-- dump date 20120504_141654 -- class Genbank::misc_feature -- table misc_feature_note -- id note 340177000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 340177000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 340177000003 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 340177000004 Walker A motif; other site 340177000005 ATP binding site [chemical binding]; other site 340177000006 Walker B motif; other site 340177000007 arginine finger; other site 340177000008 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 340177000009 DnaA box-binding interface [nucleotide binding]; other site 340177000010 DNA polymerase III subunit beta; Provisional; Region: PRK14941 340177000011 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 340177000012 putative DNA binding surface [nucleotide binding]; other site 340177000013 dimer interface [polypeptide binding]; other site 340177000014 beta-clamp/clamp loader binding surface; other site 340177000015 beta-clamp/translesion DNA polymerase binding surface; other site 340177000016 recombination protein F; Reviewed; Region: recF; PRK00064 340177000017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177000018 Walker A/P-loop; other site 340177000019 ATP binding site [chemical binding]; other site 340177000020 Q-loop/lid; other site 340177000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177000022 ABC transporter signature motif; other site 340177000023 Walker B; other site 340177000024 D-loop; other site 340177000025 H-loop/switch region; other site 340177000026 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 340177000027 TIGR01777 family protein; Region: yfcH 340177000028 putative NAD(P) binding site [chemical binding]; other site 340177000029 putative active site [active] 340177000030 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 340177000031 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 340177000032 glutaminase active site [active] 340177000033 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 340177000034 dimer interface [polypeptide binding]; other site 340177000035 active site 340177000036 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 340177000037 dimer interface [polypeptide binding]; other site 340177000038 active site 340177000039 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 340177000040 active site 340177000041 dimer interface [polypeptide binding]; other site 340177000042 FtsH Extracellular; Region: FtsH_ext; pfam06480 340177000043 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 340177000044 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 340177000045 Walker B motif; other site 340177000046 arginine finger; other site 340177000047 Peptidase family M41; Region: Peptidase_M41; pfam01434 340177000048 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 340177000049 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 340177000050 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 340177000051 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 340177000052 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 340177000053 RIP metalloprotease RseP; Region: TIGR00054 340177000054 active site 340177000055 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 340177000056 protein binding site [polypeptide binding]; other site 340177000057 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 340177000058 protein binding site [polypeptide binding]; other site 340177000059 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 340177000060 putative substrate binding region [chemical binding]; other site 340177000061 peptide chain release factor 1; Validated; Region: prfA; PRK00591 340177000062 RF-1 domain; Region: RF-1; cl02875 340177000063 RF-1 domain; Region: RF-1; cl02875 340177000064 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 340177000065 CrcB-like protein; Region: CRCB; cl09114 340177000066 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 340177000067 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 340177000068 active site 340177000069 NTP binding site [chemical binding]; other site 340177000070 metal binding triad [ion binding]; metal-binding site 340177000071 antibiotic binding site [chemical binding]; other site 340177000072 Protein of unknown function DUF86; Region: DUF86; cl01031 340177000073 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 340177000074 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340177000075 active site 340177000076 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 340177000077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000078 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 340177000079 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 340177000080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000081 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 340177000082 active site 340177000083 nucleophile elbow; other site 340177000084 peptide chain release factor 2; Provisional; Region: PRK05589 340177000085 RF-1 domain; Region: RF-1; cl02875 340177000086 RF-1 domain; Region: RF-1; cl02875 340177000087 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 340177000088 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340177000089 active site 340177000090 metal binding site [ion binding]; metal-binding site 340177000091 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 340177000092 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 340177000093 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 340177000094 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 340177000095 Protein export membrane protein; Region: SecD_SecF; cl14618 340177000096 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 340177000097 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 340177000098 Protein export membrane protein; Region: SecD_SecF; cl14618 340177000099 SurA N-terminal domain; Region: SurA_N_3; cl07813 340177000100 PPIC-type PPIASE domain; Region: Rotamase; cl08278 340177000101 PPIC-type PPIASE domain; Region: Rotamase; cl08278 340177000102 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 340177000103 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 340177000104 ATP binding site [chemical binding]; other site 340177000105 Mg2+ binding site [ion binding]; other site 340177000106 G-X-G motif; other site 340177000107 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 340177000108 anchoring element; other site 340177000109 dimer interface [polypeptide binding]; other site 340177000110 ATP binding site [chemical binding]; other site 340177000111 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 340177000112 active site 340177000113 putative metal-binding site [ion binding]; other site 340177000114 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 340177000115 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 340177000116 dimer interface [polypeptide binding]; other site 340177000117 [2Fe-2S] cluster binding site [ion binding]; other site 340177000118 Putative addiction module component; Region: Unstab_antitox; cl09921 340177000119 Putative addiction module component; Region: Unstab_antitox; cl09921 340177000120 Protein