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 485916005683 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916005684 Coenzyme A binding pocket [chemical binding]; other site 485916005685 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 485916005686 S-adenosylmethionine binding site [chemical binding]; other site 485916005687 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 485916005688 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 485916005689 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 485916005690 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 485916005691 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 485916005692 active site 485916005693 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485916005694 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 485916005695 Phospholipid methyltransferase; Region: PEMT; cl00763 485916005696 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 485916005697 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 485916005698 Helix-turn-helix domains; Region: HTH; cl00088 485916005699 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 485916005700 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916005701 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916005702 dimer interface [polypeptide binding]; other site 485916005703 putative CheW interface [polypeptide binding]; other site 485916005704 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 485916005705 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 485916005706 GAF domain; Region: GAF_2; pfam13185 485916005707 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 485916005708 dimer interface [polypeptide binding]; other site 485916005709 phosphorylation site [posttranslational modification] 485916005710 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916005711 ATP binding site [chemical binding]; other site 485916005712 Mg2+ binding site [ion binding]; other site 485916005713 G-X-G motif; other site 485916005714 Response regulator receiver domain; Region: Response_reg; pfam00072 485916005715 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916005716 active site 485916005717 phosphorylation site [posttranslational modification] 485916005718 intermolecular recognition site; other site 485916005719 dimerization interface [polypeptide binding]; other site 485916005720 GAF domain; Region: GAF; cl15785 485916005721 GAF domain; Region: GAF_2; pfam13185 485916005722 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916005723 metal binding site [ion binding]; metal-binding site 485916005724 active site 485916005725 I-site; other site 485916005726 FIST N domain; Region: FIST; cl10701 485916005727 FIST C domain; Region: FIST_C; pfam10442 485916005728 GAF domain; Region: GAF; cl15785 485916005729 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916005730 metal binding site [ion binding]; metal-binding site 485916005731 active site 485916005732 I-site; other site 485916005733 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 485916005734 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916005735 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916005736 enolase; Provisional; Region: eno; PRK00077 485916005737 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 485916005738 dimer interface [polypeptide binding]; other site 485916005739 metal binding site [ion binding]; metal-binding site 485916005740 substrate binding pocket [chemical binding]; other site 485916005741 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 485916005742 G3 box; other site 485916005743 Switch II region; other site 485916005744 GTP/Mg2+ binding site [chemical binding]; other site 485916005745 G4 box; other site 485916005746 G5 box; other site 485916005747 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 485916005748 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 485916005749 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 485916005750 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 485916005751 Calcium binding; Region: Calci_bind_CcbP; pfam11535 485916005752 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 485916005753 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 485916005754 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 485916005755 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 485916005756 Helix-turn-helix domains; Region: HTH; cl00088 485916005757 Winged helix-turn helix; Region: HTH_29; pfam13551 485916005758 Integrase core domain; Region: rve; cl01316 485916005759 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 485916005760 dinuclear metal binding motif [ion binding]; other site 485916005761 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 485916005762 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 485916005763 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 485916005764 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 485916005765 DNA binding site [nucleotide binding] 485916005766 Int/Topo IB signature motif; other site 485916005767 active site 485916005768 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 485916005769 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 485916005770 DNA binding site [nucleotide binding] 485916005771 Int/Topo IB signature motif; other site 485916005772 active site 485916005773 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 485916005774 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 485916005775 DNA binding site [nucleotide binding] 485916005776 Int/Topo IB signature motif; other site 485916005777 active site 485916005778 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 485916005779 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 485916005780 Walker A motif; other site 485916005781 ATP binding site [chemical binding]; other site 485916005782 Walker B motif; other site 485916005783 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 485916005784 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916005785 Restriction endonuclease; Region: Mrr_cat; cl00516 485916005786 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916005787 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916005788 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916005789 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 485916005790 non-specific DNA binding site [nucleotide binding]; other site 485916005791 salt bridge; other site 485916005792 sequence-specific DNA binding site [nucleotide binding]; other site 485916005793 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916005794 Helix-turn-helix domains; Region: HTH; cl00088 485916005795 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916005796 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916005797 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 485916005798 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 485916005799 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 485916005800 Walker A motif; other site 485916005801 ATP binding site [chemical binding]; other site 485916005802 Walker B motif; other site 485916005803 arginine finger; other site 485916005804 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 485916005805 catalytic residues [active] 485916005806 Recombinase; Region: Recombinase; pfam07508 485916005807 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916005808 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916005809 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916005810 Helix-turn-helix domains; Region: HTH; cl00088 485916005811 Winged helix-turn helix; Region: HTH_29; pfam13551 485916005812 Winged helix-turn helix; Region: HTH_33; pfam13592 485916005813 Integrase core domain; Region: rve; cl01316 485916005814 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 485916005815 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 485916005816 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 485916005817 DNA binding site [nucleotide binding] 485916005818 Int/Topo IB signature motif; other site 485916005819 active site 485916005820 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 485916005821 DNA binding site [nucleotide binding] 485916005822 Int/Topo IB signature motif; other site 485916005823 active site 485916005824 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 485916005825 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 485916005826 DNA binding site [nucleotide binding] 485916005827 Int/Topo IB signature motif; other site 485916005828 active site 485916005829 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 485916005830 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 485916005831 Integrase core domain; Region: rve; cl01316 485916005832 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 485916005833 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916005834 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916005835 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 485916005836 non-specific DNA binding site [nucleotide binding]; other site 485916005837 salt bridge; other site 485916005838 sequence-specific DNA binding site [nucleotide binding]; other site 485916005839 TRAM domain; Region: TRAM; cl01282 485916005840 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 485916005841 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 485916005842 S-adenosylmethionine binding site [chemical binding]; other site 485916005843 Protein of unknown function (DUF327); Region: DUF327; cl00753 485916005844 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 485916005845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916005846 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 485916005847 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 485916005848 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 485916005849 dimerization interface [polypeptide binding]; other site 485916005850 active site 485916005851 Quinolinate synthetase A protein; Region: NadA; cl00420 485916005852 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 485916005853 Helix-turn-helix domains; Region: HTH; cl00088 485916005854 3H domain; Region: 3H; pfam02829 485916005855 pyrophosphatase PpaX; Provisional; Region: PRK13288 485916005856 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 485916005857 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 485916005858 motif II; other site 485916005859 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 485916005860 catalytic residues [active] 485916005861 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 485916005862 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 485916005863 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 485916005864 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 485916005865 non-specific DNA binding site [nucleotide binding]; other site 485916005866 salt bridge; other site 485916005867 sequence-specific DNA binding site [nucleotide binding]; other site 485916005868 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916005869 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 485916005870 non-specific DNA binding site [nucleotide binding]; other site 485916005871 salt bridge; other site 485916005872 sequence-specific DNA binding site [nucleotide binding]; other site 485916005873 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 485916005874 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 485916005875 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 485916005876 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 485916005877 Peptidase family U32; Region: Peptidase_U32; cl03113 485916005878 YceG-like family; Region: YceG; pfam02618 485916005879 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 485916005880 dimerization interface [polypeptide binding]; other site 485916005881 VanW like protein; Region: VanW; pfam04294 485916005882 G5 domain; Region: G5; pfam07501 485916005883 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 485916005884 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 includes...; Region: RuvC_resolvase; cl00243 485916005885 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 485916005886 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 485916005887 active site 485916005888 catalytic tetrad [active] 485916005889 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 485916005890 4Fe-4S binding domain; Region: Fer4; cl02805 485916005891 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 485916005892 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 485916005893 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 formation of...; Region: AlaRS_core; cd00673 485916005894 motif 1; other site 485916005895 active site 485916005896 motif 2; other site 485916005897 motif 3; other site 485916005898 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 485916005899 DHHA1 domain; Region: DHHA1; pfam02272 485916005900 peptide chain release factor 1; Validated; Region: prfA; PRK00591 485916005901 Uncharacterized protein conserved in archaea (DUF2250); Region: DUF2250; pfam10007 485916005902 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 485916005903 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 485916005904 Ligand Binding Site [chemical binding]; other site 485916005905 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 485916005906 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 485916005907 trimerization site [polypeptide binding]; other site 485916005908 active site 485916005909 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 485916005910 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 485916005911 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485916005912 catalytic residue [active] 485916005913 Helix-turn-helix domains; Region: HTH; cl00088 485916005914 Rrf2 family protein; Region: rrf2_super; TIGR00738 485916005915 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 485916005916 catalytic residues [active] 485916005917 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 485916005918 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 485916005919 putative ATP binding site [chemical binding]; other site 485916005920 putative substrate interface [chemical binding]; other site 485916005921 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 485916005922 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 485916005923 dimer interface [polypeptide binding]; other site 485916005924 anticodon binding site; other site 485916005925 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 the...; Region: AspRS_core; cd00777 485916005926 homodimer interface [polypeptide binding]; other site 485916005927 motif 1; other site 485916005928 active site 485916005929 motif 2; other site 485916005930 GAD domain; Region: GAD; pfam02938 485916005931 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 the...; Region: AspRS_core; cd00777 485916005932 motif 3; other site 485916005933 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 485916005934 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 ATP-dependent...; Region: HisRS-like_core; cd00773 485916005935 dimer interface [polypeptide binding]; other site 485916005936 motif 1; other site 485916005937 active site 485916005938 motif 2; other site 485916005939 motif 3; other site 485916005940 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 485916005941 anticodon binding site; other site 485916005942 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 485916005943 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 485916005944 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 485916005945 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 485916005946 Walker A/P-loop; other site 485916005947 ATP binding site [chemical binding]; other site 485916005948 Q-loop/lid; other site 485916005949 ABC transporter signature motif; other site 485916005950 Walker B; other site 485916005951 D-loop; other site 485916005952 H-loop/switch region; other site 485916005953 NMT1-like family; Region: NMT1_2; cl15260 485916005954 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 485916005955 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 485916005956 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485916005957 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 485916005958 dimerization interface [polypeptide binding]; other site 485916005959 putative tRNAtyr binding site [nucleotide binding]; other site 485916005960 putative active site [active] 485916005961 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 485916005962 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 485916005963 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 485916005964 synthetase active site [active] 485916005965 NTP binding site [chemical binding]; other site 485916005966 metal binding site [ion binding]; metal-binding site 485916005967 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 485916005968 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 485916005969 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 485916005970 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916005971 active site 485916005972 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 485916005973 DHH family; Region: DHH; pfam01368 485916005974 DHHA1 domain; Region: DHHA1; pfam02272 485916005975 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916005976 nucleotide binding region [chemical binding]; other site 485916005977 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 485916005978 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 485916005979 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 485916005980 active site 485916005981 catalytic tetrad [active] 485916005982 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 485916005983 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 485916005984 4Fe-4S binding domain; Region: Fer4_5; pfam12801 485916005985 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916005986 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 485916005987 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485916005988 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 485916005989 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 485916005990 Rubredoxin; Region: Rubredoxin; pfam00301 485916005991 iron binding site [ion binding]; other site 485916005992 nicotinate phosphoribosyltransferase; Reviewed; Region: PRK08662 485916005993 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 485916005994 active site 485916005995 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 485916005996 homopentamer interface [polypeptide binding]; other site 485916005997 active site 485916005998 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 485916005999 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 485916006000 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 485916006001 dimerization interface [polypeptide binding]; other site 485916006002 active site 485916006003 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 485916006004 Lumazine binding domain; Region: Lum_binding; pfam00677 485916006005 Lumazine binding domain; Region: Lum_binding; pfam00677 485916006006 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 485916006007 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 485916006008 catalytic motif [active] 485916006009 Zn binding site [ion binding]; other site 485916006010 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 485916006011 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916006012 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916006013 ATP binding site [chemical binding]; other site 485916006014 Mg2+ binding site [ion binding]; other site 485916006015 G-X-G motif; other site 485916006016 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 485916006017 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 485916006018 substrate binding site [chemical binding]; other site 485916006019 hexamer interface [polypeptide binding]; other site 485916006020 metal binding site [ion binding]; metal-binding site 485916006021 GTPase RsgA; Reviewed; Region: PRK00098 485916006022 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 485916006023 RNA binding site [nucleotide binding]; other site 485916006024 homodimer interface [polypeptide binding]; other site 485916006025 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 485916006026 GTPase/Zn-binding domain interface [polypeptide binding]; other site 485916006027 GTP/Mg2+ binding site [chemical binding]; other site 485916006028 G4 box; other site 485916006029 G5 box; other site 485916006030 G1 box; other site 485916006031 Switch I region; other site 485916006032 G2 box; other site 485916006033 G3 box; other site 485916006034 Switch II region; other site 485916006035 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 485916006036 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 485916006037 active site 485916006038 ATP binding site [chemical binding]; other site 485916006039 substrate binding site [chemical binding]; other site 485916006040 activation loop (A-loop); other site 485916006041 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 485916006042 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 485916006043 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 485916006044 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 485916006045 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 485916006046 Protein phosphatase 2C; Region: PP2C; pfam00481 485916006047 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 485916006048 active site 485916006049 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 485916006050 phosphopeptide binding site; other site 485916006051 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 485916006052 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 485916006053 phosphopeptide binding site; other site 485916006054 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 485916006055 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 485916006056 FeS/SAM binding site; other site 485916006057 16S rRNA methyltransferase B; Provisional; Region: PRK14902 485916006058 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 485916006059 putative RNA binding site [nucleotide binding]; other site 485916006060 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 485916006061 S-adenosylmethionine binding site [chemical binding]; other site 485916006062 Protein of unknown function DUF116; Region: DUF116; cl00800 485916006063 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 485916006064 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 485916006065 putative active site [active] 485916006066 substrate binding site [chemical binding]; other site 485916006067 putative cosubstrate binding site; other site 485916006068 catalytic site [active] 485916006069 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 485916006070 substrate binding site [chemical binding]; other site 485916006071 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 485916006072 active site 485916006073 catalytic residues [active] 485916006074 metal binding site [ion binding]; metal-binding site 485916006075 primosome assembly protein PriA; Validated; Region: PRK05580 485916006076 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 485916006077 ATP binding site [chemical binding]; other site 485916006078 putative Mg++ binding site [ion binding]; other site 485916006079 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 485916006080 nucleotide binding region [chemical binding]; other site 485916006081 ATP-binding site [chemical binding]; other site 485916006082 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 485916006083 Flavoprotein; Region: Flavoprotein; cl08021 485916006084 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 485916006085 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 485916006086 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 485916006087 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 485916006088 catalytic site [active] 485916006089 G-X2-G-X-G-K; other site 485916006090 Domain of unknown function (DUF370); Region: DUF370; cl00898 485916006091 hypothetical protein; Provisional; Region: PRK11820 485916006092 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 485916006093 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 485916006094 aspartate aminotransferase; Provisional; Region: PRK05764 485916006095 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 485916006096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916006097 homodimer interface [polypeptide binding]; other site 485916006098 catalytic residue [active] 485916006099 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 485916006100 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 485916006101 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 485916006102 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 485916006103 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 485916006104 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916006105 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 485916006106 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 485916006107 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 485916006108 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 485916006109 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 485916006110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916006111 homodimer interface [polypeptide binding]; other site 485916006112 catalytic residue [active] 485916006113 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 485916006114 putative FMN binding site [chemical binding]; other site 485916006115 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 485916006116 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 485916006117 putative substrate translocation pore; other site 485916006118 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 485916006119 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 485916006120 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 485916006121 ACS interaction site; other site 485916006122 CODH interaction site; other site 485916006123 cubane metal cluster (B-cluster) [ion binding]; other site 485916006124 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 485916006125 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 485916006126 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 485916006127 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485916006128 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485916006129 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 485916006130 Peptidase family M48; Region: Peptidase_M48; cl12018 485916006131 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 485916006132 Domain of unknown function (DUF814); Region: DUF814; pfam05670 485916006133 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 485916006134 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 485916006135 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 485916006136 active site 485916006137 metal-binding site [ion binding] 485916006138 nucleotide-binding site [chemical binding]; other site 485916006139 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 485916006140 dimer interface [polypeptide binding]; other site 485916006141 active site 485916006142 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 485916006143 Ligand Binding Site [chemical binding]; other site 485916006144 Molecular Tunnel; other site 485916006145 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 485916006146 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916006147 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916006148 Phage Tail Collar Domain; Region: Collar; pfam07484 485916006149 Phage Tail Collar Domain; Region: Collar; pfam07484 485916006150 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485916006151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916006152 active site 485916006153 phosphorylation site [posttranslational modification] 485916006154 intermolecular recognition site; other site 485916006155 dimerization interface [polypeptide binding]; other site 485916006156 LytTr DNA-binding domain; Region: LytTR; cl04498 485916006157 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 485916006158 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916006159 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 485916006160 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916006161 active site 485916006162 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 contains two...; Region: OMP_decarboxylase_like; cd04725 485916006163 active site 485916006164 dimer interface [polypeptide binding]; other site 485916006165 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 485916006166 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 485916006167 heterodimer interface [polypeptide binding]; other site 485916006168 active site 485916006169 FMN binding site [chemical binding]; other site 485916006170 homodimer interface [polypeptide binding]; other site 485916006171 substrate binding site [chemical binding]; other site 485916006172 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 485916006173 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 485916006174 FAD binding pocket [chemical binding]; other site 485916006175 FAD binding motif [chemical binding]; other site 485916006176 phosphate binding motif [ion binding]; other site 485916006177 beta-alpha-beta structure motif; other site 485916006178 NAD binding pocket [chemical binding]; other site 485916006179 Iron coordination center [ion binding]; other site 485916006180 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 485916006181 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 485916006182 ATP-grasp domain; Region: ATP-grasp_4; cl03087 485916006183 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 485916006184 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 485916006185 ATP-grasp domain; Region: ATP-grasp_4; cl03087 485916006186 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 485916006187 IMP binding site; other site 485916006188 dimer interface [polypeptide binding]; other site 485916006189 interdomain contacts; other site 485916006190 partial ornithine binding site; other site 485916006191 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 485916006192 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 485916006193 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 485916006194 catalytic site [active] 485916006195 subunit interface [polypeptide binding]; other site 485916006196 dihydroorotase; Validated; Region: pyrC; PRK09357 485916006197 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 485916006198 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 485916006199 active site 485916006200 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 485916006201 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 485916006202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916006203 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916006204 active site 485916006205 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 485916006206 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 485916006207 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485916006208 putative substrate translocation pore; other site 485916006209 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 485916006210 Protein of unknown function (DUF441); Region: DUF441; cl01041 485916006211 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 485916006212 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 485916006213 putative homodimer interface [polypeptide binding]; other site 485916006214 putative active site pocket [active] 485916006215 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 485916006216 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 485916006217 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 485916006218 RNA binding surface [nucleotide binding]; other site 485916006219 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 485916006220 active site 485916006221 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 485916006222 lipoprotein signal peptidase; Provisional; Region: PRK14787 485916006223 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 485916006224 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 485916006225 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 485916006226 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 485916006227 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916006228 Coenzyme A binding pocket [chemical binding]; other site 485916006229 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 485916006230 putative active site [active] 485916006231 catalytic triad [active] 485916006232 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 485916006233 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 485916006234 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 485916006235 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 485916006236 dimerization interface [polypeptide binding]; other site 485916006237 ATP binding site [chemical binding]; other site 485916006238 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 485916006239 dimerization interface [polypeptide binding]; other site 485916006240 ATP binding site [chemical binding]; other site 485916006241 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 485916006242 heat shock protein 90; Provisional; Region: PRK05218 485916006243 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916006244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916006245 flavoprotein, HI0933 family; Region: TIGR00275 485916006246 SpoVA protein; Region: SpoVA; cl04298 485916006247 stage V sporulation protein AD; Provisional; Region: PRK12404 485916006248 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 485916006249 SpoVA protein; Region: SpoVA; cl04298 485916006250 Protein of unknown function (DUF421); Region: DUF421; cl00990 485916006251 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 485916006252 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 485916006253 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 485916006254 Phosphate transporter family; Region: PHO4; cl00396 485916006255 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 485916006256 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 485916006257 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 485916006258 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 485916006259 active site 485916006260 HIGH motif; other site 485916006261 dimer interface [polypeptide binding]; other site 485916006262 KMSKS motif; other site 485916006263 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 485916006264 RNA binding surface [nucleotide binding]; other site 485916006265 Transglycosylase; Region: Transgly; cl07896 485916006266 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 485916006267 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 485916006268 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 485916006269 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 485916006270 Walker A/P-loop; other site 485916006271 ATP binding site [chemical binding]; other site 485916006272 Q-loop/lid; other site 485916006273 ABC transporter signature motif; other site 485916006274 Walker B; other site 485916006275 D-loop; other site 485916006276 H-loop/switch region; other site 485916006277 Plant ATP synthase F0; Region: YMF19; cl07975 485916006278 Smr domain; Region: Smr; cl02619 485916006279 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 485916006280 Peptidase family U32; Region: Peptidase_U32; cl03113 485916006281 Collagenase; Region: DUF3656; pfam12392 485916006282 Peptidase family U32; Region: Peptidase_U32; cl03113 485916006283 Uncharacterized conserved protein [Function unknown]; Region: COG0327 485916006284 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 485916006285 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 485916006286 active site 485916006287 DNA binding site [nucleotide binding] 485916006288 Cell division protein ZapA; Region: ZapA; cl01146 485916006289 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 485916006290 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 485916006291 putative tRNA-binding site [nucleotide binding]; other site 485916006292 B3/4 domain; Region: B3_4; cl11458 485916006293 tRNA synthetase B5 domain; Region: B5; cl08394 485916006294 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 485916006295 dimer interface [polypeptide binding]; other site 485916006296 motif 1; other site 485916006297 motif 3; other site 485916006298 motif 2; other site 485916006299 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 485916006300 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 485916006301 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 485916006302 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 485916006303 dimer interface [polypeptide binding]; other site 485916006304 motif 1; other site 485916006305 active site 485916006306 motif 2; other site 485916006307 motif 3; other site 485916006308 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 485916006309 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 485916006310 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 485916006311 ribosomal protein L20; Region: rpl20; CHL00068 485916006312 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 485916006313 23S rRNA binding site [nucleotide binding]; other site 485916006314 L21 binding site [polypeptide binding]; other site 485916006315 L13 binding site [polypeptide binding]; other site 485916006316 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 485916006317 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 485916006318 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 485916006319 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 485916006320 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 485916006321 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 485916006322 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 485916006323 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 485916006324 active site 485916006325 dimer interface [polypeptide binding]; other site 485916006326 motif 1; other site 485916006327 motif 2; other site 485916006328 motif 3; other site 485916006329 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 485916006330 anticodon binding site; other site 485916006331 YtxC-like family; Region: YtxC; cl08500 485916006332 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 485916006333 NodB motif; other site 485916006334 active site 485916006335 catalytic site [active] 485916006336 metal binding site [ion binding]; metal-binding site 485916006337 OpgC protein; Region: OpgC_C; cl00792 485916006338 Acyltransferase family; Region: Acyl_transf_3; pfam01757 485916006339 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 485916006340 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 485916006341 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 485916006342 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 485916006343 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 485916006344 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 485916006345 Ligand Binding Site [chemical binding]; other site 485916006346 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 485916006347 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 485916006348 C-terminal peptidase (prc); Region: prc; TIGR00225 485916006349 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 485916006350 protein binding site [polypeptide binding]; other site 485916006351 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 485916006352 Catalytic dyad [active] 485916006353 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916006354 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916006355 DNA polymerase I; Provisional; Region: PRK05755 485916006356 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 485916006357 active site 485916006358 metal binding site 1 [ion binding]; metal-binding site 485916006359 putative 5' ssDNA interaction site; other site 485916006360 metal binding site 3; metal-binding site 485916006361 metal binding site 2 [ion binding]; metal-binding site 485916006362 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 485916006363 putative DNA binding site [nucleotide binding]; other site 485916006364 putative metal binding site [ion binding]; other site 485916006365 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 485916006366 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 485916006367 active site 485916006368 DNA binding site [nucleotide binding] 485916006369 catalytic site [active] 485916006370 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 485916006371 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 485916006372 DNA binding site [nucleotide binding] 485916006373 catalytic residue [active] 485916006374 H2TH interface [polypeptide binding]; other site 485916006375 putative catalytic residues [active] 485916006376 turnover-facilitating residue; other site 485916006377 intercalation triad [nucleotide binding]; other site 485916006378 8OG recognition residue [nucleotide binding]; other site 485916006379 putative reading head residues; other site 485916006380 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 485916006381 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 485916006382 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 485916006383 Domain of unknown function DUF; Region: DUF204; pfam02659 485916006384 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 485916006385 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 485916006386 CoA-binding site [chemical binding]; other site 485916006387 ATP-binding [chemical binding]; other site 485916006388 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 catalyze...; Region: LT_GEWL; cd00254 485916006389 N-acetyl-D-glucosamine binding site [chemical binding]; other site 485916006390 catalytic residue [active] 485916006391 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 485916006392 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 485916006393 DNA binding site [nucleotide binding] 485916006394 Int/Topo IB signature motif; other site 485916006395 active site 485916006396 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 485916006397 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 485916006398 DNA binding site [nucleotide binding] 485916006399 Int/Topo IB signature motif; other site 485916006400 active site 485916006401 ParB-like partition proteins; Region: parB_part; TIGR00180 485916006402 ParB-like nuclease domain; Region: ParBc; cl02129 485916006403 Helix-turn-helix domains; Region: HTH; cl00088 485916006404 Winged helix-turn helix; Region: HTH_29; pfam13551 485916006405 Winged helix-turn helix; Region: HTH_33; pfam13592 485916006406 Integrase core domain; Region: rve; cl01316 485916006407 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916006408 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916006409 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 485916006410 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 485916006411 non-specific DNA binding site [nucleotide binding]; other site 485916006412 salt bridge; other site 485916006413 sequence-specific DNA binding site [nucleotide binding]; other site 485916006414 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 485916006415 non-specific DNA binding site [nucleotide binding]; other site 485916006416 salt bridge; other site 485916006417 sequence-specific DNA binding site [nucleotide binding]; other site 485916006418 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 485916006419 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 485916006420 non-specific DNA binding site [nucleotide binding]; other site 485916006421 salt bridge; other site 485916006422 sequence-specific DNA binding site [nucleotide binding]; other site 485916006423 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 485916006424 non-specific DNA binding site [nucleotide binding]; other site 485916006425 salt bridge; other site 485916006426 sequence-specific DNA binding site [nucleotide binding]; other site 485916006427 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 485916006428 non-specific DNA binding site [nucleotide binding]; other site 485916006429 salt bridge; other site 485916006430 sequence-specific DNA binding site [nucleotide binding]; other site 485916006431 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006432 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006433 Family description; Region: UvrD_C_2; cl15862 485916006434 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916006435 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 485916006436 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 485916006437 catalytic residues [active] 485916006438 catalytic nucleophile [active] 485916006439 Presynaptic Site I dimer interface [polypeptide binding]; other site 485916006440 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 485916006441 Synaptic Flat tetramer interface [polypeptide binding]; other site 485916006442 Synaptic Site I dimer interface [polypeptide binding]; other site 485916006443 DNA binding site [nucleotide binding] 485916006444 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916006445 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916006446 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916006447 ATP binding site [chemical binding]; other site 485916006448 Mg2+ binding site [ion binding]; other site 485916006449 G-X-G motif; other site 485916006450 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 485916006451 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; cl15754 485916006452 cofactor binding site; other site 485916006453 DNA binding site [nucleotide binding] 485916006454 substrate interaction site [chemical binding]; other site 485916006455 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; cl15754 485916006456 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 485916006457 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 485916006458 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 485916006459 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916006460 Coenzyme A binding pocket [chemical binding]; other site 485916006461 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916006462 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 485916006463 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; cl15754 485916006464 cofactor binding site; other site 485916006465 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 485916006466 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 485916006467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 485916006468 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 485916006469 active site 485916006470 metal binding site [ion binding]; metal-binding site 485916006471 interdomain interaction site; other site 485916006472 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 485916006473 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 485916006474 Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Region: RpsA; COG0539 485916006475 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 485916006476 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 485916006477 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006478 Walker A motif; other site 485916006479 ATP binding site [chemical binding]; other site 485916006480 Walker B motif; other site 485916006481 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916006482 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916006483 Zn2+ binding site [ion binding]; other site 485916006484 Mg2+ binding site [ion binding]; other site 485916006485 Helix-turn-helix domains; Region: HTH; cl00088 485916006486 Winged helix-turn helix; Region: HTH_29; pfam13551 485916006487 Integrase core domain; Region: rve; cl01316 485916006488 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 485916006489 ADP-ribose binding site [chemical binding]; other site 485916006490 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 485916006491 TadE-like protein; Region: TadE; cl10688 485916006492 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 485916006493 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 485916006494 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 485916006495 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 485916006496 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 485916006497 Walker A motif; other site 485916006498 hexamer interface [polypeptide binding]; other site 485916006499 ATP binding site [chemical binding]; other site 485916006500 Walker B motif; other site 485916006501 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 485916006502 AAA domain; Region: AAA_31; pfam13614 485916006503 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006504 SAF domain; Region: SAF; cl00555 485916006505 TadE-like protein; Region: TadE; cl10688 485916006506 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916006507 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916006508 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916006509 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 485916006510 oligomeric interface; other site 485916006511 putative active site [active] 485916006512 homodimer interface [polypeptide binding]; other site 485916006513 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 485916006514 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 485916006515 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916006516 AAA domain; Region: AAA_31; pfam13614 485916006517 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 485916006518 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006519 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 catalyze...; Region: LT_GEWL; cd00254 485916006520 N-acetyl-D-glucosamine binding site [chemical binding]; other site 485916006521 catalytic residue [active] 485916006522 Peptidase family M23; Region: Peptidase_M23; pfam01551 485916006523 Helix-turn-helix domains; Region: HTH; cl00088 485916006524 Winged helix-turn helix; Region: HTH_29; pfam13551 485916006525 Winged helix-turn helix; Region: HTH_33; pfam13592 485916006526 Integrase core domain; Region: rve; cl01316 485916006527 AAA-like domain; Region: AAA_10; pfam12846 485916006528 TcpE family; Region: TcpE; pfam12648 485916006529 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 485916006530 Helix-turn-helix domains; Region: HTH; cl00088 485916006531 Winged helix-turn helix; Region: HTH_29; pfam13551 485916006532 Integrase core domain; Region: rve; cl01316 485916006533 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 485916006534 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916006535 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916006536 Membrane protein of unknown function; Region: DUF360; cl00850 485916006537 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 485916006538 Helix-turn-helix domains; Region: HTH; cl00088 485916006539 Recombinase; Region: Recombinase; pfam07508 485916006540 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916006541 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 485916006542 minor groove reading motif; other site 485916006543 endonuclease III; Region: ENDO3c; smart00478 485916006544 helix-hairpin-helix signature motif; other site 485916006545 substrate binding pocket [chemical binding]; other site 485916006546 active site 485916006547 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 485916006548 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 485916006549 DNA binding site [nucleotide binding] 485916006550 active site 485916006551 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916006552 metal binding site [ion binding]; metal-binding site 485916006553 active site 485916006554 I-site; other site 485916006555 Predicted acetyltransferase [General function prediction only]; Region: COG3153 485916006556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916006557 Coenzyme A binding pocket [chemical binding]; other site 485916006558 Helix-turn-helix domains; Region: HTH; cl00088 485916006559 Winged helix-turn helix; Region: HTH_29; pfam13551 485916006560 Integrase core domain; Region: rve; cl01316 485916006561 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 485916006562 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916006563 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485916006564 DNA binding residues [nucleotide binding] 485916006565 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916006566 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916006567 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916006568 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916006569 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 485916006570 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 485916006571 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916006572 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 485916006573 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916006574 Helix-turn-helix domains; Region: HTH; cl00088 485916006575 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 485916006576 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 485916006577 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916006578 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 485916006579 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916006580 Helix-turn-helix domains; Region: HTH; cl00088 485916006581 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 485916006582 putative DNA binding site [nucleotide binding]; other site 485916006583 dimerization interface [polypeptide binding]; other site 485916006584 putative Zn2+ binding site [ion binding]; other site 485916006585 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485916006586 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 485916006587 S-adenosylmethionine binding site [chemical binding]; other site 485916006588 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 485916006589 Uncharacterized conserved protein [Function unknown]; Region: COG2006 485916006590 4Fe-4S binding domain; Region: Fer4; cl02805 485916006591 4Fe-4S binding domain; Region: Fer4; cl02805 485916006592 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 485916006593 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 485916006594 DNA binding residues [nucleotide binding] 485916006595 putative dimer interface [polypeptide binding]; other site 485916006596 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 485916006597 nudix motif; other site 485916006598 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 485916006599 active site 485916006600 NTP binding site [chemical binding]; other site 485916006601 metal binding triad [ion binding]; metal-binding site 485916006602 CGGC domain; Region: CGGC; cl02356 485916006603 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916006604 dimer interface [polypeptide binding]; other site 485916006605 putative CheW interface [polypeptide binding]; other site 485916006606 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 485916006607 Spore germination protein; Region: Spore_permease; cl15802 485916006608 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 485916006609 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916006610 Coenzyme A binding pocket [chemical binding]; other site 485916006611 sensory histidine kinase AtoS; Provisional; Region: PRK11360 485916006612 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 485916006613 dimer interface [polypeptide binding]; other site 485916006614 phosphorylation site [posttranslational modification] 485916006615 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916006616 ATP binding site [chemical binding]; other site 485916006617 Mg2+ binding site [ion binding]; other site 485916006618 G-X-G motif; other site 485916006619 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 485916006620 Putative catalytic NodB homology domain of uncharacterized BH1302 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH1302_like; cd10956 485916006621 NodB motif; other site 485916006622 putative active site [active] 485916006623 putative catalytic site [active] 485916006624 putative Zn binding site [ion binding]; other site 485916006625 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 485916006626 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916006627 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 485916006628 DNA binding residues [nucleotide binding] 485916006629 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 485916006630 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 485916006631 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 485916006632 catalytic residues [active] 485916006633 catalytic nucleophile [active] 485916006634 Recombinase; Region: Recombinase; pfam07508 485916006635 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 485916006636 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 485916006637 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 485916006638 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 485916006639 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 485916006640 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 485916006641 Walker A/P-loop; other site 485916006642 ATP binding site [chemical binding]; other site 485916006643 Q-loop/lid; other site 485916006644 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 485916006645 ABC transporter signature motif; other site 485916006646 Walker B; other site 485916006647 D-loop; other site 485916006648 H-loop/switch region; other site 485916006649 arginine repressor; Provisional; Region: PRK04280 485916006650 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 485916006651 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 485916006652 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916006653 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 485916006654 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 485916006655 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 485916006656 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 485916006657 RNA binding surface [nucleotide binding]; other site 485916006658 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; cl15754 485916006659 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 485916006660 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 485916006661 TPP-binding site; other site 485916006662 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 485916006663 PYR/PP interface [polypeptide binding]; other site 485916006664 dimer interface [polypeptide binding]; other site 485916006665 TPP binding site [chemical binding]; other site 485916006666 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 485916006667 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 485916006668 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 485916006669 substrate binding pocket [chemical binding]; other site 485916006670 chain length determination region; other site 485916006671 substrate-Mg2+ binding site; other site 485916006672 catalytic residues [active] 485916006673 aspartate-rich region 1; other site 485916006674 active site lid residues [active] 485916006675 aspartate-rich region 2; other site 485916006676 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 485916006677 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 485916006678 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 485916006679 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 485916006680 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 485916006681 homodimer interface [polypeptide binding]; other site 485916006682 NADP binding site [chemical binding]; other site 485916006683 substrate binding site [chemical binding]; other site 485916006684 recombination factor protein RarA; Reviewed; Region: PRK13342 485916006685 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 485916006686 Walker A motif; other site 485916006687 ATP binding site [chemical binding]; other site 485916006688 Walker B motif; other site 485916006689 arginine finger; other site 485916006690 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 485916006691 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916006692 EamA-like transporter family; Region: EamA; cl01037 485916006693 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 485916006694 EamA-like transporter family; Region: EamA; cl01037 485916006695 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 485916006696 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 485916006697 generic binding surface II; other site 485916006698 generic binding surface I; other site 485916006699 putative oxidoreductase; Provisional; Region: PRK12831 485916006700 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916006701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916006702 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 485916006703 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 485916006704 FAD binding pocket [chemical binding]; other site 485916006705 FAD binding motif [chemical binding]; other site 485916006706 phosphate binding motif [ion binding]; other site 485916006707 beta-alpha-beta structure motif; other site 485916006708 NAD binding pocket [chemical binding]; other site 485916006709 Iron coordination center [ion binding]; other site 485916006710 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 485916006711 putative RNA binding site [nucleotide binding]; other site 485916006712 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 485916006713 Asp23 family; Region: Asp23; cl00574 485916006714 Asp23 family; Region: Asp23; cl00574 485916006715 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 485916006716 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 485916006717 ATP-grasp domain; Region: ATP-grasp_4; cl03087 485916006718 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 485916006719 pyruvate carboxylase subunit B; Validated; Region: PRK09282 485916006720 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 485916006721 active site 485916006722 catalytic residues [active] 485916006723 metal binding site [ion binding]; metal-binding site 485916006724 homodimer binding site [polypeptide binding]; other site 485916006725 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 485916006726 carboxyltransferase (CT) interaction site; other site 485916006727 biotinylation site [posttranslational modification]; other site 485916006728 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 485916006729 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 485916006730 stage III sporulation protein AF; Region: spore_III_AF; TIGR02896 485916006731 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 485916006732 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 485916006733 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 485916006734 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 485916006735 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 485916006736 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 485916006737 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006738 Walker A motif; other site 485916006739 ATP binding site [chemical binding]; other site 485916006740 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006741 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 485916006742 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 485916006743 ATP binding site [chemical binding]; other site 485916006744 putative Mg++ binding site [ion binding]; other site 485916006745 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 485916006746 nucleotide binding region [chemical binding]; other site 485916006747 ATP-binding site [chemical binding]; other site 485916006748 DEAD/H associated; Region: DEAD_assoc; pfam08494 485916006749 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 485916006750 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 485916006751 active site 485916006752 metal binding site [ion binding]; metal-binding site 485916006753 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 485916006754 Helix-turn-helix domains; Region: HTH; cl00088 485916006755 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916006756 HsdM N-terminal domain; Region: HsdM_N; pfam12161 485916006757 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 485916006758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916006759 AAA domain; Region: AAA_13; pfam13166 485916006760 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 485916006761 Helix-turn-helix domains; Region: HTH; cl00088 485916006762 putative transposase OrfB; Reviewed; Region: PHA02517 485916006763 HTH-like domain; Region: HTH_21; pfam13276 485916006764 Integrase core domain; Region: rve; cl01316 485916006765 Integrase core domain; Region: rve_3; cl15866 485916006766 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 485916006767 dimerization interface [polypeptide binding]; other site 485916006768 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 485916006769 dimer interface [polypeptide binding]; other site 485916006770 phosphorylation site [posttranslational modification] 485916006771 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916006772 ATP binding site [chemical binding]; other site 485916006773 Mg2+ binding site [ion binding]; other site 485916006774 G-X-G motif; other site 485916006775 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916006776 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916006777 active site 485916006778 phosphorylation site [posttranslational modification] 485916006779 intermolecular recognition site; other site 485916006780 dimerization interface [polypeptide binding]; other site 485916006781 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 485916006782 DNA binding site [nucleotide binding] 485916006783 Family description; Region: VCBS; pfam13517 485916006784 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 485916006785 TPR motif; other site 485916006786 binding surface 485916006787 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 485916006788 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 485916006789 non-specific DNA binding site [nucleotide binding]; other site 485916006790 salt bridge; other site 485916006791 sequence-specific DNA binding site [nucleotide binding]; other site 485916006792 Protein of unknown function DUF86; Region: DUF86; cl01031 485916006793 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 485916006794 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 485916006795 putative NAD(P) binding site [chemical binding]; other site 485916006796 active site 485916006797 Predicted transcriptional regulators [Transcription]; Region: COG1510 485916006798 Helix-turn-helix domains; Region: HTH; cl00088 485916006799 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 485916006800 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916006801 Helix-turn-helix domains; Region: HTH; cl00088 485916006802 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 485916006803 Phospholipid methyltransferase; Region: PEMT; cl00763 485916006804 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 485916006805 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 485916006806 DNA binding residues [nucleotide binding] 485916006807 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 485916006808 non-specific DNA binding site [nucleotide binding]; other site 485916006809 salt bridge; other site 485916006810 sequence-specific DNA binding site [nucleotide binding]; other site 485916006811 phosphoenolpyruvate synthase; Validated; Region: PRK06241 485916006812 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 485916006813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916006814 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 485916006815 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916006816 Helix-turn-helix domains; Region: HTH; cl00088 485916006817 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 485916006818 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 485916006819 Walker A/P-loop; other site 485916006820 ATP binding site [chemical binding]; other site 485916006821 Q-loop/lid; other site 485916006822 ABC transporter signature motif; other site 485916006823 Walker B; other site 485916006824 D-loop; other site 485916006825 H-loop/switch region; other site 485916006826 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The...; Region: ABC_cobalt_CbiO_domain2; cd03226 485916006827 Walker A/P-loop; other site 485916006828 ATP binding site [chemical binding]; other site 485916006829 Q-loop/lid; other site 485916006830 ABC transporter signature motif; other site 485916006831 Walker B; other site 485916006832 D-loop; other site 485916006833 H-loop/switch region; other site 485916006834 Cobalt transport protein; Region: CbiQ; cl00463 485916006835 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916006836 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 485916006837 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006838 Walker A/P-loop; other site 485916006839 ATP binding site [chemical binding]; other site 485916006840 Q-loop/lid; other site 485916006841 ABC transporter signature motif; other site 485916006842 Walker B; other site 485916006843 D-loop; other site 485916006844 H-loop/switch region; other site 485916006845 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916006846 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 485916006847 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006848 Walker A/P-loop; other site 485916006849 ATP binding site [chemical binding]; other site 485916006850 Q-loop/lid; other site 485916006851 ABC transporter signature motif; other site 485916006852 Walker B; other site 485916006853 D-loop; other site 485916006854 H-loop/switch region; other site 485916006855 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 485916006856 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 485916006857 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; cl15754 485916006858 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 485916006859 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 485916006860 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 485916006861 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 485916006862 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 485916006863 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 485916006864 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 485916006865 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 485916006866 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006867 Walker A motif; other site 485916006868 ATP binding site [chemical binding]; other site 485916006869 Walker B motif; other site 485916006870 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 485916006871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006872 Walker A motif; other site 485916006873 ATP binding site [chemical binding]; other site 485916006874 Walker B motif; other site 485916006875 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 485916006876 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 485916006877 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 485916006878 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916006879 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 485916006880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916006881 NAD(P) binding site [chemical binding]; other site 485916006882 Condensation domain; Region: Condensation; pfam00668 485916006883 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 485916006884 Nonribosomal peptide synthase; Region: NRPS; pfam08415 485916006885 AMP-binding enzyme; Region: AMP-binding; cl15778 485916006886 Methyltransferase domain; Region: Methyltransf_31; pfam13847 485916006887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916006888 peptide synthase; Provisional; Region: PRK12467 485916006889 Phosphopantetheine attachment site; Region: PP-binding; cl09936 485916006890 Phosphopantetheine attachment site; Region: PP-binding; cl09936 485916006891 Condensation domain; Region: Condensation; pfam00668 485916006892 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 485916006893 Nonribosomal peptide synthase; Region: NRPS; pfam08415 485916006894 AMP-binding enzyme; Region: AMP-binding; cl15778 485916006895 AMP-binding enzyme; Region: AMP-binding; cl15778 485916006896 Phosphopantetheine attachment site; Region: PP-binding; cl09936 485916006897 Condensation domain; Region: Condensation; pfam00668 485916006898 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 485916006899 Nonribosomal peptide synthase; Region: NRPS; pfam08415 485916006900 AMP-binding enzyme; Region: AMP-binding; cl15778 485916006901 acyl-CoA synthetase; Validated; Region: PRK08308 485916006902 Phosphopantetheine attachment site; Region: PP-binding; cl09936 485916006903 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 485916006904 AMP-binding enzyme; Region: AMP-binding; cl15778 485916006905 salicylate synthase; Region: salicyl_syn; TIGR03494 485916006906 chorismate binding enzyme; Region: Chorismate_bind; cl10555 485916006907 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 485916006908 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 485916006909 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 485916006910 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 485916006911 dimer interface [polypeptide binding]; other site 485916006912 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916006913 catalytic residue [active] 485916006914 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 485916006915 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 485916006916 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485916006917 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 485916006918 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 485916006919 putative active site [active] 485916006920 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 485916006921 putative active site [active] 485916006922 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 485916006923 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 485916006924 putative active site [active] 485916006925 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 485916006926 putative active site [active] 485916006927 Bacterial Ig-like domain; Region: Big_5; cl01012 485916006928 S-layer homology domain; Region: SLH; pfam00395 485916006929 S-layer homology domain; Region: SLH; pfam00395 485916006930 S-layer homology domain; Region: SLH; pfam00395 485916006931 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006932 AAA domain; Region: AAA_21; pfam13304 485916006933 Walker A/P-loop; other site 485916006934 ATP binding site [chemical binding]; other site 485916006935 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006936 ABC transporter signature motif; other site 485916006937 Walker B; other site 485916006938 D-loop; other site 485916006939 H-loop/switch region; other site 485916006940 Protein of unknown function (DUF2408); Region: DUF2408; pfam10303 485916006941 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916006942 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916006943 Probable transposase; Region: OrfB_IS605; pfam01385 485916006944 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916006945 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 485916006946 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485916006947 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 485916006948 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 485916006949 active site residue [active] 485916006950 elongation factor P; Validated; Region: PRK00529 485916006951 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 485916006952 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 485916006953 RNA binding site [nucleotide binding]; other site 485916006954 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 485916006955 RNA binding site [nucleotide binding]; other site 485916006956 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 485916006957 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 485916006958 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 485916006959 active site 485916006960 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 485916006961 trimer interface [polypeptide binding]; other site 485916006962 active site 485916006963 dimer interface [polypeptide binding]; other site 485916006964 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 485916006965 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 485916006966 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 485916006967 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 485916006968 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 485916006969 Pilus assembly protein, PilO; Region: PilO; cl01234 485916006970 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916006971 Walker A/P-loop; other site 485916006972 ATP binding site [chemical binding]; other site 485916006973 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 485916006974 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 485916006975 