of unknown function (DUF2499); Region: DUF2499; pfam10693 340177000121 Protein of unknown function (DUF3593); Region: DUF3593; pfam12159 340177000122 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 340177000123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000126 glycyl-tRNA synthetase; Provisional; Region: PRK04173 340177000127 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 340177000128 motif 1; other site 340177000129 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 340177000130 active site 340177000131 motif 2; other site 340177000132 motif 3; other site 340177000133 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 340177000134 anticodon binding site; other site 340177000135 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 340177000136 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 340177000137 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 340177000138 putative substrate translocation pore; other site 340177000139 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 340177000140 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 340177000141 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 340177000142 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 340177000143 AAA domain; Region: AAA_21; pfam13304 340177000144 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 340177000145 Rhomboid family; Region: Rhomboid; cl11446 340177000146 Phosphoglycerate kinase; Region: PGK; pfam00162 340177000147 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 340177000148 substrate binding site [chemical binding]; other site 340177000149 hinge regions; other site 340177000150 ADP binding site [chemical binding]; other site 340177000151 catalytic site [active] 340177000152 YceG-like family; Region: YceG; pfam02618 340177000153 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 340177000154 dimerization interface [polypeptide binding]; other site 340177000155 Chorismate mutase type II; Region: CM_2; cl00693 340177000156 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 340177000157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000158 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 340177000159 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 340177000160 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 340177000161 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 340177000162 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 340177000163 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 340177000164 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340177000165 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340177000166 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 340177000167 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 340177000168 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340177000169 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340177000170 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 340177000171 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 340177000172 Mg++ binding site [ion binding]; other site 340177000173 putative catalytic motif [active] 340177000174 putative substrate binding site [chemical binding]; other site 340177000175 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 340177000176 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340177000177 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340177000178 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 340177000179 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 340177000180 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 340177000181 active site 340177000182 homodimer interface [polypeptide binding]; other site 340177000183 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 340177000184 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 340177000185 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340177000186 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340177000187 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 340177000188 cell division protein FtsQ; Provisional; Region: PRK10775 340177000189 cell division protein FtsA; Region: ftsA; TIGR01174 340177000190 Cell division protein FtsA; Region: FtsA; cl11496 340177000191 Cell division protein FtsA; Region: FtsA; cl11496 340177000192 cell division protein FtsZ; Validated; Region: PRK09330 340177000193 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 340177000194 nucleotide binding site [chemical binding]; other site 340177000195 SulA interaction site; other site 340177000196 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 340177000197 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 340177000198 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 340177000199 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 340177000200 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 340177000201 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 340177000202 ATP synthase A chain; Region: ATP-synt_A; cl00413 340177000203 ATP synthase subunit C; Region: ATP-synt_C; cl00466 340177000204 Plant ATP synthase F0; Region: YMF19; cl07975 340177000205 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 340177000206 Plant ATP synthase F0; Region: YMF19; cl07975 340177000207 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 340177000208 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 340177000209 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 340177000210 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 340177000211 active site 340177000212 (T/H)XGH motif; other site 340177000213 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 340177000214 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 340177000215 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 340177000216 active site 340177000217 HIGH motif; other site 340177000218 KMSK motif region; other site 340177000219 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 340177000220 tRNA binding surface [nucleotide binding]; other site 340177000221 anticodon binding site; other site 340177000222 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 340177000223 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340177000224 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 340177000225 motif II; other site 340177000226 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 340177000227 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 340177000228 active site 340177000229 HIGH motif; other site 340177000230 dimer interface [polypeptide binding]; other site 340177000231 KMSKS motif; other site 340177000232 Deoxyhypusine synthase; Region: DS; cl00826 340177000233 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 340177000234 active site 340177000235 intersubunit interactions; other site 340177000236 catalytic residue [active] 340177000237 DNA topoisomerase I; Validated; Region: PRK06599 340177000238 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 340177000239 active site 340177000240 interdomain interaction site; other site 340177000241 putative metal-binding site [ion binding]; other site 340177000242 nucleotide binding site [chemical