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 485916006976 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 485916006977 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 485916006978 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 485916006979 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 485916006980 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 485916006981 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 485916006982 Spore germination protein; Region: Spore_permease; cl15802 485916006983 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 485916006984 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 485916006985 trimerization site [polypeptide binding]; other site 485916006986 active site 485916006987 Flavin Reductases; Region: FlaRed; cl00801 485916006988 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 485916006989 Rubredoxin; Region: Rubredoxin; pfam00301 485916006990 iron binding site [ion binding]; other site 485916006991 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 485916006992 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 485916006993 non-heme iron binding site [ion binding]; other site 485916006994 dimer interface [polypeptide binding]; other site 485916006995 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 485916006996 non-heme iron binding site [ion binding]; other site 485916006997 dimer interface [polypeptide binding]; other site 485916006998 Rubrerythrin [Energy production and conversion]; Region: COG1592 485916006999 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 485916007000 binuclear metal center [ion binding]; other site 485916007001 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 485916007002 iron binding site [ion binding]; other site 485916007003 Coat F domain; Region: Coat_F; cl15836 485916007004 CrcB-like protein; Region: CRCB; cl09114 485916007005 CrcB-like protein; Region: CRCB; cl09114 485916007006 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 485916007007 Ligand Binding Site [chemical binding]; other site 485916007008 Family description; Region: VCBS; pfam13517 485916007009 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 485916007010 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916007011 metal binding site [ion binding]; metal-binding site 485916007012 active site 485916007013 I-site; other site 485916007014 phosphoenolpyruvate synthase; Validated; Region: PRK06241 485916007015 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 485916007016 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 485916007017 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916007018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916007019 active site 485916007020 phosphorylation site [posttranslational modification] 485916007021 intermolecular recognition site; other site 485916007022 dimerization interface [polypeptide binding]; other site 485916007023 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 485916007024 DNA binding site [nucleotide binding] 485916007025 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 485916007026 dimerization interface [polypeptide binding]; other site 485916007027 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 485916007028 dimer interface [polypeptide binding]; other site 485916007029 phosphorylation site [posttranslational modification] 485916007030 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916007031 ATP binding site [chemical binding]; other site 485916007032 Mg2+ binding site [ion binding]; other site 485916007033 G-X-G motif; other site 485916007034 Ferredoxin [Energy production and conversion]; Region: COG1146 485916007035 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916007036 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916007037 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 485916007038 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 485916007039 Walker A/P-loop; other site 485916007040 ATP binding site [chemical binding]; other site 485916007041 Q-loop/lid; other site 485916007042 ABC transporter signature motif; other site 485916007043 Walker B; other site 485916007044 D-loop; other site 485916007045 H-loop/switch region; other site 485916007046 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916007047 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 485916007048 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916007049 Walker A/P-loop; other site 485916007050 ATP binding site [chemical binding]; other site 485916007051 Q-loop/lid; other site 485916007052 ABC transporter signature motif; other site 485916007053 Walker B; other site 485916007054 D-loop; other site 485916007055 H-loop/switch region; other site 485916007056 Transcriptional regulators [Transcription]; Region: MarR; COG1846 485916007057 Helix-turn-helix domains; Region: HTH; cl00088 485916007058 Chromate transporter; Region: Chromate_transp; pfam02417 485916007059 Transcriptional regulators [Transcription]; Region: GntR; COG1802 485916007060 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 485916007061 DNA-binding site [nucleotide binding]; DNA binding site 485916007062 FCD domain; Region: FCD; cl11656 485916007063 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 485916007064 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 485916007065 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; cl09108 485916007066 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 monomeric; Region: PRAI; cd00405 485916007067 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 485916007068 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 485916007069 putative NAD(P) binding site [chemical binding]; other site 485916007070 catalytic Zn binding site [ion binding]; other site 485916007071 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 485916007072 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 485916007073 putative active site; other site 485916007074 catalytic residue [active] 485916007075 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 485916007076 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916007077 dimer interface [polypeptide binding]; other site 485916007078 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 485916007079 putative CheW interface [polypeptide binding]; other site 485916007080 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 485916007081 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 485916007082 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 485916007083 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 485916007084 Walker A motif; other site 485916007085 ATP binding site [chemical binding]; other site 485916007086 Walker B motif; other site 485916007087 shikimate kinase; Provisional; Region: PRK13947 485916007088 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 485916007089 ADP binding site [chemical binding]; other site 485916007090 magnesium binding site [ion binding]; other site 485916007091 putative shikimate binding site; other site 485916007092 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 485916007093 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 485916007094 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 485916007095 shikimate binding site; other site 485916007096 NAD(P) binding site [chemical binding]; other site 485916007097 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 485916007098 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 485916007099 active site 485916007100 motif I; other site 485916007101 motif II; other site 485916007102 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 485916007103 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 485916007104 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485916007105 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 485916007106 ligand binding site [chemical binding]; other site 485916007107 flexible hinge region; other site 485916007108 Helix-turn-helix domains; Region: HTH; cl00088 485916007109 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 485916007110 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 485916007111 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 485916007112 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 485916007113 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 485916007114 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 485916007115 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916007116 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916007117 Probable transposase; Region: OrfB_IS605; pfam01385 485916007118 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916007119 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485916007120 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916007121 active site 485916007122 phosphorylation site [posttranslational modification] 485916007123 intermolecular recognition site; other site 485916007124 dimerization interface [polypeptide binding]; other site 485916007125 LytTr DNA-binding domain; Region: LytTR; cl04498 485916007126 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 485916007127 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916007128 ATP binding site [chemical binding]; other site 485916007129 Mg2+ binding site [ion binding]; other site 485916007130 G-X-G motif; other site 485916007131 DNA polymerase IV; Reviewed; Region: PRK03103 485916007132 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 485916007133 active site 485916007134 DNA binding site [nucleotide binding] 485916007135 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 485916007136 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 485916007137 active site 485916007138 catalytic tetrad [active] 485916007139 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916007140 Helix-turn-helix domains; Region: HTH; cl00088 485916007141 Isochorismatase family; Region: Isochorismatase; pfam00857 485916007142 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 485916007143 catalytic triad [active] 485916007144 conserved cis-peptide bond; other site 485916007145 drug efflux system protein MdtG; Provisional; Region: PRK09874 485916007146 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 485916007147 putative substrate translocation pore; other site 485916007148 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 monomeric; Region: PRAI; cd00405 485916007149 active site 485916007150 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 485916007151 active site 485916007152 ribulose/triose binding site [chemical binding]; other site 485916007153 phosphate binding site [ion binding]; other site 485916007154 substrate (anthranilate) binding pocket [chemical binding]; other site 485916007155 product (indole) binding pocket [chemical binding]; other site 485916007156 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 485916007157 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 485916007158 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 485916007159 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 485916007160 DNA binding residues [nucleotide binding] 485916007161 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 485916007162 catalytic residues [active] 485916007163 catalytic nucleophile [active] 485916007164 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 485916007165 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 485916007166 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916007167 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 485916007168 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916007169 Family description; Region: UvrD_C_2; cl15862 485916007170 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 485916007171 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916007172 Helix-turn-helix domains; Region: HTH; cl00088 485916007173 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 485916007174 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 485916007175 ABC transporter; Region: ABC_tran_2; pfam12848 485916007176 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 485916007177 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916007178 Helix-turn-helix domains; Region: HTH; cl00088 485916007179 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916007180 Helix-turn-helix domains; Region: HTH; cl00088 485916007181 sporulation sigma factor SigK; Reviewed; Region: PRK05803 485916007182 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916007183 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 485916007184 DNA binding residues [nucleotide binding] 485916007185 Isochorismatase family; Region: Isochorismatase; pfam00857 485916007186 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 485916007187 catalytic triad [active] 485916007188 conserved cis-peptide bond; other site 485916007189 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 485916007190 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 485916007191 Spore germination protein; Region: Spore_permease; cl15802 485916007192 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 485916007193 4Fe-4S binding domain; Region: Fer4; cl02805 485916007194 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 485916007195 4Fe-4S binding domain; Region: Fer4; cl02805 485916007196 FOG: CBS domain [General function prediction only]; Region: COG0517 485916007197 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 485916007198 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 485916007199 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 485916007200 dimer interface [polypeptide binding]; other site 485916007201 decamer (pentamer of dimers) interface [polypeptide binding]; other site 485916007202 catalytic triad [active] 485916007203 peroxidatic and resolving cysteines [active] 485916007204 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 485916007205 ABC-2 type transporter; Region: ABC2_membrane; cl11417 485916007206 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 485916007207 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916007208 Walker A/P-loop; other site 485916007209 ATP binding site [chemical binding]; other site 485916007210 Q-loop/lid; other site 485916007211 ABC transporter signature motif; other site 485916007212 Walker B; other site 485916007213 D-loop; other site 485916007214 H-loop/switch region; other site 485916007215 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916007216 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 485916007217 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916007218 agmatine deiminase; Region: agmatine_aguA; TIGR03380 485916007219 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 485916007220 manganese transport transcriptional regulator; Provisional; Region: PRK03902 485916007221 Helix-turn-helix domains; Region: HTH; cl00088 485916007222 Cache domain; Region: Cache_1; pfam02743 485916007223 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 485916007224 PAS domain S-box; Region: sensory_box; TIGR00229 485916007225 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 485916007226 putative active site [active] 485916007227 heme pocket [chemical binding]; other site 485916007228 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 485916007229 PAS fold; Region: PAS_3; pfam08447 485916007230 putative active site [active] 485916007231 heme pocket [chemical binding]; other site 485916007232 GAF domain; Region: GAF_2; pfam13185 485916007233 GAF domain; Region: GAF; cl15785 485916007234 GAF domain; Region: GAF_2; pfam13185 485916007235 GAF domain; Region: GAF; cl15785 485916007236 GAF domain; Region: GAF_2; pfam13185 485916007237 GAF domain; Region: GAF; cl15785 485916007238 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916007239 Zn2+ binding site [ion binding]; other site 485916007240 Mg2+ binding site [ion binding]; other site 485916007241 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 485916007242 Domain of unknown function (DUF4247); Region: DUF4247; pfam14042 485916007243 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 485916007244 putative active site pocket [active] 485916007245 dimerization interface [polypeptide binding]; other site 485916007246 putative catalytic residue [active] 485916007247 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 485916007248 S-adenosylmethionine binding site [chemical binding]; other site 485916007249 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 485916007250 putative substrate translocation pore; other site 485916007251 Transglycosylase; Region: Transgly; cl07896 485916007252 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 485916007253 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 485916007254 Foamy virus envelope protein; Region: Foamy_virus_ENV; pfam03408 485916007255 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 485916007256 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 485916007257 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 485916007258 S-adenosylmethionine binding site [chemical binding]; other site 485916007259 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 485916007260 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 485916007261 Protein of unknown function (DUF3798); Region: DUF3798; pfam12683 485916007262 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 485916007263 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916007264 Walker A/P-loop; other site 485916007265 ATP binding site [chemical binding]; other site 485916007266 Q-loop/lid; other site 485916007267 ABC transporter signature motif; other site 485916007268 Walker B; other site 485916007269 D-loop; other site 485916007270 H-loop/switch region; other site 485916007271 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 485916007272 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 485916007273 TM-ABC transporter signature motif; other site 485916007274 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 485916007275 TM-ABC transporter signature motif; other site 485916007276 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 485916007277 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 485916007278 catalytic triad [active] 485916007279 conserved cis-peptide bond; other site 485916007280 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916007281 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916007282 active site 485916007283 metal binding site [ion binding]; metal-binding site 485916007284 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 485916007285 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 485916007286 Probable Catalytic site; other site 485916007287 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 485916007288 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 485916007289 inhibitor-cofactor binding pocket; inhibition site 485916007290 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916007291 catalytic residue [active] 485916007292 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 485916007293 metal-binding site 485916007294 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 485916007295 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916007296 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 485916007297 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 485916007298 NADP-binding site; other site 485916007299 homotetramer interface [polypeptide binding]; other site 485916007300 substrate binding site [chemical binding]; other site 485916007301 homodimer interface [polypeptide binding]; other site 485916007302 active site 485916007303 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 485916007304 S-adenosylmethionine binding site [chemical binding]; other site 485916007305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916007306 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 485916007307 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 485916007308 NADP binding site [chemical binding]; other site 485916007309 active site 485916007310 putative substrate binding site [chemical binding]; other site 485916007311 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 485916007312 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 485916007313 NADP-binding site; other site 485916007314 homotetramer interface [polypeptide binding]; other site 485916007315 substrate binding site [chemical binding]; other site 485916007316 homodimer interface [polypeptide binding]; other site 485916007317 active site 485916007318 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 485916007319 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 485916007320 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 485916007321 Substrate binding site; other site 485916007322 Cupin domain; Region: Cupin_2; cl09118 485916007323 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 485916007324 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485916007325 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 485916007326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916007327 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 485916007328 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 485916007329 active site 485916007330 Right handed beta helix region; Region: Beta_helix; pfam13229 485916007331 Right handed beta helix region; Region: Beta_helix; pfam13229 485916007332 Right handed beta helix region; Region: Beta_helix; pfam13229 485916007333 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 485916007334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916007335 NAD(P) binding site [chemical binding]; other site 485916007336 active site 485916007337 Bacterial sugar transferase; Region: Bac_transf; cl00939 485916007338 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 485916007339 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 485916007340 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916007341 putative ADP-binding pocket [chemical binding]; other site 485916007342 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 485916007343 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 485916007344 NAD binding site [chemical binding]; other site 485916007345 substrate binding site [chemical binding]; other site 485916007346 homodimer interface [polypeptide binding]; other site 485916007347 active site 485916007348 Chain length determinant protein; Region: Wzz; cl15801 485916007349 Bacterial SH3 domain; Region: SH3_3; cl02551 485916007350 Bacterial SH3 domain; Region: SH3_3; cl02551 485916007351 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 485916007352 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 485916007353 active site residue [active] 485916007354 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 485916007355 active site residue [active] 485916007356 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 485916007357 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 485916007358 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 485916007359 substrate binding site; other site 485916007360 metal-binding site 485916007361 Oligomer interface; other site 485916007362 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 485916007363 putative trimer interface [polypeptide binding]; other site 485916007364 putative CoA binding site [chemical binding]; other site 485916007365 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 485916007366 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 485916007367 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 485916007368 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 485916007369 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916007370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916007371 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 485916007372 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 485916007373 NAD(P) binding site [chemical binding]; other site 485916007374 homodimer interface [polypeptide binding]; other site 485916007375 substrate binding site [chemical binding]; other site 485916007376 active site 485916007377 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 485916007378 active site 485916007379 oxyanion hole [active] 485916007380 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 485916007381 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 485916007382 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 485916007383 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 485916007384 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916007385 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916007386 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; cl04143 485916007387 Hint domain; Region: Hint_2; pfam13403 485916007388 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 485916007389 thioester formation/cholesterol transfer; other site 485916007390 protein-splicing catalytic site; other site 485916007391 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 485916007392 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 485916007393 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485916007394 catalytic residue [active] 485916007395 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916007396 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916007397 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916007398 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485916007399 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 485916007400 FtsX-like permease family; Region: FtsX; cl15850 485916007401 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485916007402 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 485916007403 Walker A/P-loop; other site 485916007404 ATP binding site [chemical binding]; other site 485916007405 Q-loop/lid; other site 485916007406 ABC transporter signature motif; other site 485916007407 Walker B; other site 485916007408 D-loop; other site 485916007409 H-loop/switch region; other site 485916007410 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 485916007411 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 485916007412 catalytic triad [active] 485916007413 Protein of unknown function DUF89; Region: DUF89; cl15397 485916007414 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 485916007415 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 485916007416 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 485916007417 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 485916007418 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916007419 Coenzyme A binding pocket [chemical binding]; other site 485916007420 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916007421 Probable transposase; Region: OrfB_IS605; pfam01385 485916007422 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916007423 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916007424 Protein of unknown function (DUF456); Region: DUF456; cl01069 485916007425 Cupin domain; Region: Cupin_2; cl09118 485916007426 Helix-turn-helix domain; Region: HTH_18; pfam12833 485916007427 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485916007428 Phage Tail Collar Domain; Region: Collar; pfam07484 485916007429 Phage Tail Collar Domain; Region: Collar; pfam07484 485916007430 Phage Tail Collar Domain; Region: Collar; pfam07484 485916007431 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 485916007432 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916007433 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916007434 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 485916007435 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 485916007436 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916007437 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 485916007438 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 485916007439 active site 485916007440 metal-binding site [ion binding] 485916007441 nucleotide-binding site [chemical binding]; other site 485916007442 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 485916007443 Catalytic site [active] 485916007444 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 485916007445 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 485916007446 non-specific DNA binding site [nucleotide binding]; other site 485916007447 salt bridge; other site 485916007448 sequence-specific DNA binding site [nucleotide binding]; other site 485916007449 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 485916007450 Helix-turn-helix domains; Region: HTH; cl00088 485916007451 Winged helix-turn helix; Region: HTH_29; pfam13551 485916007452 Winged helix-turn helix; Region: HTH_33; pfam13592 485916007453 Integrase core domain; Region: rve; cl01316 485916007454 RHS Repeat; Region: RHS_repeat; cl11982 485916007455 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 485916007456 RHS Repeat; Region: RHS_repeat; cl11982 485916007457 RHS Repeat; Region: RHS_repeat; cl11982 485916007458 RHS Repeat; Region: RHS_repeat; cl11982 485916007459 RHS Repeat; Region: RHS_repeat; cl11982 485916007460 RHS Repeat; Region: RHS_repeat; cl11982 485916007461 RHS Repeat; Region: RHS_repeat; cl11982 485916007462 RHS Repeat; Region: RHS_repeat; cl11982 485916007463 RHS Repeat; Region: RHS_repeat; cl11982 485916007464 RHS Repeat; Region: RHS_repeat; cl11982 485916007465 RHS Repeat; Region: RHS_repeat; cl11982 485916007466 RHS Repeat; Region: RHS_repeat; cl11982 485916007467 RHS Repeat; Region: RHS_repeat; cl11982 485916007468 RHS Repeat; Region: RHS_repeat; cl11982 485916007469 RHS Repeat; Region: RHS_repeat; cl11982 485916007470 RHS Repeat; Region: RHS_repeat; cl11982 485916007471 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916007472 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 485916007473 PrcB C-terminal; Region: PrcB_C; pfam14343 485916007474 Helix-turn-helix domains; Region: HTH; cl00088 485916007475 Winged helix-turn helix; Region: HTH_29; pfam13551 485916007476 Winged helix-turn helix; Region: HTH_33; pfam13592 485916007477 Integrase core domain; Region: rve; cl01316 485916007478 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 485916007479 dimerization interface [polypeptide binding]; other site 485916007480 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 485916007481 dimer interface [polypeptide binding]; other site 485916007482 phosphorylation site [posttranslational modification] 485916007483 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916007484 ATP binding site [chemical binding]; other site 485916007485 Mg2+ binding site [ion binding]; other site 485916007486 G-X-G motif; other site 485916007487 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916007488 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916007489 active site 485916007490 phosphorylation site [posttranslational modification] 485916007491 intermolecular recognition site; other site 485916007492 dimerization interface [polypeptide binding]; other site 485916007493 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 485916007494 DNA binding site [nucleotide binding] 485916007495 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 485916007496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 485916007497 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485916007498 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 485916007499 FtsX-like permease family; Region: FtsX; cl15850 485916007500 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485916007501 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 485916007502 Walker A/P-loop; other site 485916007503 ATP binding site [chemical binding]; other site 485916007504 Q-loop/lid; other site 485916007505 ABC transporter signature motif; other site 485916007506 Walker B; other site 485916007507 D-loop; other site 485916007508 H-loop/switch region; other site 485916007509 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916007510 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916007511 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 485916007512 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 485916007513 Protein of unknown function (DUF1847); Region: DUF1847; cl02037 485916007514 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 485916007515 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 485916007516 ligand binding site [chemical binding]; other site 485916007517 flexible hinge region; other site 485916007518 Helix-turn-helix domains; Region: HTH; cl00088 485916007519 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 485916007520 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916007521 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485916007522 ATP-grasp domain; Region: ATP-grasp_4; cl03087 485916007523 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 485916007524 ATP-grasp domain; Region: ATP-grasp_4; cl03087 485916007525 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 485916007526 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 485916007527 FeS/SAM binding site; other site 485916007528 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 485916007529 Rrf2 family protein; Region: rrf2_super; TIGR00738 485916007530 Helix-turn-helix domains; Region: HTH; cl00088 485916007531 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 485916007532 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 485916007533 ACS interaction site; other site 485916007534 CODH interaction site; other site 485916007535 metal cluster binding site [ion binding]; other site 485916007536 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 485916007537 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 485916007538 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 485916007539 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 485916007540 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 485916007541 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 485916007542 Walker A motif; other site 485916007543 ATP binding site [chemical binding]; other site 485916007544 Walker B motif; other site 485916007545 arginine finger; other site 485916007546 oligosaccharide amylase; Region: oligosac_amyl; TIGR01577 485916007547 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 485916007548 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 485916007549 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 485916007550 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 485916007551 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 485916007552 substrate binding pocket [chemical binding]; other site 485916007553 dimer interface [polypeptide binding]; other site 485916007554 inhibitor binding site; inhibition site 485916007555 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 485916007556 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 485916007557 B12 binding site [chemical binding]; other site 485916007558 cobalt ligand [ion binding]; other site 485916007559 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916007560 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 485916007561 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 485916007562 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 485916007563 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 485916007564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916007565 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 485916007566 Spore germination protein; Region: Spore_permease; cl15802 485916007567 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 485916007568 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 485916007569 MPT binding site; other site 485916007570 trimer interface [polypeptide binding]; other site 485916007571 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 485916007572 trimer interface [polypeptide binding]; other site 485916007573 dimer interface [polypeptide binding]; other site 485916007574 putative active site [active] 485916007575 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 485916007576 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 485916007577 FeS/SAM binding site; other site 485916007578 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 485916007579 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 485916007580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916007581 active site 485916007582 phosphorylation site [posttranslational modification] 485916007583 intermolecular recognition site; other site 485916007584 dimerization interface [polypeptide binding]; other site 485916007585 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 485916007586 Walker A motif; other site 485916007587 ATP binding site [chemical binding]; other site 485916007588 Walker B motif; other site 485916007589 arginine finger; other site 485916007590 Helix-turn-helix domains; Region: HTH; cl00088 485916007591 GAF domain; Region: GAF_2; pfam13185 485916007592 GAF domain; Region: GAF; cl15785 485916007593 PAS fold; Region: PAS_4; pfam08448 485916007594 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 485916007595 dimer interface [polypeptide binding]; other site 485916007596 phosphorylation site [posttranslational modification] 485916007597 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916007598 ATP binding site [chemical binding]; other site 485916007599 Mg2+ binding site [ion binding]; other site 485916007600 G-X-G motif; other site 485916007601 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 485916007602 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 485916007603 putative active site [active] 485916007604 metal binding site [ion binding]; metal-binding site 485916007605 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 485916007606 putative alcohol dehydrogenase; Provisional; Region: PRK09860 485916007607 dimer interface [polypeptide binding]; other site 485916007608 active site 485916007609 metal binding site [ion binding]; metal-binding site 485916007610 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 protein; Region: CSP_CDS; cd04458 485916007611 DNA-binding site [nucleotide binding]; DNA binding site 485916007612 RNA-binding motif; other site 485916007613 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916007614 putative peptidoglycan binding site; other site 485916007615 NlpC/P60 family; Region: NLPC_P60; cl11438 485916007616 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 485916007617 catalytic residues [active] 485916007618 catalytic nucleophile [active] 485916007619 Recombinase; Region: Recombinase; pfam07508 485916007620 phosphodiesterase; Provisional; Region: PRK12704 485916007621 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 485916007622 Predicted ATPase [General function prediction only]; Region: COG4637 485916007623 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916007624 CRISPR-associated protein (Cas_Cas02710); Region: Cas_Cas02710; pfam09670 485916007625 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 485916007626 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 485916007627 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 485916007628 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 485916007629 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 485916007630 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 485916007631 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cl01317 485916007632 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 485916007633 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 485916007634 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 485916007635 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 485916007636 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 485916007637 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 485916007638 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09732 485916007639 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 485916007640 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cl01317 485916007641 Domain of unknown function (DUF697); Region: DUF697; cl12064 485916007642 Predicted transcriptional regulator [Transcription]; Region: COG2378 485916007643 WYL domain; Region: WYL; cl14852 485916007644 Helix-turn-helix domains; Region: HTH; cl00088 485916007645 WYL domain; Region: WYL; cl14852 485916007646 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 485916007647 putative active site [active] 485916007648 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916007649 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916007650 putative metal binding site [ion binding]; other site 485916007651 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 485916007652 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 485916007653 substrate binding site [chemical binding]; other site 485916007654 activation loop (A-loop); other site 485916007655 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; cl00120 485916007656 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 485916007657 metal ion-dependent adhesion site (MIDAS); other site 485916007658 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916007659 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916007660 putative metal binding site [ion binding]; other site 485916007661 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 485916007662 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916007663 putative metal binding site [ion binding]; other site 485916007664 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916007665 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916007666 putative metal binding site [ion binding]; other site 485916007667 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 485916007668 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 485916007669 FeS/SAM binding site; other site 485916007670 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 485916007671 Peptidase family M48; Region: Peptidase_M48; cl12018 485916007672 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 485916007673 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 485916007674 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 485916007675 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 485916007676 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 485916007677 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 485916007678 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 485916007679 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916007680 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 485916007681 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 485916007682 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 485916007683 Response regulator receiver domain; Region: Response_reg; pfam00072 485916007684 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916007685 active site 485916007686 phosphorylation site [posttranslational modification] 485916007687 intermolecular recognition site; other site 485916007688 dimerization interface [polypeptide binding]; other site 485916007689 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 485916007690 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 485916007691 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 485916007692 putative active site [active] 485916007693 heme pocket [chemical binding]; other site 485916007694 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 485916007695 dimer interface [polypeptide binding]; other site 485916007696 phosphorylation site [posttranslational modification] 485916007697 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916007698 ATP binding site [chemical binding]; other site 485916007699 Mg2+ binding site [ion binding]; other site 485916007700 G-X-G motif; other site 485916007701 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 485916007702 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 485916007703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916007704 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 485916007705 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 485916007706 GAF domain; Region: GAF_2; pfam13185 485916007707 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 485916007708 dimer interface [polypeptide binding]; other site 485916007709 phosphorylation site [posttranslational modification] 485916007710 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916007711 ATP binding site [chemical binding]; other site 485916007712 Mg2+ binding site [ion binding]; other site 485916007713 G-X-G motif; other site 485916007714 Response regulator receiver domain; Region: Response_reg; pfam00072 485916007715 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916007716 active site 485916007717 phosphorylation site [posttranslational modification] 485916007718 intermolecular recognition site; other site 485916007719 dimerization interface [polypeptide binding]; other site 485916007720 CotJB protein; Region: CotJB; pfam12652 485916007721 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 485916007722 Fic/DOC family; Region: Fic; cl00960 485916007723 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 485916007724 tetramer interfaces [polypeptide binding]; other site 485916007725 binuclear metal-binding site [ion binding]; other site 485916007726 Gas vesicle protein; Region: Gas_vesicle; cl02954 485916007727 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 485916007728 Sm1 motif; other site 485916007729 D3 - B interaction site; other site 485916007730 D1 - D2 interaction site; other site 485916007731 Hfq - Hfq interaction site; other site 485916007732 RNA binding pocket [nucleotide binding]; other site 485916007733 Sm2 motif; other site 485916007734 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 485916007735 non-specific DNA binding site [nucleotide binding]; other site 485916007736 salt bridge; other site 485916007737 sequence-specific DNA binding site [nucleotide binding]; other site 485916007738 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 485916007739 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 485916007740 Cell division protein 48 (CDC48), domain 2; Region: CDC48_2; cl08380 485916007741 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 485916007742 Walker A motif; other site 485916007743 ATP binding site [chemical binding]; other site 485916007744 Walker B motif; other site 485916007745 arginine finger; other site 485916007746 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 485916007747 Walker A motif; other site 485916007748 ATP binding site [chemical binding]; other site 485916007749 Walker B motif; other site 485916007750 arginine finger; other site 485916007751 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 485916007752 putative dimer interface [polypeptide binding]; other site 485916007753 Gas vesicle protein; Region: Gas_vesicle; cl02954 485916007754 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 485916007755 Gas vesicle protein K; Region: GvpK; pfam05121 485916007756 Gas vesicle protein; Region: Gas_vesicle; cl02954 485916007757 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 485916007758 Gas vesicle protein G; Region: GvpG; pfam05120 485916007759 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 485916007760 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 485916007761 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 485916007762 HSP70 interaction site [polypeptide binding]; other site 485916007763 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 485916007764 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916007765 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 485916007766 Putative zinc ribbon domain; Region: DUF164; pfam02591 485916007767 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 485916007768 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 485916007769 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 485916007770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916007771 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 485916007772 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 485916007773 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 485916007774 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916007775 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 485916007776 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 485916007777 DNA binding residues [nucleotide binding] 485916007778 DNA primase, catalytic core; Region: dnaG; TIGR01391 485916007779 CHC2 zinc finger; Region: zf-CHC2; cl15369 485916007780 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 485916007781 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 485916007782 active site 485916007783 metal binding site [ion binding]; metal-binding site 485916007784 interdomain interaction site; other site 485916007785 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 485916007786 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916007787 Zn2+ binding site [ion binding]; other site 485916007788 Mg2+ binding site [ion binding]; other site 485916007789 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 485916007790 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 485916007791 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 485916007792 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 485916007793 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 485916007794 Protein of unknown function (DUF1462); Region: DUF1462; cl11552 485916007795 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 485916007796 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 485916007797 pyruvate phosphate dikinase; Provisional; Region: PRK09279 485916007798 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 485916007799 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 485916007800 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 485916007801 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; cl09155 485916007802 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 485916007803 Helix-turn-helix domains; Region: HTH; cl00088 485916007804 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 485916007805 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 485916007806 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 485916007807 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 485916007808 dimer interface [polypeptide binding]; other site 485916007809 motif 1; other site 485916007810 active site 485916007811 motif 2; other site 485916007812 motif 3; other site 485916007813 nascent polypeptide-associated complex protein; Reviewed; Region: nac; PRK06369 485916007814 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 485916007815 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 485916007816 putative active site [active] 485916007817 putative metal binding site [ion binding]; other site 485916007818 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916007819 Helix-turn-helix domains; Region: HTH; cl00088 485916007820 Predicted NADH:ubiquinone oxidoreductase, subunit RnfB [Energy production and conversion]; Region: COG2878 485916007821 Putative Fe-S cluster; Region: FeS; pfam04060 485916007822 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916007823 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 485916007824 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 485916007825 dimerization interface [polypeptide binding]; other site 485916007826 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 485916007827 dimer interface [polypeptide binding]; other site 485916007828 phosphorylation site [posttranslational modification] 485916007829 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916007830 ATP binding site [chemical binding]; other site 485916007831 Mg2+ binding site [ion binding]; other site 485916007832 G-X-G motif; other site 485916007833 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 485916007834 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916007835 active site 485916007836 phosphorylation site [posttranslational modification] 485916007837 intermolecular recognition site; other site 485916007838 dimerization interface [polypeptide binding]; other site 485916007839 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 485916007840 DNA binding site [nucleotide binding] 485916007841 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 485916007842 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 485916007843 phosphoenolpyruvate synthase; Validated; Region: PRK06241 485916007844 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 485916007845 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 485916007846 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916007847 Helix-turn-helix domains; Region: HTH; cl00088 485916007848 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 485916007849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 485916007850 Helix-turn-helix domains; Region: HTH; cl00088 485916007851 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 485916007852 dimerization interface [polypeptide binding]; other site 485916007853 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 485916007854 putative active site [active] 485916007855 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 485916007856 Recombination protein O N terminal; Region: RecO_N; cl15812 485916007857 Recombination protein O C terminal; Region: RecO_C; pfam02565 485916007858 aromatic acid decarboxylase; Validated; Region: PRK05920 485916007859 Flavoprotein; Region: Flavoprotein; cl08021 485916007860 Probable zinc-binding domain; Region: zf-trcl; pfam13451 485916007861 Domain of unknown function (DUF296); Region: DUF296; cl00720 485916007862 GTPase Era; Reviewed; Region: era; PRK00089 485916007863 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 485916007864 G1 box; other site 485916007865 GTP/Mg2+ binding site [chemical binding]; other site 485916007866 Switch I region; other site 485916007867 G2 box; other site 485916007868 Switch II region; other site 485916007869 G3 box; other site 485916007870 G4 box; other site 485916007871 G5 box; other site 485916007872 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 485916007873 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 485916007874 active site 485916007875 catalytic motif [active] 485916007876 Zn binding site [ion binding]; other site 485916007877 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 485916007878 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 485916007879 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 485916007880 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916007881 Zn2+ binding site [ion binding]; other site 485916007882 Mg2+ binding site [ion binding]; other site 485916007883 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 485916007884 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916007885 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 485916007886 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 485916007887 YabP family; Region: YabP; cl06766 485916007888 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 485916007889 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 485916007890 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 485916007891 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485916007892 catalytic residue [active] 485916007893 selenophosphate synthetase; Provisional; Region: PRK00943 485916007894 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 485916007895 dimerization interface [polypeptide binding]; other site 485916007896 putative ATP binding site [chemical binding]; other site 485916007897 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 485916007898 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 485916007899 CPxP motif; other site 485916007900 DsrE/DsrF-like family; Region: DrsE; cl00672 485916007901 Accessory gene regulator B; Region: AgrB; cl01873 485916007902 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 485916007903 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 485916007904 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 485916007905 putative active site [active] 485916007906 heme pocket [chemical binding]; other site 485916007907 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 485916007908 dimer interface [polypeptide binding]; other site 485916007909 phosphorylation site [posttranslational modification] 485916007910 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916007911 ATP binding site [chemical binding]; other site 485916007912 Mg2+ binding site [ion binding]; other site 485916007913 G-X-G motif; other site 485916007914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916007915 metal binding site [ion binding]; metal-binding site 485916007916 active site 485916007917 I-site; other site 485916007918 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916007919 Zn2+ binding site [ion binding]; other site 485916007920 Mg2+ binding site [ion binding]; other site 485916007921 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 485916007922 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 485916007923 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 485916007924 dimerization interface [polypeptide binding]; other site 485916007925 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 485916007926 dimer interface [polypeptide binding]; other site 485916007927 phosphorylation site [posttranslational modification] 485916007928 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916007929 ATP binding site [chemical binding]; other site 485916007930 Mg2+ binding site [ion binding]; other site 485916007931 G-X-G motif; other site 485916007932 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916007933 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916007934 active site 485916007935 phosphorylation site [posttranslational modification] 485916007936 intermolecular recognition site; other site 485916007937 dimerization interface [polypeptide binding]; other site 485916007938 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 485916007939 DNA binding site [nucleotide binding] 485916007940 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 485916007941 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 485916007942 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; cl09108 485916007943 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 key...; Region: CBS_pair_IMPDH; cd04601 485916007944 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 the guanine...; Region: IMPDH; cd00381 485916007945 active site 485916007946 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 485916007947 catalytic core [active] 485916007948 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 485916007949 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 485916007950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916007951 homodimer interface [polypeptide binding]; other site 485916007952 catalytic residue [active] 485916007953 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 485916007954 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 485916007955 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 485916007956 catalytic triad [active] 485916007957 CobD/Cbib protein; Region: CobD_Cbib; cl00561 485916007958 cobyric acid synthase; Provisional; Region: PRK00784 485916007959 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916007960 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916007961 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 485916007962 catalytic triad [active] 485916007963 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 485916007964 homotrimer interface [polypeptide binding]; other site 485916007965 Walker A motif; other site 485916007966 GTP binding site [chemical binding]; other site 485916007967 Walker B motif; other site 485916007968 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 485916007969 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 485916007970 active site 485916007971 dimer interface [polypeptide binding]; other site 485916007972 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 485916007973 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 485916007974 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916007975 putative active site [active] 485916007976 metal binding site [ion binding]; metal-binding site 485916007977 homodimer binding site [polypeptide binding]; other site 485916007978 phosphodiesterase; Provisional; Region: PRK12704 485916007979 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916007980 Zn2+ binding site [ion binding]; other site 485916007981 Mg2+ binding site [ion binding]; other site 485916007982 RecX family; Region: RecX; cl00936 485916007983 recombinase A; Provisional; Region: recA; PRK09354 485916007984 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 485916007985 hexamer interface [polypeptide binding]; other site 485916007986 Walker A motif; other site 485916007987 ATP binding site [chemical binding]; other site 485916007988 Walker B motif; other site 485916007989 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 485916007990 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 485916007991 ATP binding site [chemical binding]; other site 485916007992 Mg++ binding site [ion binding]; other site 485916007993 motif III; other site 485916007994 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 485916007995 nucleotide binding region [chemical binding]; other site 485916007996 ATP-binding site [chemical binding]; other site 485916007997 DbpA RNA binding domain; Region: DbpA; pfam03880 485916007998 competence damage-inducible protein A; Provisional; Region: PRK00549 485916007999 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 485916008000 putative MPT binding site; other site 485916008001 Competence-damaged protein; Region: CinA; cl00666 485916008002 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 485916008003 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 485916008004 Walker A motif; other site 485916008005 ATP binding site [chemical binding]; other site 485916008006 Walker B motif; other site 485916008007 arginine finger; other site 485916008008 Peptidase family M41; Region: Peptidase_M41; pfam01434 485916008009 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 485916008010 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 485916008011 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 485916008012 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 485916008013 FeS/SAM binding site; other site 485916008014 TRAM domain; Region: TRAM; cl01282 485916008015 Protein of unknown function (DUF520); Region: DUF520; cl00723 485916008016 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 485916008017 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916008018 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 485916008019 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 485916008020 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 485916008021 active site residue [active] 485916008022 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 485916008023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916008024 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 485916008025 Bacitracin resistance protein BacA; Region: BacA; cl00858 485916008026 YlzJ-like protein; Region: YlzJ; pfam14035 485916008027 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 485916008028 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 485916008029 transmembrane helices; other site 485916008030 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 485916008031 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 485916008032 transmembrane helices; other site 485916008033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916008034 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 485916008035 active site 485916008036 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 485916008037 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 485916008038 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 485916008039 active site 485916008040 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 485916008041 TPR motif; other site 485916008042 binding surface 485916008043 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 485916008044 active site 485916008045 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 485916008046 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 485916008047 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 485916008048 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 485916008049 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 485916008050 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 485916008051 FeS/SAM binding site; other site 485916008052 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916008053 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 485916008054 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 485916008055 maltose O-acetyltransferase; Provisional; Region: PRK10092 485916008056 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 485916008057 active site 485916008058 substrate binding site [chemical binding]; other site 485916008059 trimer interface [polypeptide binding]; other site 485916008060 CoA binding site [chemical binding]; other site 485916008061 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 485916008062 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 485916008063 H+ Antiporter protein; Region: 2A0121; TIGR00900 485916008064 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 485916008065 putative substrate translocation pore; other site 485916008066 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 485916008067 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 485916008068 active site 485916008069 homodimer interface [polypeptide binding]; other site 485916008070 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916008071 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 485916008072 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 485916008073 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916008074 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 485916008075 catalytic residues [active] 485916008076 catalytic nucleophile [active] 485916008077 Recombinase; Region: Recombinase; pfam07508 485916008078 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916008079 AAA domain; Region: AAA_27; pfam13514 485916008080 Maff2 family; Region: Maff2; pfam12750 485916008081 Predicted ATPase [General function prediction only]; Region: COG5293 485916008082 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 485916008083 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916008084 Walker B motif; other site 485916008085 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 485916008086 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 485916008087 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 485916008088 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 485916008089 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 485916008090 active site 485916008091 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 485916008092 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485916008093 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 485916008094 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 485916008095 dihydrodipicolinate synthase; Region: dapA; TIGR00674 485916008096 dimer interface [polypeptide binding]; other site 485916008097 active site 485916008098 catalytic residue [active] 485916008099 aspartate kinase I; Reviewed; Region: PRK08210 485916008100 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 485916008101 nucleotide binding site [chemical binding]; other site 485916008102 substrate binding site [chemical binding]; other site 485916008103 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 485916008104 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 485916008105 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 485916008106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916008107 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 485916008108 Flavoprotein; Region: Flavoprotein; cl08021 485916008109 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 485916008110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916008111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916008112 NAD(P) binding pocket [chemical binding]; other site 485916008113 dihydrodipicolinate reductase; Provisional; Region: PRK00048 485916008114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916008115 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 485916008116 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 485916008117 putative dimer interface [polypeptide binding]; other site 485916008118 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 485916008119 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 485916008120 active site 485916008121 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 485916008122 putative dimer interface [polypeptide binding]; other site 485916008123 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 485916008124 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 485916008125 trimer interface [polypeptide binding]; other site 485916008126 active site 485916008127 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 485916008128 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 485916008129 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 485916008130 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 485916008131 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 485916008132 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 485916008133 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 485916008134 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 485916008135 NodB motif; other site 485916008136 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 485916008137 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 485916008138 RNase E interface [polypeptide binding]; other site 485916008139 trimer interface [polypeptide binding]; other site 485916008140 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 485916008141 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 485916008142 RNase E interface [polypeptide binding]; other site 485916008143 trimer interface [polypeptide binding]; other site 485916008144 active site 485916008145 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 485916008146 putative nucleic acid binding region [nucleotide binding]; other site 485916008147 G-X-X-G motif; other site 485916008148 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 485916008149 RNA binding site [nucleotide binding]; other site 485916008150 domain interface; other site 485916008151 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 485916008152 16S/18S rRNA binding site [nucleotide binding]; other site 485916008153 S13e-L30e interaction site [polypeptide binding]; other site 485916008154 25S rRNA binding site [nucleotide binding]; other site 485916008155 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 485916008156 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 485916008157 active site 485916008158 Riboflavin kinase; Region: Flavokinase; cl03312 485916008159 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 485916008160 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 485916008161 RNA binding site [nucleotide binding]; other site 485916008162 active site 485916008163 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 485916008164 DHH family; Region: DHH; pfam01368 485916008165 DHHA1 domain; Region: DHHA1; pfam02272 485916008166 Ribosome-binding factor A; Region: RBFA; cl00542 485916008167 translation initiation factor IF-2; Validated; Region: infB; PRK05306 485916008168 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 485916008169 translation initiation factor IF-2; Region: IF-2; TIGR00487 485916008170 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 485916008171 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 485916008172 G1 box; other site 485916008173 putative GEF interaction site [polypeptide binding]; other site 485916008174 GTP/Mg2+ binding site [chemical binding]; other site 485916008175 Switch I region; other site 485916008176 G2 box; other site 485916008177 G3 box; other site 485916008178 Switch II region; other site 485916008179 G4 box; other site 485916008180 G5 box; other site 485916008181 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 485916008182 Translation-initiation factor 2; Region: IF-2; pfam11987 485916008183 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 485916008184 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 485916008185 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 485916008186 putative RNA binding cleft [nucleotide binding]; other site 485916008187 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 485916008188 NusA N-terminal domain; Region: NusA_N; pfam08529 485916008189 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 485916008190 RNA binding site [nucleotide binding]; other site 485916008191 homodimer interface [polypeptide binding]; other site 485916008192 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 485916008193 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 485916008194 G-X-X-G motif; other site 485916008195 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 485916008196 ribosome maturation protein RimP; Reviewed; Region: PRK00092 485916008197 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 485916008198 Sm1 motif; other site 485916008199 predicted subunit interaction site [polypeptide binding]; other site 485916008200 RNA binding pocket [nucleotide binding]; other site 485916008201 Sm2 motif; other site 485916008202 Transposase domain (DUF772); Region: DUF772; cl15789 485916008203 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 485916008204 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 485916008205 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 485916008206 FeS/SAM binding site; other site 485916008207 CGGC domain; Region: CGGC; cl02356 485916008208 Amino acid permease; Region: AA_permease_2; pfam13520 485916008209 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 485916008210 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916008211 ATP binding site [chemical binding]; other site 485916008212 Mg2+ binding site [ion binding]; other site 485916008213 G-X-G motif; other site 485916008214 Accessory gene regulator B; Region: AgrB; cl01873 485916008215 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 485916008216 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916008217 active site 485916008218 phosphorylation site [posttranslational modification] 485916008219 intermolecular recognition site; other site 485916008220 dimerization interface [polypeptide binding]; other site 485916008221 LytTr DNA-binding domain; Region: LytTR; cl04498 485916008222 prolyl-tRNA synthetase; Provisional; Region: PRK09194 485916008223 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 formation of...; Region: ProRS_core_prok; cd00779 485916008224 dimer interface [polypeptide binding]; other site 485916008225 motif 1; other site 485916008226 active site 485916008227 motif 2; other site 485916008228 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 485916008229 putative deacylase active site [active] 485916008230 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 attaches...; Region: class_II_aaRS-like_core; cl00268 485916008231 active site 485916008232 motif 3; other site 485916008233 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 485916008234 anticodon binding site; other site 485916008235 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 485916008236 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 485916008237 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 485916008238 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 485916008239 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 485916008240 active site 485916008241 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 485916008242 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 485916008243 putative substrate binding region [chemical binding]; other site 485916008244 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 485916008245 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 485916008246 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 485916008247 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 485916008248 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 485916008249 Domain of unknown function DUF20; Region: UPF0118; pfam01594 485916008250 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 485916008251 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 485916008252 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 485916008253 catalytic residue [active] 485916008254 putative FPP diphosphate binding site; other site 485916008255 putative FPP binding hydrophobic cleft; other site 485916008256 dimer interface [polypeptide binding]; other site 485916008257 putative IPP diphosphate binding site; other site 485916008258 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 485916008259 4Fe-4S binding domain; Region: Fer4; cl02805 485916008260 ribosome recycling factor; Reviewed; Region: frr; PRK00083 485916008261 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 round of...; Region: RRF; cd00520 485916008262 hinge region; other site 485916008263 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 485916008264 putative nucleotide