binding]; other site 340177000243 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 340177000244 domain I; other site 340177000245 DNA binding groove [nucleotide binding] 340177000246 phosphate binding site [ion binding]; other site 340177000247 domain II; other site 340177000248 domain III; other site 340177000249 nucleotide binding site [chemical binding]; other site 340177000250 catalytic site [active] 340177000251 domain IV; other site 340177000252 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 340177000253 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 340177000254 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 340177000255 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 340177000256 active site 340177000257 metal binding site [ion binding]; metal-binding site 340177000258 Helix-turn-helix domains; Region: HTH; cl00088 340177000259 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 340177000260 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 340177000261 biotin synthase; Region: bioB; TIGR00433 340177000262 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 340177000263 FeS/SAM binding site; other site 340177000264 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 340177000265 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 340177000266 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 340177000267 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340177000268 catalytic residue [active] 340177000269 Protein of unknown function (DUF452); Region: DUF452; cl01062 340177000270 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 340177000271 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 340177000272 S-adenosylmethionine binding site [chemical binding]; other site 340177000273 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177000274 AAA domain; Region: AAA_26; pfam13500 340177000275 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177000276 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 340177000277 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 340177000278 inhibitor-cofactor binding pocket; inhibition site 340177000279 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177000280 catalytic residue [active] 340177000281 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 340177000282 non-specific DNA binding site [nucleotide binding]; other site 340177000283 salt bridge; other site 340177000284 sequence-specific DNA binding site [nucleotide binding]; other site 340177000285 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 340177000286 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177000287 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177000288 Oligomerisation domain; Region: Oligomerisation; cl00519 340177000289 DNA gyrase subunit A; Validated; Region: PRK05560 340177000290 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 340177000291 CAP-like domain; other site 340177000292 active site 340177000293 primary dimer interface [polypeptide binding]; other site 340177000294 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340177000295 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340177000296 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340177000297 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340177000298 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340177000299 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340177000300 CTP synthetase; Validated; Region: pyrG; PRK05380 340177000301 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 340177000302 Catalytic site [active] 340177000303 active site 340177000304 UTP binding site [chemical binding]; other site 340177000305 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 340177000306 active site 340177000307 putative oxyanion hole; other site 340177000308 catalytic triad [active] 340177000309 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 340177000310 active site 340177000311 Domain of Unknown Function (DUF3856); Region: DUF3856; pfam12968 340177000312 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 340177000313 binding surface 340177000314 TPR motif; other site 340177000315 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 340177000316 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 340177000317 putative active site [active] 340177000318 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 340177000319 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 340177000320 dimer interface [polypeptide binding]; other site 340177000321 ssDNA binding site [nucleotide binding]; other site 340177000322 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340177000323 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 340177000324 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 340177000325 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 340177000326 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 340177000327 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 340177000328 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 340177000329 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 340177000330 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 340177000331 trmE is a tRNA modification GTPase; Region: trmE; cd04164 340177000332 G1 box; other site 340177000333 GTP/Mg2+ binding site [chemical binding]; other site 340177000334 Switch I region; other site 340177000335 G2 box; other site 340177000336 Switch II region; other site 340177000337 G3 box; other site 340177000338 G4 box; other site 340177000339 G5 box; other site 340177000340 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 340177000341 HipA N-terminal domain; Region: Couple_hipA; cl11853 340177000342 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 340177000343 HipA-like N-terminal domain; Region: HipA_N; pfam07805 340177000344 HipA-like C-terminal domain; Region: HipA_C; pfam07804 340177000345 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 340177000346 non-specific DNA binding site [nucleotide binding]; other site 340177000347 salt bridge; other site 340177000348 sequence-specific DNA binding site [nucleotide binding]; other site 340177000349 Cytochrome c; Region: Cytochrom_C; cl11414 340177000350 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 340177000351 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 340177000352 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 340177000353 FeS/SAM binding site; other site 340177000354 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 340177000355 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 340177000356 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340177000357 catalytic residue [active] 340177000358 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 340177000359 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 340177000360 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 340177000361 catalytic site [active] 340177000362 subunit interface [polypeptide binding]; other site 340177000363 Preprotein translocase subunit; Region: YajC; cl00806 340177000364 UGMP family protein; Validated; Region: PRK09604 340177000365 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 