binding site [chemical binding]; other site 485916008265 uridine monophosphate binding site [chemical binding]; other site 485916008266 homohexameric interface [polypeptide binding]; other site 485916008267 elongation factor Ts; Reviewed; Region: tsf; PRK12332 485916008268 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 485916008269 Elongation factor TS; Region: EF_TS; pfam00889 485916008270 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 485916008271 rRNA interaction site [nucleotide binding]; other site 485916008272 S8 interaction site; other site 485916008273 putative laminin-1 binding site; other site 485916008274 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 485916008275 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 485916008276 nucleotide binding site/active site [active] 485916008277 HIT family signature motif; other site 485916008278 catalytic residue [active] 485916008279 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 485916008280 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 485916008281 CodY GAF-like domain; Region: CodY; pfam06018 485916008282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 485916008283 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 485916008284 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 485916008285 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 485916008286 S-adenosylmethionine binding site [chemical binding]; other site 485916008287 chaperone protein DnaJ; Provisional; Region: PRK10767 485916008288 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 485916008289 HSP70 interaction site [polypeptide binding]; other site 485916008290 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 485916008291 substrate binding site [polypeptide binding]; other site 485916008292 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 485916008293 Zn binding sites [ion binding]; other site 485916008294 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 485916008295 dimer interface [polypeptide binding]; other site 485916008296 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 485916008297 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 485916008298 dimer interface [polypeptide binding]; other site 485916008299 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 485916008300 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 485916008301 ring oligomerisation interface [polypeptide binding]; other site 485916008302 TCP-1/cpn60 chaperonin family; Region: Cpn60_TCP1; pfam00118 485916008303 ATP/Mg binding site [chemical binding]; other site 485916008304 hinge regions; other site 485916008305 stacking interactions; other site 485916008306 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 485916008307 Helix-turn-helix domains; Region: HTH; cl00088 485916008308 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916008309 HrcA protein C terminal domain; Region: HrcA; pfam01628 485916008310 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 485916008311 HemN C-terminal domain; Region: HemN_C; pfam06969 485916008312 GTP-binding protein LepA; Provisional; Region: PRK05433 485916008313 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 485916008314 G1 box; other site 485916008315 putative GEF interaction site [polypeptide binding]; other site 485916008316 GTP/Mg2+ binding site [chemical binding]; other site 485916008317 Switch I region; other site 485916008318 G2 box; other site 485916008319 G3 box; other site 485916008320 Switch II region; other site 485916008321 G4 box; other site 485916008322 G5 box; other site 485916008323 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 485916008324 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 485916008325 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 485916008326 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 485916008327 stage II sporulation protein P; Region: spore_II_P; TIGR02867 485916008328 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916008329 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916008330 Zn2+ binding site [ion binding]; other site 485916008331 Mg2+ binding site [ion binding]; other site 485916008332 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 485916008333 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 485916008334 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 485916008335 VanW like protein; Region: VanW; pfam04294 485916008336 G5 domain; Region: G5; pfam07501 485916008337 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 485916008338 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 485916008339 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 485916008340 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 485916008341 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 485916008342 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 485916008343 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 485916008344 Walker A motif; other site 485916008345 ATP binding site [chemical binding]; other site 485916008346 Walker B motif; other site 485916008347 PilX N-terminal; Region: PilX_N; pfam14341 485916008348 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 485916008349 Secretin and TonB N terminus short domain; Region: STN; cl06624 485916008350 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 485916008351 Pilus assembly protein, PilO; Region: PilO; cl01234 485916008352 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 485916008353 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 485916008354 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916008355 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 485916008356 DNA binding residues [nucleotide binding] 485916008357 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 485916008358 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 485916008359 CLN3 protein; Region: CLN3; pfam02487 485916008360 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 485916008361 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 485916008362 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916008363 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 485916008364 Walker A motif; other site 485916008365 Walker A/P-loop; other site 485916008366 ATP binding site [chemical binding]; other site 485916008367 ATP binding site [chemical binding]; other site 485916008368 Walker B motif; other site 485916008369 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 485916008370 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 485916008371 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 485916008372 Walker A motif; other site 485916008373 ATP binding site [chemical binding]; other site 485916008374 Walker B motif; other site 485916008375 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 485916008376 Fic family protein [Function unknown]; Region: COG3177 485916008377 Fic/DOC family; Region: Fic; cl00960 485916008378 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 485916008379 non-specific DNA binding site [nucleotide binding]; other site 485916008380 salt bridge; other site 485916008381 sequence-specific DNA binding site [nucleotide binding]; other site 485916008382 HIRAN domain; Region: HIRAN; cl07418 485916008383 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 485916008384 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 485916008385 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916008386 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916008387 dimer interface [polypeptide binding]; other site 485916008388 putative CheW interface [polypeptide binding]; other site 485916008389 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 485916008390 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 485916008391 Domain of unknown function DUF77; Region: DUF77; cl00307 485916008392 S-layer homology domain; Region: SLH; pfam00395 485916008393 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 485916008394 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916008395 Chain length determinant protein; Region: Wzz; cl15801 485916008396 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916008397 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 485916008398 Walker A/P-loop; other site 485916008399 ATP binding site [chemical binding]; other site 485916008400 Q-loop/lid; other site 485916008401 ABC transporter signature motif; other site 485916008402 Walker B; other site 485916008403 D-loop; other site 485916008404 H-loop/switch region; other site 485916008405 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 485916008406 active site 485916008407 dimer interface [polypeptide binding]; other site 485916008408 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 485916008409 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 485916008410 Ligand Binding Site [chemical binding]; other site 485916008411 Molecular Tunnel; other site 485916008412 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 485916008413 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 485916008414 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 485916008415 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 485916008416 active site 485916008417 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485916008418 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 485916008419 DNA binding residues [nucleotide binding] 485916008420 dimerization interface [polypeptide binding]; other site 485916008421 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 485916008422 active site 485916008423 phosphorylation site [posttranslational modification] 485916008424 intermolecular recognition site; other site 485916008425 dimerization interface [polypeptide binding]; other site 485916008426 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485916008427 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 485916008428 active site 485916008429 phosphorylation site [posttranslational modification] 485916008430 intermolecular recognition site; other site 485916008431 dimerization interface [polypeptide binding]; other site 485916008432 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 485916008433 DNA binding residues [nucleotide binding] 485916008434 dimerization interface [polypeptide binding]; other site 485916008435 Helix-turn-helix domains; Region: HTH; cl00088 485916008436 Winged helix-turn helix; Region: HTH_29; pfam13551 485916008437 Winged helix-turn helix; Region: HTH_33; pfam13592 485916008438 Integrase core domain; Region: rve; cl01316 485916008439 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 485916008440 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 485916008441 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 485916008442 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 485916008443 putative catalytic residues [active] 485916008444 catalytic nucleophile [active] 485916008445 Recombinase; Region: Recombinase; pfam07508 485916008446 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916008447 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 485916008448 Recombinase; Region: Recombinase; pfam07508 485916008449 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916008450 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916008451 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 485916008452 active site 485916008453 metal binding site [ion binding]; metal-binding site 485916008454 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916008455 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 485916008456 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916008457 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 485916008458 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916008459 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916008460 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 485916008461 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 485916008462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916008463 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916008464 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 485916008465 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 485916008466 Competence protein; Region: Competence; cl00471 485916008467 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485916008468 SLBB domain; Region: SLBB; pfam10531 485916008469 comEA protein; Region: comE; TIGR01259 485916008470 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 485916008471 Protein of unknown function (DUF421); Region: DUF421; cl00990 485916008472 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 485916008473 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 485916008474 HIGH motif; other site 485916008475 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 485916008476 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 485916008477 active site 485916008478 KMSKS motif; other site 485916008479 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 485916008480 tRNA binding surface [nucleotide binding]; other site 485916008481 Oligomerisation domain; Region: Oligomerisation; cl00519 485916008482 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 485916008483 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916008484 Zn2+ binding site [ion binding]; other site 485916008485 Mg2+ binding site [ion binding]; other site 485916008486 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 485916008487 RNA/DNA binding site [nucleotide binding]; other site 485916008488 RRM dimerization site [polypeptide binding]; other site 485916008489 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 485916008490 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 485916008491 active site 485916008492 (T/H)XGH motif; other site 485916008493 gamma-glutamyl kinase; Provisional; Region: PRK05429 485916008494 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 485916008495 nucleotide binding site [chemical binding]; other site 485916008496 homotetrameric interface [polypeptide binding]; other site 485916008497 putative phosphate binding site [ion binding]; other site 485916008498 putative allosteric binding site; other site 485916008499 PUA domain; Region: PUA; cl00607 485916008500 GTPase CgtA; Reviewed; Region: obgE; PRK12297 485916008501 GTP1/OBG; Region: GTP1_OBG; pfam01018 485916008502 Obg GTPase; Region: Obg; cd01898 485916008503 G1 box; other site 485916008504 GTP/Mg2+ binding site [chemical binding]; other site 485916008505 Switch I region; other site 485916008506 G2 box; other site 485916008507 G3 box; other site 485916008508 Switch II region; other site 485916008509 G4 box; other site 485916008510 G5 box; other site 485916008511 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 485916008512 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 485916008513 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 485916008514 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 485916008515 FOG: CBS domain [General function prediction only]; Region: COG0517 485916008516 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 485916008517 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 485916008518 active site 485916008519 putative acyltransferase; Provisional; Region: PRK05790 485916008520 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 485916008521 dimer interface [polypeptide binding]; other site 485916008522 active site 485916008523 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 485916008524 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916008525 sensory histidine kinase AtoS; Provisional; Region: PRK11360 485916008526 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916008527 HEAT-like repeat; Region: HEAT_EZ; pfam13513 485916008528 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 485916008529 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 485916008530 ATP binding site [chemical binding]; other site 485916008531 Mg++ binding site [ion binding]; other site 485916008532 motif III; other site 485916008533 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 485916008534 nucleotide binding region [chemical binding]; other site 485916008535 ATP-binding site [chemical binding]; other site 485916008536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916008537 dimer interface [polypeptide binding]; other site 485916008538 putative CheW interface [polypeptide binding]; other site 485916008539 Cache domain; Region: Cache_1; pfam02743 485916008540 ribonuclease G; Provisional; Region: PRK11712 485916008541 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 485916008542 homodimer interface [polypeptide binding]; other site 485916008543 oligonucleotide binding site [chemical binding]; other site 485916008544 TRAM domain; Region: TRAM; cl01282 485916008545 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 485916008546 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 485916008547 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 485916008548 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 485916008549 FeS/SAM binding site; other site 485916008550 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 485916008551 active site 485916008552 putative substrate binding region [chemical binding]; other site 485916008553 Peptidase family M23; Region: Peptidase_M23; pfam01551 485916008554 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 485916008555 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 485916008556 Septum formation topological specificity factor MinE; Region: MinE; cl00538 485916008557 septum site-determining protein MinD; Region: minD_bact; TIGR01968 485916008558 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 485916008559 Switch I; other site 485916008560 Switch II; other site 485916008561 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 485916008562 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 485916008563 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 485916008564 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 485916008565 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 485916008566 rod shape-determining protein MreD; Region: MreD; cl01087 485916008567 rod shape-determining protein MreC; Provisional; Region: PRK13922 485916008568 rod shape-determining protein MreC; Region: MreC; pfam04085 485916008569 rod shape-determining protein MreB; Provisional; Region: PRK13927 485916008570 Cell division protein FtsA; Region: FtsA; cl11496 485916008571 hypothetical protein; Reviewed; Region: PRK00024 485916008572 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 485916008573 MPN+ (JAMM) motif; other site 485916008574 Zinc-binding site [ion binding]; other site 485916008575 Maf-like protein; Region: Maf; pfam02545 485916008576 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 485916008577 active site 485916008578 dimer interface [polypeptide binding]; other site 485916008579 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 485916008580 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 485916008581 homotrimer interaction site [polypeptide binding]; other site 485916008582 putative active site [active] 485916008583 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 485916008584 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 485916008585 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 485916008586 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916008587 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 485916008588 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 485916008589 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 485916008590 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 485916008591 HIGH motif; other site 485916008592 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 485916008593 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 485916008594 active site 485916008595 KMSKS motif; other site 485916008596 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 485916008597 tRNA binding surface [nucleotide binding]; other site 485916008598 anticodon binding site; other site 485916008599 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 485916008600 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 485916008601 NMT1-like family; Region: NMT1_2; cl15260 485916008602 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 485916008603 putative active site [active] 485916008604 Predicted GTPase [General function prediction only]; Region: COG0218 485916008605 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 485916008606 G1 box; other site 485916008607 GTP/Mg2+ binding site [chemical binding]; other site 485916008608 Switch I region; other site 485916008609 G2 box; other site 485916008610 G3 box; other site 485916008611 Switch II region; other site 485916008612 G4 box; other site 485916008613 G5 box; other site 485916008614 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 485916008615 Found in ATP-dependent protease La (LON); Region: LON; smart00464 485916008616 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 485916008617 Walker A motif; other site 485916008618 ATP binding site [chemical binding]; other site 485916008619 Walker B motif; other site 485916008620 arginine finger; other site 485916008621 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 485916008622 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 485916008623 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 485916008624 Walker A motif; other site 485916008625 ATP binding site [chemical binding]; other site 485916008626 Walker B motif; other site 485916008627 arginine finger; other site 485916008628 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 485916008629 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 485916008630 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 485916008631 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 485916008632 Walker A motif; other site 485916008633 ATP binding site [chemical binding]; other site 485916008634 Walker B motif; other site 485916008635 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 485916008636 trigger factor; Provisional; Region: tig; PRK01490 485916008637 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 485916008638 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 485916008639 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916008640 putative peptidoglycan binding site; other site 485916008641 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 485916008642 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 485916008643 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 485916008644 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 485916008645 active site 485916008646 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 485916008647 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 485916008648 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 485916008649 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916008650 Beta propeller domain; Region: Beta_propel; pfam09826 485916008651 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 485916008652 DNA binding site [nucleotide binding] 485916008653 active site 485916008654 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 485916008655 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 485916008656 dimer interface [polypeptide binding]; other site 485916008657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916008658 catalytic residue [active] 485916008659 Spore germination protein; Region: Spore_permease; cl15802 485916008660 CHASE3 domain; Region: CHASE3; cl05000 485916008661 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 485916008662 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 485916008663 dimerization interface [polypeptide binding]; other site 485916008664 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916008665 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916008666 dimer interface [polypeptide binding]; other site 485916008667 putative CheW interface [polypeptide binding]; other site 485916008668 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 485916008669 O-Antigen ligase; Region: Wzy_C; cl04850 485916008670 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 485916008671 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 485916008672 ring oligomerisation interface [polypeptide binding]; other site 485916008673 ATP/Mg binding site [chemical binding]; other site 485916008674 stacking interactions; other site 485916008675 hinge regions; other site 485916008676 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 485916008677 oligomerisation interface [polypeptide binding]; other site 485916008678 mobile loop; other site 485916008679 roof hairpin; other site 485916008680 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 485916008681 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_3; cd09321 485916008682 gating phenylalanine in ion channel; other site 485916008683 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 485916008684 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 485916008685 dimer interface [polypeptide binding]; other site 485916008686 putative functional site; other site 485916008687 putative MPT binding site; other site 485916008688 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 485916008689 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 485916008690 FeS/SAM binding site; other site 485916008691 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916008692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916008693 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916008694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916008695 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916008696 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 485916008697 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 485916008698 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 485916008699 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916008700 Probable transposase; Region: OrfB_IS605; pfam01385 485916008701 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916008702 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916008703 Response regulator receiver domain; Region: Response_reg; pfam00072 485916008704 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916008705 active site 485916008706 phosphorylation site [posttranslational modification] 485916008707 intermolecular recognition site; other site 485916008708 dimerization interface [polypeptide binding]; other site 485916008709 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916008710 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 485916008711 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 485916008712 Walker A/P-loop; other site 485916008713 ATP binding site [chemical binding]; other site 485916008714 Q-loop/lid; other site 485916008715 ABC transporter signature motif; other site 485916008716 Walker B; other site 485916008717 D-loop; other site 485916008718 H-loop/switch region; other site 485916008719 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 485916008720 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 485916008721 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916008722 Walker A/P-loop; other site 485916008723 ATP binding site [chemical binding]; other site 485916008724 Q-loop/lid; other site 485916008725 ABC transporter signature motif; other site 485916008726 Walker B; other site 485916008727 D-loop; other site 485916008728 H-loop/switch region; other site 485916008729 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916008730 Helix-turn-helix domains; Region: HTH; cl00088 485916008731 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 485916008732 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 485916008733 Helix-turn-helix domains; Region: HTH; cl00088 485916008734 Putative Fe-S cluster; Region: FeS; pfam04060 485916008735 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 485916008736 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916008737 dimer interface [polypeptide binding]; other site 485916008738 putative CheW interface [polypeptide binding]; other site 485916008739 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916008740 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 485916008741 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916008742 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916008743 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916008744 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 485916008745 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916008746 Probable transposase; Region: OrfB_IS605; pfam01385 485916008747 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 485916008748 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916008749 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 485916008750 putative active site [active] 485916008751 homotetrameric interface [polypeptide binding]; other site 485916008752 metal binding site [ion binding]; metal-binding site 485916008753 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 485916008754 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916008755 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 485916008756 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 485916008757 dimer interface [polypeptide binding]; other site 485916008758 phosphorylation site [posttranslational modification] 485916008759 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916008760 ATP binding site [chemical binding]; other site 485916008761 Mg2+ binding site [ion binding]; other site 485916008762 G-X-G motif; other site 485916008763 Accessory gene regulator B; Region: AgrB; cl01873 485916008764 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 485916008765 catalytic core [active] 485916008766 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 485916008767 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 485916008768 Ligand binding site; other site 485916008769 metal-binding site 485916008770 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 485916008771 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 485916008772 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 485916008773 XdhC Rossmann domain; Region: XdhC_C; pfam13478 485916008774 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 485916008775 AMP-binding enzyme; Region: AMP-binding; cl15778 485916008776 AMP-binding enzyme; Region: AMP-binding; cl15778 485916008777 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 485916008778 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 485916008779 FeS/SAM binding site; other site 485916008780 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 485916008781 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 485916008782 S-adenosylmethionine binding site [chemical binding]; other site 485916008783 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 485916008784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916008785 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 485916008786 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 485916008787 Cysteine-rich domain; Region: CCG; pfam02754 485916008788 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 485916008789 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 485916008790 catalytic loop [active] 485916008791 iron binding site [ion binding]; other site 485916008792 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 485916008793 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 485916008794 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 485916008795 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 485916008796 putative MPT binding site; other site 485916008797 TOBE domain; Region: TOBE_2; cl01440 485916008798 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 485916008799 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 485916008800 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 485916008801 dimer interface [polypeptide binding]; other site 485916008802 conserved gate region; other site 485916008803 putative PBP binding loops; other site 485916008804 ABC-ATPase subunit interface; other site 485916008805 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916008806 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 485916008807 Walker A/P-loop; other site 485916008808 ATP binding site [chemical binding]; other site 485916008809 Q-loop/lid; other site 485916008810 ABC transporter signature motif; other site 485916008811 Walker B; other site 485916008812 D-loop; other site 485916008813 H-loop/switch region; other site 485916008814 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 485916008815 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 485916008816 sulfate transport protein; Provisional; Region: cysT; CHL00187 485916008817 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 485916008818 dimer interface [polypeptide binding]; other site 485916008819 conserved gate region; other site 485916008820 putative PBP binding loops; other site 485916008821 ABC-ATPase subunit interface; other site 485916008822 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 485916008823 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916008824 Walker A/P-loop; other site 485916008825 ATP binding site [chemical binding]; other site 485916008826 Q-loop/lid; other site 485916008827 ABC transporter signature motif; other site 485916008828 Walker B; other site 485916008829 D-loop; other site 485916008830 H-loop/switch region; other site 485916008831 Domain of unknown function (DUF364); Region: DUF364; pfam04016 485916008832 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916008833 putative peptidoglycan binding site; other site 485916008834 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485916008835 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916008836 putative peptidoglycan binding site; other site 485916008837 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 485916008838 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 485916008839 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 485916008840 Ligand binding site; other site 485916008841 metal-binding site 485916008842 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 485916008843 Moco binding site; other site 485916008844 metal coordination site [ion binding]; other site 485916008845 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 485916008846 HicB family; Region: HicB; pfam05534 485916008847 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916008848 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916008849 Helix-turn-helix domains; Region: HTH; cl00088 485916008850 Winged helix-turn helix; Region: HTH_29; pfam13551 485916008851 Winged helix-turn helix; Region: HTH_33; pfam13592 485916008852 Integrase core domain; Region: rve; cl01316 485916008853 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916008854 NHL repeat; Region: NHL; pfam01436 485916008855 Uncharacterized conserved protein [Function unknown]; Region: COG3391 485916008856 NHL repeat; Region: NHL; pfam01436 485916008857 NHL repeat; Region: NHL; pfam01436 485916008858 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 485916008859 Helix-turn-helix domains; Region: HTH; cl00088 485916008860 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 485916008861 Cobalt transport protein; Region: CbiQ; cl00463 485916008862 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 485916008863 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 485916008864 Walker A/P-loop; other site 485916008865 ATP binding site [chemical binding]; other site 485916008866 Q-loop/lid; other site 485916008867 ABC transporter signature motif; other site 485916008868 Walker B; other site 485916008869 D-loop; other site 485916008870 H-loop/switch region; other site 485916008871 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 485916008872 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 485916008873 Walker A/P-loop; other site 485916008874 ATP binding site [chemical binding]; other site 485916008875 Q-loop/lid; other site 485916008876 ABC transporter signature motif; other site 485916008877 Walker B; other site 485916008878 D-loop; other site 485916008879 H-loop/switch region; other site 485916008880 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 485916008881 homodimer interaction site [polypeptide binding]; other site 485916008882 cofactor binding site; other site 485916008883 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 485916008884 Interdomain contacts; other site 485916008885 S-layer homology domain; Region: SLH; pfam00395 485916008886 S-layer homology domain; Region: SLH; pfam00395 485916008887 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 485916008888 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 485916008889 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916008890 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916008891 active site 485916008892 metal binding site [ion binding]; metal-binding site 485916008893 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 485916008894 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 485916008895 Moco binding site; other site 485916008896 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 485916008897 Moco binding site; other site 485916008898 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916008899 S-layer homology domain; Region: SLH; pfam00395 485916008900 S-layer homology domain; Region: SLH; pfam00395 485916008901 S-layer homology domain; Region: SLH; pfam00395 485916008902 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 485916008903 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 485916008904 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 485916008905 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 485916008906 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 485916008907 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 485916008908 S-layer homology domain; Region: SLH; pfam00395 485916008909 S-layer homology domain; Region: SLH; pfam00395 485916008910 S-layer homology domain; Region: SLH; pfam00395 485916008911 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 485916008912 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 485916008913 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916008914 active site 485916008915 metal binding site [ion binding]; metal-binding site 485916008916 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 485916008917 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916008918 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916008919 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916008920 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916008921 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916008922 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916008923 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 485916008924 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916008925 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916008926 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916008927 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 485916008928 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 485916008929 metal coordination site [ion binding]; other site 485916008930 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 485916008931 S-layer homology domain; Region: SLH; pfam00395 485916008932 S-layer homology domain; Region: SLH; pfam00395 485916008933 S-layer homology domain; Region: SLH; pfam00395 485916008934 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 485916008935 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 485916008936 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 485916008937 homodimer interaction site [polypeptide binding]; other site 485916008938 cofactor binding site; other site 485916008939 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 485916008940 MG2 domain; Region: A2M_N; pfam01835 485916008941 S-layer homology domain; Region: SLH; pfam00395 485916008942 S-layer homology domain; Region: SLH; pfam00395 485916008943 S-layer homology domain; Region: SLH; pfam00395 485916008944 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 485916008945 Walker A motif; other site 485916008946 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 485916008947 putative MPT binding site; other site 485916008948 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 485916008949 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 485916008950 dimer interface [polypeptide binding]; other site 485916008951 putative functional site; other site 485916008952 putative MPT binding site; other site 485916008953 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 485916008954 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 485916008955 GTP binding site; other site 485916008956 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 485916008957 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 485916008958 catalytic loop [active] 485916008959 iron binding site [ion binding]; other site 485916008960 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 485916008961 4Fe-4S binding domain; Region: Fer4; cl02805 485916008962 4Fe-4S binding domain; Region: Fer4; cl02805 485916008963 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 485916008964 [4Fe-4S] binding site [ion binding]; other site 485916008965 molybdopterin cofactor binding site; other site 485916008966 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 485916008967 molybdopterin cofactor binding site; other site 485916008968 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 485916008969 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 485916008970 catalytic loop [active] 485916008971 iron binding site [ion binding]; other site 485916008972 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 485916008973 4Fe-4S binding domain; Region: Fer4; cl02805 485916008974 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 485916008975 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 485916008976 dimer interface [polypeptide binding]; other site 485916008977 [2Fe-2S] cluster binding site [ion binding]; other site 485916008978 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 485916008979 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 485916008980 SLBB domain; Region: SLBB; pfam10531 485916008981 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 485916008982 4Fe-4S binding domain; Region: Fer4; cl02805 485916008983 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 485916008984 4Fe-4S binding domain; Region: Fer4; cl02805 485916008985 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 485916008986 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 485916008987 putative dimer interface [polypeptide binding]; other site 485916008988 [2Fe-2S] cluster binding site [ion binding]; other site 485916008989 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 485916008990 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 485916008991 catalytic loop [active] 485916008992 iron binding site [ion binding]; other site 485916008993 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 485916008994 4Fe-4S binding domain; Region: Fer4; cl02805 485916008995 4Fe-4S binding domain; Region: Fer4; cl02805 485916008996 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 485916008997 [4Fe-4S] binding site [ion binding]; other site 485916008998 molybdopterin cofactor binding site; other site 485916008999 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 485916009000 molybdopterin cofactor binding site; other site 485916009001 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 485916009002 ACT domain-containing protein [General function prediction only]; Region: COG4747 485916009003 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 485916009004 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 485916009005 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 485916009006 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 485916009007 FeS/SAM binding site; other site 485916009008 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 485916009009 protein binding site [polypeptide binding]; other site 485916009010 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 485916009011 Thymidylate synthase; Region: dTMP_synthase; cl15399 485916009012 Protein of unknown function (DUF512); Region: DUF512; pfam04459 485916009013 UGMP family protein; Validated; Region: PRK09604 485916009014 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 485916009015 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 485916009016 putative catalytic site [active] 485916009017 putative metal binding site [ion binding]; other site 485916009018 putative phosphate binding site [ion binding]; other site 485916009019 Protein of unknown function DUF262; Region: DUF262; cl14890 485916009020 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 485916009021 CoenzymeA binding site [chemical binding]; other site 485916009022 subunit interaction site [polypeptide binding]; other site 485916009023 PHB binding site; other site 485916009024 PspA/IM30 family; Region: PspA_IM30; pfam04012 485916009025 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916009026 putative peptidoglycan binding site; other site 485916009027 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916009028 putative peptidoglycan binding site; other site 485916009029 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 485916009030 Flagellin N-methylase; Region: FliB; cl00497 485916009031 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916009032 active site 485916009033 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 485916009034 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 485916009035 dimerization interface [polypeptide binding]; other site 485916009036 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 485916009037 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 485916009038 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 485916009039 metal binding site 2 [ion binding]; metal-binding site 485916009040 putative DNA binding helix; other site 485916009041 metal binding site 1 [ion binding]; metal-binding site 485916009042 dimer interface [polypeptide binding]; other site 485916009043 structural Zn2+ binding site [ion binding]; other site 485916009044 Rubrerythrin [Energy production and conversion]; Region: COG1592 485916009045 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 485916009046 binuclear metal center [ion binding]; other site 485916009047 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 485916009048 iron binding site [ion binding]; other site 485916009049 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 485916009050 diiron binding motif [ion binding]; other site 485916009051 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 485916009052 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 485916009053 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 485916009054 catalytic residues [active] 485916009055 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 485916009056 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 485916009057 Domain of unknown function DUF21; Region: DUF21; pfam01595 485916009058 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 485916009059 Transporter associated domain; Region: CorC_HlyC; cl08393 485916009060 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 485916009061 Protein of unknown function DUF111; Region: DUF111; cl03398 485916009062 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 485916009063 active site 485916009064 Helix-turn-helix domains; Region: HTH; cl00088 485916009065 Winged helix-turn helix; Region: HTH_29; pfam13551 485916009066 Winged helix-turn helix; Region: HTH_33; pfam13592 485916009067 Integrase core domain; Region: rve; cl01316 485916009068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916009069 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916009070 Probable transposase; Region: OrfB_IS605; pfam01385 485916009071 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916009072 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916009073 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 485916009074 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916009075 ATP binding site [chemical binding]; other site 485916009076 putative Mg++ binding site [ion binding]; other site 485916009077 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 485916009078 nucleotide binding region [chemical binding]; other site 485916009079 ATP-binding site [chemical binding]; other site 485916009080 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 485916009081 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 485916009082 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916009083 putative peptidoglycan binding site; other site 485916009084 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485916009085 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 485916009086 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916009087 putative peptidoglycan binding site; other site 485916009088 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 485916009089 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916009090 putative peptidoglycan binding site; other site 485916009091 Sporulation and spore germination; Region: Germane; cl11253 485916009092 DREV methyltransferase; Region: DREV; pfam05219 485916009093 Peptidase family M48; Region: Peptidase_M48; cl12018 485916009094 Protein of unknown function (DUF964); Region: DUF964; cl01483 485916009095 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 485916009096 Arginase family; Region: Arginase; cl00306 485916009097 spermidine synthase; Provisional; Region: PRK00811 485916009098 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; cl15754 485916009099 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 485916009100 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 485916009101 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 485916009102 peptide binding site [polypeptide binding]; other site 485916009103 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 485916009104 Cysteine-rich domain; Region: CCG; pfam02754 485916009105 Cysteine-rich domain; Region: CCG; pfam02754 485916009106 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 485916009107 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 485916009108 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916009109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916009110 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916009111 4Fe-4S binding domain; Region: Fer4; cl02805 485916009112 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 485916009113 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 485916009114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916009115 4Fe-4S binding domain; Region: Fer4; cl02805 485916009116 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 485916009117 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 485916009118 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 485916009119 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 485916009120 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 485916009121 ATP-sulfurylase; Region: ATPS; cd00517 485916009122 active site 485916009123 HXXH motif; other site 485916009124 flexible loop; other site 485916009125 Protein of unknown function (DUF964); Region: DUF964; cl01483 485916009126 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 485916009127 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 485916009128 putative dimer interface [polypeptide binding]; other site 485916009129 active site pocket [active] 485916009130 putative cataytic base [active] 485916009131 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 485916009132 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 485916009133 S-layer homology domain; Region: SLH; pfam00395 485916009134 S-layer homology domain; Region: SLH; pfam00395 485916009135 S-layer homology domain; Region: SLH; pfam00395 485916009136 Domain of unknown function DUF39; Region: DUF39; cl14897 485916009137 NIL domain; Region: NIL; cl09633 485916009138 4Fe-4S binding domain; Region: Fer4; cl02805 485916009139 hypothetical protein; Provisional; Region: PRK13795 485916009140 ApbE family; Region: ApbE; cl00643 485916009141 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 485916009142 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 485916009143 dimer interface [polypeptide binding]; other site 485916009144 active site 485916009145 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 485916009146 ATP phosphoribosyltransferase; Region: HisG; cl15266 485916009147 HisG, C-terminal domain; Region: HisG_C; cl06867 485916009148 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 485916009149 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 485916009150 putative dimer interface [polypeptide binding]; other site 485916009151 putative anticodon binding site; other site 485916009152 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 485916009153 homodimer interface [polypeptide binding]; other site 485916009154 motif 1; other site 485916009155 motif 2; other site 485916009156 active site 485916009157 motif 3; other site 485916009158 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 485916009159 BON domain; Region: BON; cl02771 485916009160 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 485916009161 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 485916009162 Protein of unknown function (DUF503); Region: DUF503; cl00669 485916009163 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 485916009164 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 485916009165 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 485916009166 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 485916009167 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 485916009168 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 485916009169 Walker A motif; other site 485916009170 ATP binding site [chemical binding]; other site 485916009171 Walker B motif; other site 485916009172 arginine finger; other site 485916009173 Coat F domain; Region: Coat_F; cl15836 485916009174 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 485916009175 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 485916009176 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 485916009177 HflX GTPase family; Region: HflX; cd01878 485916009178 G1 box; other site 485916009179 GTP/Mg2+ binding site [chemical binding]; other site 485916009180 Switch I region; other site 485916009181 G2 box; other site 485916009182 G3 box; other site 485916009183 Switch II region; other site 485916009184 G4 box; other site 485916009185 G5 box; other site 485916009186 GTP-binding protein YchF; Reviewed; Region: PRK09601 485916009187 YchF GTPase; Region: YchF; cd01900 485916009188 G1 box; other site 485916009189 GTP/Mg2+ binding site [chemical binding]; other site 485916009190 Switch I region; other site 485916009191 G2 box; other site 485916009192 Switch II region; other site 485916009193 G3 box; other site 485916009194 G4 box; other site 485916009195 G5 box; other site 485916009196 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 485916009197 Predicted amidohydrolase [General function prediction only]; Region: COG0388 485916009198 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 485916009199 putative active site [active] 485916009200 catalytic triad [active] 485916009201 dimer interface [polypeptide binding]; other site 485916009202 NifU-like domain; Region: NifU; cl00484 485916009203 Putative zinc-finger; Region: zf-HC2; cl15806 485916009204 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 485916009205 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916009206 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916009207 PilZ domain; Region: PilZ; cl01260 485916009208 Bacitracin resistance protein BacA; Region: BacA; cl00858 485916009209 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 485916009210 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 485916009211 active site 485916009212 metal binding site [ion binding]; metal-binding site 485916009213 homotetramer interface [polypeptide binding]; other site 485916009214 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 485916009215 active site 485916009216 dimerization interface [polypeptide binding]; other site 485916009217 ribonuclease PH; Reviewed; Region: rph; PRK00173 485916009218 Ribonuclease PH; Region: RNase_PH_bact; cd11362 485916009219 hexamer interface [polypeptide binding]; other site 485916009220 active site 485916009221 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485916009222 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 485916009223 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 485916009224 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 485916009225 intersubunit interface [polypeptide binding]; other site 485916009226 Bacterial SH3 domain; Region: SH3_3; cl02551 485916009227 AMIN domain; Region: AMIN; pfam11741 485916009228 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 485916009229 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 485916009230 active site 485916009231 metal binding site [ion binding]; metal-binding site 485916009232 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 485916009233 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 485916009234 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 485916009235 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 485916009236 SCP-2 sterol transfer family; Region: SCP2; cl01225 485916009237 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 485916009238 active site 485916009239 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 485916009240 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 485916009241 FeS/SAM binding site; other site 485916009242 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 485916009243 Ligand Binding Site [chemical binding]; other site 485916009244 MgtC family; Region: MgtC; pfam02308 485916009245 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 485916009246 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 485916009247 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 485916009248 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 485916009249 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 485916009250 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 485916009251 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 485916009252 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 485916009253 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 485916009254 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 485916009255 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 485916009256 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 485916009257 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 485916009258 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916009259 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 485916009260 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 485916009261 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 485916009262 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916009263 YcfA-like protein; Region: YcfA; cl00752 485916009264 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 485916009265 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 485916009266 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 485916009267 Int/Topo IB signature motif; other site 485916009268 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916009269 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916009270 Phage capsid family; Region: Phage_capsid; pfam05065 485916009271 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916009272 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916009273 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 485916009274 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916009275 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 485916009276 non-specific DNA binding site [nucleotide binding]; other site 485916009277 salt bridge; other site 485916009278 sequence-specific DNA binding site [nucleotide binding]; other site 485916009279 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 485916009280 non-specific DNA binding site [nucleotide binding]; other site 485916009281 salt bridge; other site 485916009282 sequence-specific DNA binding site [nucleotide binding]; other site 485916009283 Transposase; Region: DEDD_Tnp_IS110; pfam01548 485916009284 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 485916009285 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 485916009286 non-specific DNA binding site [nucleotide binding]; other site 485916009287 salt bridge; other site 485916009288 sequence-specific DNA binding site [nucleotide binding]; other site 485916009289 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 485916009290 non-specific DNA binding site [nucleotide binding]; other site 485916009291 salt bridge; other site 485916009292 sequence-specific DNA binding site [nucleotide binding]; other site 485916009293 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 485916009294 oligomeric interface; other site 485916009295 putative active site [active] 485916009296 homodimer interface [polypeptide binding]; other site 485916009297 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916009298 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916009299 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 485916009300 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 485916009301 DNA binding site [nucleotide binding] 485916009302 Int/Topo IB signature motif; other site 485916009303 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 485916009304 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 485916009305 DNA binding site [nucleotide binding] 485916009306 Int/Topo IB signature motif; other site 485916009307 active site 485916009308 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 485916009309 DNA binding site [nucleotide binding] 485916009310 Int/Topo IB signature motif; other site 485916009311 active site 485916009312 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 485916009313 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 485916009314 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 485916009315 DNA binding site [nucleotide binding] 485916009316 Int/Topo IB signature motif; other site 485916009317 active site 485916009318 Helix-turn-helix domains; Region: HTH; cl00088 485916009319 Winged helix-turn helix; Region: HTH_29; pfam13551 485916009320 Winged helix-turn helix; Region: HTH_33; pfam13592 485916009321 Integrase core domain; Region: rve; cl01316 485916009322 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916009323 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916009324 DNA primase (bacterial type) [DNA replication, recombination, and repair]; Region: DnaG; COG0358 485916009325 hypothetical protein; Provisional; Region: PRK14709 485916009326 D5 N terminal like; Region: D5_N; cl07360 485916009327 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 485916009328 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916009329 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916009330 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916009331 Helix-turn-helix domains; Region: HTH; cl00088 485916009332 Winged helix-turn helix; Region: HTH_29; pfam13551 485916009333 Winged helix-turn helix; Region: HTH_33; pfam13592 485916009334 Integrase core domain; Region: rve; cl01316 485916009335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916009336 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 485916009337 non-specific DNA binding site [nucleotide binding]; other site 485916009338 salt bridge; other site 485916009339 sequence-specific DNA binding site [nucleotide binding]; other site 485916009340 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916009341 Replication-relaxation; Region: Replic_Relax; pfam13814 485916009342 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 485916009343 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 485916009344 active site 485916009345 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 485916009346 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 485916009347 Int/Topo IB signature motif; other site 485916009348 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 485916009349 putative active site [active] 485916009350 Transcriptional regulator [Transcription]; Region: LysR; COG0583 485916009351 Helix-turn-helix domains; Region: HTH; cl00088 485916009352 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 485916009353 putative dimerization interface [polypeptide binding]; other site 485916009354 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13636 485916009355 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 485916009356 Walker A/P-loop; other site 485916009357 ATP binding site [chemical binding]; other site 485916009358 Q-loop/lid; other site 485916009359 ABC transporter signature motif; other site 485916009360 Walker B; other site 485916009361 D-loop; other site 485916009362 H-loop/switch region; other site 485916009363 Cobalt transport protein; Region: CbiQ; cl00463 485916009364 Cobalt transport protein component CbiN; Region: CbiN; cl00842 485916009365 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 485916009366 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 485916009367 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916009368 Coenzyme A binding pocket [chemical binding]; other site 485916009369 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 485916009370 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 485916009371 Response regulator receiver domain; Region: Response_reg; pfam00072 485916009372 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009373 active site 485916009374 phosphorylation site [posttranslational modification] 485916009375 intermolecular recognition site; other site 485916009376 dimerization interface [polypeptide binding]; other site 485916009377 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 485916009378 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 485916009379 active site 485916009380 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 485916009381 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 485916009382 catalytic triad [active] 485916009383 PemK-like protein; Region: PemK; cl00995 485916009384 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 485916009385 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 485916009386 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 485916009387 putative valine binding site [chemical binding]; other site 485916009388 dimer interface [polypeptide binding]; other site 485916009389 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 485916009390 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 485916009391 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485916009392 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916009393 Walker A/P-loop; other site 485916009394 ATP binding site [chemical binding]; other site 485916009395 Q-loop/lid; other site 485916009396 ABC transporter signature motif; other site 485916009397 Walker B; other site 485916009398 D-loop; other site 485916009399 H-loop/switch region; other site 485916009400 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 485916009401 Catalytic site [active] 485916009402 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 485916009403 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 485916009404 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 485916009405 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 485916009406 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009407 active site 485916009408 phosphorylation site [posttranslational modification] 485916009409 intermolecular recognition site; other site 485916009410 dimerization interface [polypeptide binding]; other site 485916009411 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 485916009412 DNA binding residues [nucleotide binding] 485916009413 dimerization interface [polypeptide binding]; other site 485916009414 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 485916009415 Histidine kinase; Region: HisKA_3; pfam07730 485916009416 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916009417 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 485916009418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916009419 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 485916009420 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 485916009421 active site 485916009422 dimer interface [polypeptide binding]; other site 485916009423 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 485916009424 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 485916009425 active site 485916009426 FMN binding site [chemical binding]; other site 485916009427 substrate binding site [chemical binding]; other site 485916009428 3Fe-4S cluster binding site [ion binding]; other site 485916009429 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 485916009430 domain interface; other site 485916009431 glutamine synthetase, type I; Region: GlnA; TIGR00653 485916009432 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 485916009433 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 485916009434 glutamine synthetase, type I; Region: GlnA; TIGR00653 485916009435 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 485916009436 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 485916009437 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 485916009438 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009439 active site 485916009440 phosphorylation site [posttranslational modification] 485916009441 intermolecular recognition site; other site 485916009442 dimerization interface [polypeptide binding]; other site 485916009443 ANTAR domain; Region: ANTAR; cl04297 485916009444 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 485916009445 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 485916009446 active site 485916009447 FMN binding site [chemical binding]; other site 485916009448 substrate binding site [chemical binding]; other site 485916009449 3Fe-4S cluster binding site [ion binding]; other site 485916009450 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 485916009451 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 485916009452 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 485916009453 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 485916009454 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009455 active site 485916009456 phosphorylation site [posttranslational modification] 485916009457 intermolecular recognition site; other site 485916009458 dimerization interface [polypeptide binding]; other site 485916009459 ANTAR domain; Region: ANTAR; cl04297 485916009460 flagellar motor switch protein; Validated; Region: PRK08119 485916009461 Chemotaxis phosphatase CheX; Region: CheX; cl15816 485916009462 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 485916009463 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 485916009464 aconitate hydratase; Validated; Region: PRK07229 485916009465 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 485916009466 substrate binding site [chemical binding]; other site 485916009467 ligand binding site [chemical binding]; other site 485916009468 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 485916009469 substrate binding site [chemical binding]; other site 485916009470 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 485916009471 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 485916009472 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 485916009473 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 485916009474 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 485916009475 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916009476 alanine racemase; Reviewed; Region: alr; PRK00053 485916009477 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 485916009478 active site 485916009479 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 485916009480 dimer interface [polypeptide binding]; other site 485916009481 substrate binding site [chemical binding]; other site 485916009482 catalytic residues [active] 485916009483 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 485916009484 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 485916009485 putative substrate binding site [chemical binding]; other site 485916009486 putative ATP binding site [chemical binding]; other site 485916009487 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 485916009488 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 485916009489 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009490 active site 485916009491 phosphorylation site [posttranslational modification] 485916009492 intermolecular recognition site; other site 485916009493 dimerization interface [polypeptide binding]; other site 485916009494 LytTr DNA-binding domain; Region: LytTR; cl04498 485916009495 GAF domain; Region: GAF; cl15785 485916009496 Histidine kinase; Region: His_kinase; pfam06580 485916009497 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916009498 ATP binding site [chemical binding]; other site 485916009499 Mg2+ binding site [ion binding]; other site 485916009500 G-X-G motif; other site 485916009501 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 485916009502 Helix-turn-helix domains; Region: HTH; cl00088 485916009503 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 485916009504 putative dimerization interface [polypeptide binding]; other site 485916009505 Flagellin N-methylase; Region: FliB; cl00497 485916009506 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 485916009507 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 485916009508 ACS interaction site; other site 485916009509 CODH interaction site; other site 485916009510 cubane metal cluster (B-cluster) [ion binding]; other site 485916009511 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 485916009512 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 485916009513 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 485916009514 CODH interaction site; other site 485916009515 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 485916009516 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 485916009517 Response regulator receiver domain; Region: Response_reg; pfam00072 485916009518 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009519 active site 485916009520 phosphorylation site [posttranslational modification] 485916009521 intermolecular recognition site; other site 485916009522 dimerization interface [polypeptide binding]; other site 485916009523 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 485916009524 dimer interface [polypeptide binding]; other site 485916009525 phosphorylation site [posttranslational modification] 485916009526 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916009527 ATP binding site [chemical binding]; other site 485916009528 Mg2+ binding site [ion binding]; other site 485916009529 G-X-G motif; other site 485916009530 Response regulator receiver domain; Region: Response_reg; pfam00072 485916009531 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009532 active site 485916009533 phosphorylation site [posttranslational modification] 485916009534 intermolecular recognition site; other site 485916009535 dimerization interface [polypeptide binding]; other site 485916009536 CheB methylesterase; Region: CheB_methylest; pfam01339 485916009537 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 485916009538 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 485916009539 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916009540 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 485916009541 GAF domain; Region: GAF_2; pfam13185 485916009542 GAF domain; Region: GAF; cl15785 485916009543 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 485916009544 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916009545 ATP binding site [chemical binding]; other site 485916009546 Mg2+ binding site [ion binding]; other site 485916009547 G-X-G motif; other site 485916009548 Response regulator receiver domain; Region: Response_reg; pfam00072 485916009549 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009550 active site 485916009551 phosphorylation site [posttranslational modification] 485916009552 intermolecular recognition site; other site 485916009553 dimerization interface [polypeptide binding]; other site 485916009554 Response regulator receiver domain; Region: Response_reg; pfam00072 485916009555 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009556 active site 485916009557 phosphorylation site [posttranslational modification] 485916009558 intermolecular recognition site; other site 485916009559 dimerization interface [polypeptide binding]; other site 485916009560 Response regulator receiver domain; Region: Response_reg; pfam00072 485916009561 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009562 active site 485916009563 phosphorylation site [posttranslational modification] 485916009564 intermolecular recognition site; other site 485916009565 dimerization interface [polypeptide binding]; other site 485916009566 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916009567 active site 485916009568 phosphorylation site [posttranslational modification] 485916009569 intermolecular recognition site; other site 485916009570 dimerization interface [polypeptide binding]; other site 485916009571 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916009572 metal binding site [ion binding]; metal-binding site 485916009573 active site 485916009574 I-site; other site 485916009575 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 485916009576 Major Facilitator Superfamily; Region: MFS_1; pfam07690 485916009577 putative substrate translocation pore; other site 485916009578 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 485916009579 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 485916009580 FeS/SAM binding site; other site 485916009581 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 485916009582 iron binding site [ion binding]; other site 485916009583 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 485916009584 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 485916009585 active site 485916009586 HIGH motif; other site 485916009587 nucleotide binding site [chemical binding]; other site 485916009588 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 485916009589 KMSKS motif; other site 485916009590 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 485916009591 HPP family; Region: HPP; pfam04982 485916009592 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 485916009593 ABC-2 type transporter; Region: ABC2_membrane; cl11417 485916009594 nodulation ABC transporter NodI; Provisional; Region: PRK13537 485916009595 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916009596 Walker A/P-loop; other site 485916009597 ATP binding site [chemical binding]; other site 485916009598 Q-loop/lid; other site 485916009599 ABC transporter signature motif; other site 485916009600 Walker B; other site 485916009601 D-loop; other site 485916009602 H-loop/switch region; other site 485916009603 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916009604 dimer interface [polypeptide binding]; other site 485916009605 putative CheW interface [polypeptide binding]; other site 485916009606 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 485916009607 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; cl15780 485916009608 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 485916009609 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916009610 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916009611 Probable transposase; Region: OrfB_IS605; pfam01385 485916009612 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916009613 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916009614 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 485916009615 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916009616 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 485916009617 active site 485916009618 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 485916009619 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 485916009620 ATP binding site [chemical binding]; other site 485916009621 putative Mg++ binding site [ion binding]; other site 485916009622 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 485916009623 nucleotide binding region [chemical binding]; other site 485916009624 ATP-binding site [chemical binding]; other site 485916009625 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916009626 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916009627 Probable transposase; Region: OrfB_IS605; pfam01385 485916009628 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916009629 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 485916009630 Ligand Binding Site [chemical binding]; other site 485916009631 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 485916009632 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 485916009633 NodB motif; other site 485916009634 active site 485916009635 catalytic site [active] 485916009636 Cd binding site [ion binding]; other site 485916009637 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 485916009638 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 485916009639 Walker A/P-loop; other site 485916009640 ATP binding site [chemical binding]; other site 485916009641 Q-loop/lid; other site 485916009642 ABC transporter signature motif; other site 485916009643 Walker B; other site 485916009644 D-loop; other site 485916009645 H-loop/switch region; other site 485916009646 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 485916009647 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 485916009648 Walker A/P-loop; other site 485916009649 ATP binding site [chemical binding]; other site 485916009650 Q-loop/lid; other site 485916009651 ABC transporter signature motif; other site 485916009652 Walker B; other site 485916009653 D-loop; other site 485916009654 H-loop/switch region; other site 485916009655 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 485916009656 TM-ABC transporter signature motif; other site 485916009657 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 485916009658 TM-ABC transporter signature motif; other site 485916009659 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 485916009660 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 485916009661 putative ligand binding site [chemical binding]; other site 485916009662 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 485916009663 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 485916009664 putative ligand binding site [chemical binding]; other site 485916009665 Esterase/lipase [General function prediction only]; Region: COG1647 485916009666 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 485916009667 lysophospholipid transporter LplT; Provisional; Region: PRK11195 485916009668 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 485916009669 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 485916009670 putative acyl-acceptor binding pocket; other site 485916009671 AMP-binding enzyme; Region: AMP-binding; cl15778 485916009672 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916009673 Helix-turn-helix domains; Region: HTH; cl00088 485916009674 GTPase RsgA; Reviewed; Region: PRK01889 485916009675 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 485916009676 RNA binding site [nucleotide binding]; other site 485916009677 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 485916009678 GTPase/Zn-binding domain interface [polypeptide binding]; other site 485916009679 GTP/Mg2+ binding site [chemical binding]; other site 485916009680 G4 box; other site 485916009681 G5 box; other site 485916009682 G1 box; other site 485916009683 Switch I region; other site 485916009684 G2 box; other site 485916009685 G3 box; other site 485916009686 Switch II region; other site 485916009687 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 485916009688 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 485916009689 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 485916009690 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 485916009691 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 485916009692 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 485916009693 dimer interface [polypeptide binding]; other site 485916009694 [2Fe-2S] cluster binding site [ion binding]; other site 485916009695 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 485916009696 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 485916009697 SLBB domain; Region: SLBB; pfam10531 485916009698 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 485916009699 4Fe-4S binding domain; Region: Fer4; cl02805 485916009700 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 485916009701 4Fe-4S binding domain; Region: Fer4; cl02805 485916009702 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 485916009703 putative dimer interface [polypeptide binding]; other site 485916009704 [2Fe-2S] cluster binding site [ion binding]; other site 485916009705 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 485916009706 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 485916009707 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 485916009708 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 485916009709 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 485916009710 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 485916009711 putative active site [active] 485916009712 heme pocket [chemical binding]; other site 485916009713 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 485916009714 dimer interface [polypeptide binding]; other site 485916009715 phosphorylation site [posttranslational modification] 485916009716 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916009717 ATP binding site [chemical binding]; other site 485916009718 Mg2+ binding site [ion binding]; other site 485916009719 G-X-G motif; other site 485916009720 FeoA domain; Region: FeoA; cl00838 485916009721 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 485916009722 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 485916009723 G1 box; other site 485916009724 GTP/Mg2+ binding site [chemical binding]; other site 485916009725 Switch I region; other site 485916009726 G2 box; other site 485916009727 G3 box; other site 485916009728 Switch II region; other site 485916009729 G4 box; other site 485916009730 G5 box; other site 485916009731 Nucleoside recognition; Region: Gate; cl00486 485916009732 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 485916009733 Nucleoside recognition; Region: Gate; cl00486 485916009734 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 485916009735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916009736 S-layer homology domain; Region: SLH; pfam00395 485916009737 S-layer homology domain; Region: SLH; pfam00395 485916009738 phosphoenolpyruvate synthase; Validated; Region: PRK06241 485916009739 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 485916009740 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 485916009741 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 485916009742 Helix-turn-helix domains; Region: HTH; cl00088 485916009743 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916009744 Cupin domain; Region: Cupin_2; cl09118 485916009745 Helix-turn-helix domain; Region: HTH_18; pfam12833 485916009746 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 485916009747 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 485916009748 Ligand Binding Site [chemical binding]; other site 485916009749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 485916009750 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 485916009751 Probable transposase; Region: OrfB_IS605; pfam01385 485916009752 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 485916009753 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916009754 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 485916009755 dimer interface [polypeptide binding]; other site 485916009756 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 485916009757 dimer interface [polypeptide binding]; other site 485916009758 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 485916009759 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916009760 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 485916009761 DNA binding residues [nucleotide binding] 485916009762 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 485916009763 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916009764 adenylosuccinate lyase; Provisional; Region: PRK09285 485916009765 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 485916009766 tetramer interface [polypeptide binding]; other site 485916009767 active site 485916009768 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916009769 metal binding site [ion binding]; metal-binding site 485916009770 active site 485916009771 I-site; other site 485916009772 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 485916009773 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 485916009774 HicB family; Region: HicB; pfam05534 485916009775 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 485916009776 non-specific DNA binding site [nucleotide binding]; other site 485916009777 salt bridge; other site 485916009778 sequence-specific DNA binding site [nucleotide binding]; other site 485916009779 Domain of unknown function (DUF955); Region: DUF955; cl01076 485916009780 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 485916009781 putative active site [active] 485916009782 PemK-like protein; Region: PemK; cl00995 485916009783 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916009784 KilA-N domain; Region: KilA-N; pfam04383 485916009785 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 485916009786 dimerization interface [polypeptide binding]; other site 485916009787 KilA-N domain; Region: KilA-N; pfam04383 485916009788 Recombinase; Region: Recombinase; pfam07508 485916009789 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 485916009790 Predicted DNA binding protein [General function prediction only]; Region: COG3413 485916009791 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 485916009792 DNA binding residues [nucleotide binding] 485916009793 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 485916009794 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 485916009795 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 485916009796 non-specific DNA binding site [nucleotide binding]; other site 485916009797 salt bridge; other site 485916009798 sequence-specific DNA binding site [nucleotide binding]; other site 485916009799 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 485916009800 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 485916009801 Coenzyme A binding pocket [chemical binding]; other site 485916009802 Thymidylate synthase complementing protein; Region: Thy1; cl03630 485916009803 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 485916009804 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916009805 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 485916009806 trimer interface [polypeptide binding]; other site 485916009807 active site 485916009808 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 485916009809 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 485916009810 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 485916009811 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 485916009812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 485916009813 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 485916009814 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 485916009815 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 485916009816 putative active site pocket [active] 485916009817 dimerization interface [polypeptide binding]; other site 485916009818 putative catalytic residue [active] 485916009819 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 485916009820 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 485916009821 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 485916009822 Walker A/P-loop; other site 485916009823 ATP binding site [chemical binding]; other site 485916009824 Q-loop/lid; other site 485916009825 ABC transporter signature motif; other site 485916009826 Walker B; other site 485916009827 D-loop; other site 485916009828 H-loop/switch region; other site 485916009829 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 485916009830 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 485916009831 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 485916009832 DNA binding site [nucleotide binding] 485916009833 Int/Topo IB signature motif; other site 485916009834 active site 485916009835 Helix-turn-helix of insertion element transposase; Region: HTH_Tnp_1_2; pfam13022 485916009836 Helix-turn-helix domains; Region: HTH; cl00088 485916009837 Helix-turn-helix domains; Region: HTH; cl00088 485916009838 Winged helix-turn helix; Region: HTH_29; pfam13551 485916009839 Winged helix-turn helix; Region: HTH_33; pfam13592 485916009840 Integrase core domain; Region: rve; cl01316 485916009841 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 485916009842 AAA domain; Region: AAA_23; pfam13476 485916009843 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916009844 Walker A/P-loop; other site 485916009845 ATP binding site [chemical binding]; other site 485916009846 AAA domain; Region: AAA_21; pfam13304 485916009847 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 485916009848 ABC transporter signature motif; other site 485916009849 Walker B; other site 485916009850 D-loop; other site 485916009851 H-loop/switch region; other site 485916009852 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 485916009853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916009854 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 485916009855 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 485916009856 DNA binding site [nucleotide binding] 485916009857 Int/Topo IB signature motif; other site 485916009858 active site 485916009859 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916009860 Zeta toxin; Region: Zeta_toxin; pfam06414 485916009861 Helix-turn-helix domains; Region: HTH; cl00088 485916009862 Winged helix-turn helix; Region: HTH_29; pfam13551 485916009863 Integrase core domain; Region: rve; cl01316 485916009864 Helix-turn-helix domains; Region: HTH; cl00088 485916009865 Winged helix-turn helix; Region: HTH_29; pfam13551 485916009866 Winged helix-turn helix; Region: HTH_33; pfam13592 485916009867 Integrase core domain; Region: rve; cl01316 485916009868 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 485916009869 SmpB-tmRNA interface; other site 485916009870 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 485916009871 CoenzymeA binding site [chemical binding]; other site 485916009872 subunit interaction site [polypeptide binding]; other site 485916009873 PHB binding site; other site 485916009874 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 485916009875 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 485916009876 enolase; Provisional; Region: eno; PRK00077 485916009877 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 485916009878 dimer interface [polypeptide binding]; other site 485916009879 metal binding site [ion binding]; metal-binding site 485916009880 substrate binding pocket [chemical binding]; other site 485916009881 Sulfatase; Region: Sulfatase; cl10460 485916009882 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 485916009883 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 485916009884 substrate binding site [chemical binding]; other site 485916009885 dimer interface [polypeptide binding]; other site 485916009886 catalytic triad [active] 485916009887 Phosphoglycerate kinase; Region: PGK; pfam00162 485916009888 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 485916009889 substrate binding site [chemical binding]; other site 485916009890 hinge regions; other site 485916009891 ADP binding site [chemical binding]; other site 485916009892 catalytic site [active] 485916009893 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 485916009894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916009895 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 485916009896 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 485916009897 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 485916009898 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 485916009899 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 485916009900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 485916009901 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 485916009902 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 485916009903 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 485916009904 phosphate binding site [ion binding]; other site 485916009905 putative substrate binding pocket [chemical binding]; other site 485916009906 dimer interface [polypeptide binding]; other site 485916009907 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 485916009908 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 485916009909 putative hydrolase; Validated; Region: PRK09248 485916009910 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 485916009911 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 485916009912 dimer interface [polypeptide binding]; other site 485916009913 active site 485916009914 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 485916009915 dimer interface [polypeptide binding]; other site 485916009916 active site 485916009917 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 485916009918 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 485916009919 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 485916009920 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 485916009921 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 485916009922 motif II; other site 485916009923 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 485916009924 hexokinase; Provisional; Region: PTZ00107 485916009925 Hexokinase; Region: Hexokinase_1; pfam00349 485916009926 Hexokinase; Region: Hexokinase_2; pfam03727 485916009927 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 485916009928 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916009929 Family description; Region: UvrD_C_2; cl15862 485916009930 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 485916009931 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 485916009932 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 485916009933 active site 485916009934 dimer interface [polypeptide binding]; other site 485916009935 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 485916009936 dimer interface [polypeptide binding]; other site 485916009937 active site 485916009938 Flavin Reductases; Region: FlaRed; cl00801 485916009939 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 485916009940 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 485916009941 GIY-YIG motif/motif A; other site 485916009942 active site 485916009943 catalytic site [active] 485916009944 putative DNA binding site [nucleotide binding]; other site 485916009945 metal binding site [ion binding]; metal-binding site 485916009946 UvrB/uvrC motif; Region: UVR; pfam02151 485916009947 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 485916009948 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 485916009949 DNA binding site [nucleotide binding] 485916009950 PAS domain S-box; Region: sensory_box; TIGR00229 485916009951 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916009952 metal binding site [ion binding]; metal-binding site 485916009953 active site 485916009954 I-site; other site 485916009955 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916009956 Zn2+ binding site [ion binding]; other site 485916009957 Mg2+ binding site [ion binding]; other site 485916009958 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]; Region: COG1245 485916009959 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916009960 Walker A/P-loop; other site 485916009961 ATP binding site [chemical binding]; other site 485916009962 ABC transporter signature motif; other site 485916009963 Walker B; other site 485916009964 D-loop; other site 485916009965 H-loop/switch region; other site 485916009966 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 485916009967 putative active site [active] 485916009968 putative metal-binding site [ion binding]; other site 485916009969 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 485916009970 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 485916009971 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 485916009972 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 485916009973 excinuclease ABC subunit B; Provisional; Region: PRK05298 485916009974 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 485916009975 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 485916009976 ATP-binding site [chemical binding]; other site 485916009977 ATP binding site [chemical binding]; other site 485916009978 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 485916009979 nucleotide binding region [chemical binding]; other site 485916009980 ATP-binding site [chemical binding]; other site 485916009981 Ultra-violet resistance protein B; Region: UvrB; pfam12344 485916009982 UvrB/uvrC motif; Region: UVR; pfam02151 485916009983 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 485916009984 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 485916009985 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 485916009986 Fe-S cluster binding site [ion binding]; other site 485916009987 active site 485916009988 Predicted RNA-binding protein; Region: RNA_bind_2; cl00662 485916009989 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 485916009990 protein binding site [polypeptide binding]; other site 485916009991 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 485916009992 C-terminal peptidase (prc); Region: prc; TIGR00225 485916009993 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 485916009994 protein binding site [polypeptide binding]; other site 485916009995 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 485916009996 Catalytic dyad [active] 485916009997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 485916009998 Peptidase family M23; Region: Peptidase_M23; pfam01551 485916009999 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 485916010000 FtsX-like permease family; Region: FtsX; cl15850 485916010001 FtsX-like permease family; Region: FtsX; cl15850 485916010002 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 485916010003 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916010004 Walker A/P-loop; other site 485916010005 ATP binding site [chemical binding]; other site 485916010006 Q-loop/lid; other site 485916010007 ABC transporter signature motif; other site 485916010008 Walker B; other site 485916010009 D-loop; other site 485916010010 H-loop/switch region; other site 485916010011 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 485916010012 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 485916010013 PYR/PP interface [polypeptide binding]; other site 485916010014 dimer interface [polypeptide binding]; other site 485916010015 TPP binding site [chemical binding]; other site 485916010016 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 485916010017 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 485916010018 TPP-binding site [chemical binding]; other site 485916010019 dimer interface [polypeptide binding]; other site 485916010020 Uncharacterized conserved protein [Function unknown]; Region: COG1284 485916010021 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 485916010022 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 485916010023 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 485916010024 peptide chain release factor 2; Validated; Region: prfB; PRK00578 485916010025 RF-1 domain; Region: RF-1; cl02875 485916010026 RF-1 domain; Region: RF-1; cl02875 485916010027 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 485916010028 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916010029 ATP binding site [chemical binding]; other site 485916010030 putative Mg++ binding site [ion binding]; other site 485916010031 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 485916010032 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 A site; Region: RaiA; cd00552 485916010033 30S subunit binding site; other site 485916010034 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 protein; Region: CSP_CDS; cd04458 485916010035 DNA-binding site [nucleotide binding]; DNA binding site 485916010036 RNA-binding motif; other site 485916010037 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916010038 putative peptidoglycan binding site; other site 485916010039 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 485916010040 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 485916010041 VanW like protein; Region: VanW; pfam04294 485916010042 G5 domain; Region: G5; pfam07501 485916010043 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 485916010044 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 485916010045 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 485916010046 catalytic residue [active] 485916010047 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 485916010048 EamA-like transporter family; Region: EamA; cl01037 485916010049 comF family protein; Region: comF; TIGR00201 485916010050 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 485916010051 active site 485916010052 GAF domain; Region: GAF_2; pfam13185 485916010053 GAF domain; Region: GAF; cl15785 485916010054 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916010055 metal binding site [ion binding]; metal-binding site 485916010056 active site 485916010057 I-site; other site 485916010058 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 485916010059 active site 485916010060 S-adenosylmethionine synthetase; Validated; Region: PRK05250 485916010061 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 485916010062 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 485916010063 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 485916010064 S-layer homology domain; Region: SLH; pfam00395 485916010065 S-layer homology domain; Region: SLH; pfam00395 485916010066 S-layer homology domain; Region: SLH; pfam00395 485916010067 S-layer homology domain; Region: SLH; pfam00395 485916010068 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 485916010069 S-layer homology domain; Region: SLH; pfam00395 485916010070 S-layer homology domain; Region: SLH; pfam00395 485916010071 S-layer homology domain; Region: SLH; pfam00395 485916010072 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 485916010073 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 485916010074 VanZ like family; Region: VanZ; cl01971 485916010075 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 485916010076 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 485916010077 putative NAD(P) binding site [chemical binding]; other site 485916010078 active site 485916010079 putative substrate binding site [chemical binding]; other site 485916010080 Fic family protein [Function unknown]; Region: COG3177 485916010081 Fic/DOC family; Region: Fic; cl00960 485916010082 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 485916010083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916010084 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 485916010085 NAD(P) binding site [chemical binding]; other site 485916010086 homodimer interface [polypeptide binding]; other site 485916010087 substrate binding site [chemical binding]; other site 485916010088 active site 485916010089 glutamine synthetase, type I; Region: GlnA; TIGR00653 485916010090 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 485916010091 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 485916010092 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 485916010093 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 485916010094 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 485916010095 NAD(P) binding site [chemical binding]; other site 485916010096 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 485916010097 active site 485916010098 NTP binding site [chemical binding]; other site 485916010099 metal binding triad [ion binding]; metal-binding site 485916010100 antibiotic binding site [chemical binding]; other site 485916010101 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 485916010102 non-specific DNA binding site [nucleotide binding]; other site 485916010103 salt bridge; other site 485916010104 sequence-specific DNA binding site [nucleotide binding]; other site 485916010105 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 485916010106 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]; Region: COG3620 485916010107 non-specific DNA binding site [nucleotide binding]; other site 485916010108 salt bridge; other site 485916010109 sequence-specific DNA binding site [nucleotide binding]; other site 485916010110 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 485916010111 Helix-turn-helix domains; Region: HTH; cl00088 485916010112 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 485916010113 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 485916010114 YvrJ protein family; Region: YvrJ; pfam12841 485916010115 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916010116 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 485916010117 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 485916010118 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 485916010119 putative active site [active] 485916010120 putative NTP binding site [chemical binding]; other site 485916010121 putative nucleic acid binding site [nucleotide binding]; other site 485916010122 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 485916010123 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 485916010124 non-specific DNA binding site [nucleotide binding]; other site 485916010125 salt bridge; other site 485916010126 sequence-specific DNA binding site [nucleotide binding]; other site 485916010127 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 485916010128 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 485916010129 active site 485916010130 NTP binding site [chemical binding]; other site 485916010131 metal binding triad [ion binding]; metal-binding site 485916010132 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916010133 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 485916010134 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916010135 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 485916010136 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 485916010137 DNA binding site [nucleotide binding] 485916010138 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 485916010139 HEPN domain; Region: HEPN; cl00824 485916010140 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 485916010141 active site 485916010142 NTP binding site [chemical binding]; other site 485916010143 metal binding triad [ion binding]; metal-binding site 485916010144 antibiotic binding site [chemical binding]; other site 485916010145 Transposase [DNA replication, recombination, and repair]; Region: COG5421 485916010146 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 485916010147 catalytic motif [active] 485916010148 Catalytic residue [active] 485916010149 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 485916010150 oligomeric interface; other site 485916010151 putative active site [active] 485916010152 homodimer interface [polypeptide binding]; other site 485916010153 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 485916010154 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 485916010155 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 485916010156 YvrJ protein family; Region: YvrJ; pfam12841 485916010157 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 485916010158 YwpF-like protein; Region: YwpF; pfam14183 485916010159 fructokinase; Reviewed; Region: PRK09557 485916010160 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 485916010161 active site 485916010162 NTP binding site [chemical binding]; other site 485916010163 metal binding triad [ion binding]; metal-binding site 485916010164 antibiotic binding site [chemical binding]; other site 485916010165 HEPN domain; Region: HEPN; cl00824 485916010166 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916010167 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 485916010168 UDP-glucose 4-epimerase; Region: PLN02240 485916010169 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 485916010170 NAD binding site [chemical binding]; other site 485916010171 homodimer interface [polypeptide binding]; other site 485916010172 active site 485916010173 substrate binding site [chemical binding]; other site 485916010174 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 485916010175 oligomeric interface; other site 485916010176 putative active site [active] 485916010177 homodimer interface [polypeptide binding]; other site 485916010178 HEPN domain; Region: HEPN; cl00824 485916010179 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 485916010180 DNA repair and recombination protein RadA; Validated; Region: radA; PRK04301 485916010181 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 485916010182 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 485916010183 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 485916010184 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 485916010185 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916010186 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 485916010187 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 485916010188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916010189 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 485916010190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916010191 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916010192 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916010193 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 485916010194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916010195 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 485916010196 NAD(P) binding site [chemical binding]; other site 485916010197 homodimer interface [polypeptide binding]; other site 485916010198 substrate binding site [chemical binding]; other site 485916010199 active site 485916010200 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 485916010201 UDP-glucose 4-epimerase; Region: PLN02240 485916010202 NAD binding site [chemical binding]; other site 485916010203 homodimer interface [polypeptide binding]; other site 485916010204 active site 485916010205 substrate binding site [chemical binding]; other site 485916010206 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 485916010207 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916010208 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 485916010209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916010210 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 485916010211 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 important for the assimilation of...; Region: APSK; cd02027 485916010212 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 485916010213 ligand-binding site [chemical binding]; other site 485916010214 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 485916010215 Transposase; Region: DDE_Tnp_ISL3; pfam01610 485916010216 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 485916010217 Transposase; Region: DDE_Tnp_ISL3; pfam01610 485916010218 MatE; Region: MatE; cl10513 485916010219 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 485916010220 trimer interface [polypeptide binding]; other site 485916010221 active site 485916010222 substrate binding site [chemical binding]; other site 485916010223 CoA binding site [chemical binding]; other site 485916010224 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 485916010225 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 485916010226 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 485916010227 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 485916010228 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916010229 putative ADP-binding pocket [chemical binding]; other site 485916010230 Bacterial sugar transferase; Region: Bac_transf; cl00939 485916010231 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 485916010232 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 485916010233 Walker A/P-loop; other site 485916010234 ATP binding site [chemical binding]; other site 485916010235 Q-loop/lid; other site 485916010236 ABC transporter signature motif; other site 485916010237 Walker B; other site 485916010238 D-loop; other site 485916010239 H-loop/switch region; other site 485916010240 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 485916010241 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 485916010242 FtsX-like permease family; Region: FtsX; cl15850 485916010243 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 485916010244 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 485916010245 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916010246 Chain length determinant protein; Region: Wzz; cl15801 485916010247 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 485916010248 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 485916010249 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 485916010250 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 485916010251 active site 485916010252 substrate binding site [chemical binding]; other site 485916010253 metal binding site [ion binding]; metal-binding site 485916010254 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 485916010255 active site 485916010256 tetramer interface; other site 485916010257 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 485916010258 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 485916010259 Mg++ binding site [ion binding]; other site 485916010260 putative catalytic motif [active] 485916010261 substrate binding site [chemical binding]; other site 485916010262 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 485916010263 Domain of unknown function (DUF4330); Region: DUF4330; pfam14221 485916010264 O-Antigen ligase; Region: Wzy_C; cl04850 485916010265 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 485916010266 putative homodimer interface [polypeptide binding]; other site 485916010267 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 485916010268 putative homodimer interface [polypeptide binding]; other site 485916010269 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 485916010270 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 485916010271 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 485916010272 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 485916010273 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 485916010274 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 485916010275 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 485916010276 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 485916010277 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 485916010278 NAD binding site [chemical binding]; other site 485916010279 substrate binding site [chemical binding]; other site 485916010280 homodimer interface [polypeptide binding]; other site 485916010281 active site 485916010282 Cupin domain; Region: Cupin_2; cl09118 485916010283 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 485916010284 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 485916010285 NADP binding site [chemical binding]; other site 485916010286 active site 485916010287 putative substrate binding site [chemical binding]; other site 485916010288 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 485916010289 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 485916010290 substrate binding site; other site 485916010291 tetramer interface; other site 485916010292 GtrA-like protein; Region: GtrA; cl00971 485916010293 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 485916010294 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 485916010295 Ligand binding site; other site 485916010296 Putative Catalytic site; other site 485916010297 DXD motif; other site 485916010298 shikimate kinase; Reviewed; Region: aroK; PRK00131 485916010299 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 important for the assimilation of...; Region: APSK; cd02027 485916010300 ligand-binding site [chemical binding]; other site 485916010301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 485916010302 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 485916010303 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 485916010304 active site 485916010305 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 485916010306 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 485916010307 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 485916010308 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 485916010309 Walker A/P-loop; other site 485916010310 ATP binding site [chemical binding]; other site 485916010311 Q-loop/lid; other site 485916010312 ABC transporter signature motif; other site 485916010313 Walker B; other site 485916010314 D-loop; other site 485916010315 H-loop/switch region; other site 485916010316 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 485916010317 putative carbohydrate binding site [chemical binding]; other site 485916010318 ABC-2 type transporter; Region: ABC2_membrane; cl11417 485916010319 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 485916010320 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 485916010321 NAD binding site [chemical binding]; other site 485916010322 substrate binding site [chemical binding]; other site 485916010323 homodimer interface [polypeptide binding]; other site 485916010324 active site 485916010325 Cupin domain; Region: Cupin_2; cl09118 485916010326 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 485916010327 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 485916010328 NADP binding site [chemical binding]; other site 485916010329 active site 485916010330 putative substrate binding site [chemical binding]; other site 485916010331 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 485916010332 substrate binding site; other site 485916010333 tetramer interface; other site 485916010334 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 485916010335 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 485916010336 active site 485916010337 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 485916010338 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 485916010339 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 485916010340 Probable Catalytic site; other site 485916010341 metal-binding site 485916010342 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 485916010343 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916010344 Bacterial sugar transferase; Region: Bac_transf; cl00939 485916010345 O-Antigen ligase; Region: Wzy_C; cl04850 485916010346 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 485916010347 TPR motif; other site 485916010348 binding surface 485916010349 S-layer homology domain; Region: SLH; pfam00395 485916010350 S-layer homology domain; Region: SLH; pfam00395 485916010351 S-layer homology domain; Region: SLH; pfam00395 485916010352 S-layer homology domain; Region: SLH; pfam00395 485916010353 S-layer homology domain; Region: SLH; pfam00395 485916010354 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 485916010355 putative active site [active] 485916010356 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 485916010357 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916010358 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916010359 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 485916010360 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 485916010361 Transcriptional regulators [Transcription]; Region: MarR; COG1846 485916010362 Helix-turn-helix domains; Region: HTH; cl00088 485916010363 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 485916010364 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916010365 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916010366 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 485916010367 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 485916010368 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 485916010369 DNA binding residues [nucleotide binding] 485916010370 Putative zinc-finger; Region: zf-HC2; cl15806 485916010371 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 485916010372 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 485916010373 active site 485916010374 catalytic triad [active] 485916010375 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 485916010376 S-layer homology domain; Region: SLH; pfam00395 485916010377 S-layer homology domain; Region: SLH; pfam00395 485916010378 rod shape-determining protein Mbl; Provisional; Region: PRK13928 485916010379 Cell division protein FtsA; Region: FtsA; cl11496 485916010380 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916010381 S-layer homology domain; Region: SLH; pfam00395 485916010382 S-layer homology domain; Region: SLH; pfam00395 485916010383 Peptidase family M23; Region: Peptidase_M23; pfam01551 485916010384 stage II sporulation protein D; Region: spore_II_D; TIGR02870 485916010385 Stage II sporulation protein; Region: SpoIID; pfam08486 485916010386 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 485916010387 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 485916010388 hinge; other site 485916010389 active site 485916010390 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 485916010391 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 485916010392 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 485916010393 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 485916010394 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 485916010395 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 485916010396 alpha subunit interaction interface [polypeptide binding]; other site 485916010397 Walker A motif; other site 485916010398 ATP binding site [chemical binding]; other site 485916010399 Walker B motif; other site 485916010400 inhibitor binding site; inhibition site 485916010401 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 485916010402 ATP synthase; Region: ATP-synt; cl00365 485916010403 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 485916010404 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 485916010405 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 485916010406 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 485916010407 beta subunit interaction interface [polypeptide binding]; other site 485916010408 Walker A motif; other site 485916010409 ATP binding site [chemical binding]; other site 485916010410 Walker B motif; other site 485916010411 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 485916010412 Plant ATP synthase F0; Region: YMF19; cl07975 485916010413 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 485916010414 Plant ATP synthase F0; Region: YMF19; cl07975 485916010415 ATP synthase subunit C; Region: ATP-synt_C; cl00466 485916010416 ATP synthase A chain; Region: ATP-synt_A; cl00413 485916010417 ATP synthase I chain; Region: ATP_synt_I; cl09170 485916010418 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 485916010419 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 485916010420 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 485916010421 active site 485916010422 homodimer interface [polypeptide binding]; other site 485916010423 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 485916010424 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 485916010425 catalytic motif [active] 485916010426 Zn binding site [ion binding]; other site 485916010427 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 485916010428 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 485916010429 dimer interface [polypeptide binding]; other site 485916010430 glycine-pyridoxal phosphate binding site [chemical binding]; other site 485916010431 active site 485916010432 folate binding site [chemical binding]; other site 485916010433 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 485916010434 Low molecular weight phosphatase family; Region: LMWPc; cd00115 485916010435 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 485916010436 active site 485916010437 Predicted membrane protein [Function unknown]; Region: COG1971 485916010438 Domain of unknown function DUF; Region: DUF204; pfam02659 485916010439 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 485916010440 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 485916010441 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 485916010442 ABC-ATPase subunit interface; other site 485916010443 dimer interface [polypeptide binding]; other site 485916010444 putative PBP binding regions; other site 485916010445 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 485916010446 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 485916010447 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 485916010448 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 485916010449 metal binding site [ion binding]; metal-binding site 485916010450 ferric uptake regulator; Provisional; Region: fur; PRK09462 485916010451 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 485916010452 metal binding site 2 [ion binding]; metal-binding site 485916010453 putative DNA binding helix; other site 485916010454 metal binding site 1 [ion binding]; metal-binding site 485916010455 dimer interface [polypeptide binding]; other site 485916010456 structural Zn2+ binding site [ion binding]; other site 485916010457 High-affinity nickel-transport protein; Region: NicO; cl00964 485916010458 High-affinity nickel-transport protein; Region: NicO; cl00964 485916010459 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 485916010460 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 485916010461 glutamine binding [chemical binding]; other site 485916010462 catalytic triad [active] 485916010463 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 485916010464 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 485916010465 chorismate binding enzyme; Region: Chorismate_bind; cl10555 485916010466 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 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 485916010467 homodimer interface [polypeptide binding]; other site 485916010468 substrate-cofactor binding pocket; other site 485916010469 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916010470 catalytic residue [active] 485916010471 Fic family protein [Function unknown]; Region: COG3177 485916010472 Fic/DOC family; Region: Fic; cl00960 485916010473 OpgC protein; Region: OpgC_C; cl00792 485916010474 Acyltransferase family; Region: Acyl_transf_3; pfam01757 485916010475 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 485916010476 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 485916010477 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 485916010478 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 485916010479 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 485916010480 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 485916010481 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 485916010482 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916010483 putative peptidoglycan binding site; other site 485916010484 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 485916010485 E-class dimer interface [polypeptide binding]; other site 485916010486 P-class dimer interface [polypeptide binding]; other site 485916010487 active site 485916010488 Cu2+ binding site [ion binding]; other site 485916010489 Zn2+ binding site [ion binding]; other site 485916010490 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 485916010491 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916010492 active site 485916010493 phosphorylation site [posttranslational modification] 485916010494 intermolecular recognition site; other site 485916010495 dimerization interface [polypeptide binding]; other site 485916010496 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916010497 Zn2+ binding site [ion binding]; other site 485916010498 Mg2+ binding site [ion binding]; other site 485916010499 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 485916010500 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 485916010501 putative active site [active] 485916010502 heme pocket [chemical binding]; other site 485916010503 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 485916010504 dimer interface [polypeptide binding]; other site 485916010505 phosphorylation site [posttranslational modification] 485916010506 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916010507 ATP binding site [chemical binding]; other site 485916010508 Mg2+ binding site [ion binding]; other site 485916010509 G-X-G motif; other site 485916010510 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916010511 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916010512 active site 485916010513 phosphorylation site [posttranslational modification] 485916010514 intermolecular recognition site; other site 485916010515 dimerization interface [polypeptide binding]; other site 485916010516 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 485916010517 DNA binding site [nucleotide binding] 485916010518 NMT1-like family; Region: NMT1_2; cl15260 485916010519 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 485916010520 nucleosidase; Provisional; Region: PRK05634 485916010521 Protein of unknown function DUF45; Region: DUF45; cl00636 485916010522 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 485916010523 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 485916010524 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 485916010525 ATP binding site [chemical binding]; other site 485916010526 putative Mg++ binding site [ion binding]; other site 485916010527 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 485916010528 non-specific DNA binding site [nucleotide binding]; other site 485916010529 salt bridge; other site 485916010530 sequence-specific DNA binding site [nucleotide binding]; other site 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; cl15761 485916010532 BRO family, N-terminal domain; Region: Bro-N; cl10591 485916010533 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 485916010534 Integrase core domain; Region: rve; cl01316 485916010535 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 485916010536 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 485916010537 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 485916010538 non-specific DNA binding site [nucleotide binding]; other site 485916010539 salt bridge; other site 485916010540 sequence-specific DNA binding site [nucleotide binding]; other site 485916010541 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 485916010542 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 485916010543 Walker A motif; other site 485916010544 ATP binding site [chemical binding]; other site 485916010545 Walker B motif; other site 485916010546 arginine finger; other site 485916010547 Mor transcription activator family; Region: Mor; cl02360 485916010548 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 485916010549 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 485916010550 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 485916010551 putative homodimer interface [polypeptide binding]; other site 485916010552 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 485916010553 active site 485916010554 metal binding site [ion binding]; metal-binding site 485916010555 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 485916010556 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 485916010557 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 485916010558 peptidase; Reviewed; Region: PRK13004 485916010559 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 485916010560 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 485916010561 Phage XkdN-like protein; Region: XkdN; pfam08890 485916010562 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 485916010563 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 485916010564 putative peptidoglycan binding site; other site 485916010565 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 485916010566 Baseplate J-like protein; Region: Baseplate_J; cl01294 485916010567 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 485916010568 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 485916010569 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 485916010570 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 485916010571 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 485916010572 putative active site [active] 485916010573 putative NTP binding site [chemical binding]; other site 485916010574 putative nucleic acid binding site [nucleotide binding]; other site 485916010575 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 485916010576 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 485916010577 HsdM N-terminal domain; Region: HsdM_N; pfam12161 485916010578 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 485916010579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916010580 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 485916010581 active site 485916010582 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 485916010583 metal binding site [ion binding]; metal-binding site 485916010584 active site 485916010585 I-site; other site 485916010586 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 485916010587 Zn2+ binding site [ion binding]; other site 485916010588 Mg2+ binding site [ion binding]; other site 485916010589 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 485916010590 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; cl00120 485916010591 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 485916010592 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 485916010593 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 485916010594 NAD(P) binding site [chemical binding]; other site 485916010595 catalytic residues [active] 485916010596 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 485916010597 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 485916010598 active site 485916010599 NAD binding site [chemical binding]; other site 485916010600 metal binding site [ion binding]; metal-binding site 485916010601 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 485916010602 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 485916010603 active site 485916010604 mycofactocin radical SAM maturase; Region: rSAM_MSMEG_1423; TIGR03962 485916010605 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 485916010606 FeS/SAM binding site; other site 485916010607 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 485916010608 mycofactocin system RPExFGAL protein; Region: Ac_RPExFGAL; TIGR03967 485916010609 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 485916010610 Ligand binding site [chemical binding]; other site 485916010611 Electron transfer flavoprotein domain; Region: ETF; pfam01012 485916010612 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 485916010613 putative oxidoreductase FixC; Provisional; Region: PRK10157 485916010614 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 485916010615 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 485916010616 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 485916010617 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 485916010618 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 485916010619 putative active site [active] 485916010620 putative FMN binding site [chemical binding]; other site 485916010621 putative substrate binding site [chemical binding]; other site 485916010622 putative catalytic residue [active] 485916010623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916010624 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 485916010625 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; cl09108 485916010626 phosphate binding site [ion binding]; other site 485916010627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916010628 Bacterial Ig-like domain; Region: Big_5; cl01012 485916010629 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 485916010630 Predicted permease; Region: DUF318; pfam03773 485916010631 Predicted permeases [General function prediction only]; Region: COG0701 485916010632 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 485916010633 dimerization interface [polypeptide binding]; other site 485916010634 putative DNA binding site [nucleotide binding]; other site 485916010635 putative Zn2+ binding site [ion binding]; other site 485916010636 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 485916010637 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 485916010638 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 485916010639 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 485916010640 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916010641 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 485916010642 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 485916010643 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 485916010644 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 485916010645 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 485916010646 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 485916010647 dinuclear metal binding motif [ion binding]; other site 485916010648 Transposase IS200 like; Region: Y1_Tnp; cl00848 485916010649 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 485916010650 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 485916010651 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 485916010652 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916010653 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 485916010654 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cd00172 485916010655 reactive center loop; other site 485916010656 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 485916010657 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 485916010658 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 485916010659 nucleoside/Zn binding site; other site 485916010660 dimer interface [polypeptide binding]; other site 485916010661 catalytic motif [active] 485916010662 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 485916010663 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 485916010664 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 485916010665 NAD binding site [chemical binding]; other site 485916010666 homodimer interface [polypeptide binding]; other site 485916010667 active site 485916010668 substrate binding site [chemical binding]; other site 485916010669 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 485916010670 GtrA-like protein; Region: GtrA; cl00971 485916010671 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 485916010672 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 485916010673 Ligand binding site; other site 485916010674 Putative Catalytic site; other site 485916010675 DXD motif; other site 485916010676 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 485916010677 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 485916010678 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 485916010679 SNF2 Helicase protein; Region: DUF3670; pfam12419 485916010680 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 485916010681 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 485916010682 ATP binding site [chemical binding]; other site 485916010683 putative Mg++ binding site [ion binding]; other site 485916010684 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 485916010685 nucleotide binding region [chemical binding]; other site 485916010686 ATP-binding site [chemical binding]; other site 485916010687 Uncharacterized conserved protein [Function unknown]; Region: COG4715 485916010688 SWIM zinc finger; Region: SWIM; cl15408 485916010689 glutamine synthetase, type I; Region: GlnA; TIGR00653 485916010690 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 485916010691 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 485916010692 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 485916010693 putative active site [active] 485916010694 catalytic site [active] 485916010695 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 485916010696 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_2; cd09105 485916010697 putative active site [active] 485916010698 catalytic site [active] 485916010699 Helix-turn-helix domains; Region: HTH; cl00088 485916010700 Winged helix-turn helix; Region: HTH_29; pfam13551 485916010701 Winged helix-turn helix; Region: HTH_33; pfam13592 485916010702 Integrase core domain; Region: rve; cl01316 485916010703 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 485916010704 putative substrate translocation pore; other site 485916010705 Helix-turn-helix domains; Region: HTH; cl00088 485916010706 Response regulator receiver domain; Region: Response_reg; pfam00072 485916010707 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916010708 active site 485916010709 phosphorylation site [posttranslational modification] 485916010710 intermolecular recognition site; other site 485916010711 dimerization interface [polypeptide binding]; other site 485916010712 PAS domain S-box; Region: sensory_box; TIGR00229 485916010713 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 485916010714 putative active site [active] 485916010715 heme pocket [chemical binding]; other site 485916010716 PAS domain S-box; Region: sensory_box; TIGR00229 485916010717 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 485916010718 putative active site [active] 485916010719 heme pocket [chemical binding]; other site 485916010720 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 485916010721 dimer interface [polypeptide binding]; other site 485916010722 phosphorylation site [posttranslational modification] 485916010723 Histidine kinase-like ATPases; This family includes several ATP-binding 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 485916010724 ATP binding site [chemical binding]; other site 485916010725 Mg2+ binding site [ion binding]; other site 485916010726 G-X-G motif; other site 485916010727 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 485916010728 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 485916010729 inhibitor-cofactor binding pocket; inhibition site 485916010730 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916010731 catalytic residue [active] 485916010732 AAA domain; Region: AAA_26; pfam13500 485916010733 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916010734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 485916010735 biotin synthase; Region: bioB; TIGR00433 485916010736 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 485916010737 FeS/SAM binding site; other site 485916010738 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 485916010739 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 485916010740 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 485916010741 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 485916010742 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 485916010743 seryl-tRNA synthetase; Provisional; Region: PRK05431 485916010744 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 485916010745 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 bound...; Region: SerRS_core; cd00770 485916010746 dimer interface [polypeptide binding]; other site 485916010747 active site 485916010748 motif 1; other site 485916010749 motif 2; other site 485916010750 motif 3; other site 485916010751 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 485916010752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916010753 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 485916010754 putative L-serine binding site [chemical binding]; other site 485916010755 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 485916010756 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 485916010757 homodimer interface [polypeptide binding]; other site 485916010758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 485916010759 catalytic residue [active] 485916010760 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 485916010761 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 485916010762 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 485916010763 dimer interface [polypeptide binding]; other site 485916010764 putative CheW interface [polypeptide binding]; other site 485916010765 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 485916010766 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 485916010767 non-specific DNA binding site [nucleotide binding]; other site 485916010768 salt bridge; other site 485916010769 sequence-specific DNA binding site [nucleotide binding]; other site 485916010770 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 485916010771 PAS domain; Region: PAS_9; pfam13426 485916010772 putative active site [active] 485916010773 heme pocket [chemical binding]; other site 485916010774 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 485916010775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 485916010776 active site 485916010777 phosphorylation site [posttranslational modification] 485916010778 intermolecular recognition site; other site 485916010779 dimerization interface [polypeptide binding]; other site 485916010780 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 485916010781 DNA binding site [nucleotide binding] 485916010782 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 485916010783 predicted active site [active] 485916010784 catalytic triad [active] 485916010785 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 485916010786 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 485916010787 active site 485916010788 multimer interface [polypeptide binding]; other site 485916010789 replicative DNA helicase; Region: DnaB; TIGR00665 485916010790 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 485916010791 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 485916010792 Walker A motif; other site 485916010793 ATP binding site [chemical binding]; other site 485916010794 Walker B motif; other site 485916010795 DNA binding loops [nucleotide binding] 485916010796 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 485916010797 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 485916010798 Walker A motif; other site 485916010799 ATP binding site [chemical binding]; other site 485916010800 Walker B motif; other site 485916010801 arginine finger; other site 485916010802 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 485916010803 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 485916010804 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 485916010805 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 485916010806 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 485916010807 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 485916010808 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 485916010809 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 485916010810 dimer interface [polypeptide binding]; other site 485916010811 ssDNA binding site [nucleotide binding]; other site 485916010812 tetramer (dimer of dimers) interface [polypeptide binding]; other site 485916010813 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 485916010814 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 485916010815 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 485916010816 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 485916010817 oligomer interface [polypeptide binding]; other site 485916010818 putative active site [active] 485916010819 metal binding site [ion binding]; metal-binding site 485916010820 Colicin V production protein; Region: Colicin_V; cl00567 485916010821 Uncharacterized membrane protein [Function unknown]; Region: COG3949 485916010822 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 485916010823 ParB-like partition proteins; Region: parB_part; TIGR00180 485916010824 ParB-like nuclease domain; Region: ParBc; cl02129 485916010825 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 485916010826 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 485916010827 P-loop; other site 485916010828 Magnesium ion binding site [ion binding]; other site 485916010829 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 485916010830 Magnesium ion binding site [ion binding]; other site 485916010831 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; cl15754 485916010832 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 485916010833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 485916010834 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 485916010835 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 485916010836 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 485916010837 trmE is a tRNA modification GTPase; Region: trmE; cd04164 485916010838 G1 box; other site 485916010839 GTP/Mg2+ binding site [chemical binding]; other site 485916010840 Switch I region; other site 485916010841 G2 box; other site 485916010842 Switch II region; other site 485916010843 G3 box; other site 485916010844 G4 box; other site 485916010845 G5 box; other site 485916010846 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 485916010847 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 485916010848 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 485916010849 G-X-X-G motif; other site 485916010850 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 485916010851 RxxxH motif; other site 485916010852 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 485916010853 Haemolytic domain; Region: Haemolytic; cl00506 485916010854 Ribonuclease P; Region: Ribonuclease_P; cl00457 485916010855 Ribosomal protein L34; Region: Ribosomal_L34; cl00370