340177000366 MoxR-like ATPases [General function prediction only]; Region: COG0714 340177000367 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177000368 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 340177000369 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 340177000370 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 340177000371 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 340177000372 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 340177000373 FeS/SAM binding site; other site 340177000374 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 340177000375 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 340177000376 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 340177000377 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 340177000378 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 340177000379 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 340177000380 P loop; other site 340177000381 Nucleotide binding site [chemical binding]; other site 340177000382 DTAP/Switch II; other site 340177000383 Switch I; other site 340177000384 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 340177000385 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 340177000386 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 340177000387 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 340177000388 putative homotetramer interface [polypeptide binding]; other site 340177000389 putative homodimer interface [polypeptide binding]; other site 340177000390 putative allosteric switch controlling residues; other site 340177000391 putative metal binding site [ion binding]; other site 340177000392 putative homodimer-homodimer interface [polypeptide binding]; other site 340177000393 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 340177000394 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 340177000395 Protein export membrane protein; Region: SecD_SecF; cl14618 340177000396 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340177000397 FOG: CBS domain [General function prediction only]; Region: COG0517 340177000398 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_17; cd04630 340177000399 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 340177000400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000401 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 340177000402 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 340177000403 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 340177000404 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 340177000405 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 340177000406 Cysteine-rich domain; Region: CCG; pfam02754 340177000407 Cysteine-rich domain; Region: CCG; pfam02754 340177000408 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 340177000409 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 340177000410 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 340177000411 substrate binding site [chemical binding]; other site 340177000412 active site 340177000413 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 340177000414 dimer interface [polypeptide binding]; other site 340177000415 active site 340177000416 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 340177000417 homopentamer interface [polypeptide binding]; other site 340177000418 active site 340177000419 Putative addiction module component; Region: Unstab_antitox; cl09921 340177000420 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 340177000421 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 340177000422 putative acyl-acceptor binding pocket; other site 340177000423 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 340177000424 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 340177000425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177000426 catalytic residue [active] 340177000427 homoserine kinase; Provisional; Region: PRK01212 340177000428 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 340177000429 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 340177000430 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 340177000431 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 340177000432 beta subunit interaction interface [polypeptide binding]; other site 340177000433 Walker A motif; other site 340177000434 ATP binding site [chemical binding]; other site 340177000435 Walker B motif; other site 340177000436 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 340177000437 ATP synthase; Region: ATP-synt; cl00365 340177000438 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 340177000439 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 340177000440 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 340177000441 putative catalytic residues [active] 340177000442 putative nucleotide binding site [chemical binding]; other site 340177000443 putative aspartate binding site [chemical binding]; other site 340177000444 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 340177000445 dimer interface [polypeptide binding]; other site 340177000446 putative threonine allosteric regulatory site; other site 340177000447 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 340177000448 putative threonine allosteric regulatory site; other site 340177000449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000450 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 340177000451 competence damage-inducible protein A; Provisional; Region: PRK00549 340177000452 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 340177000453 putative MPT binding site; other site 340177000454 Competence-damaged protein; Region: CinA; cl00666 340177000455 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177000456 AAA domain; Region: AAA_21; pfam13304 340177000457 Walker A/P-loop; other site 340177000458 ATP binding site [chemical binding]; other site 340177000459 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177000460 Q-loop/lid; other site 340177000461 ABC transporter signature motif; other site 340177000462 Walker B; other site 340177000463 D-loop; other site 340177000464 H-loop/switch region; other site 340177000465 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 340177000466 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 340177000467 ATP binding site [chemical binding]; other site 340177000468 Mg2+ binding site [ion binding]; other site 340177000469 G-X-G motif; other site 340177000470 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 340177000471 ATP binding site [chemical binding]; other site 340177000472 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 340177000473 Transglycosylase; Region: Transgly; cl07896 340177000474 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 340177000475 Rubredoxin; Region: Rubredoxin; pfam00301 340177000476 iron binding site [ion binding]; other site 340177000477 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 340177000478 putative active site [active] 340177000479 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; Region: NGN_SP_TaA; cd09893 340177000480 transcriptional activator RfaH; Region: RfaH; TIGR01955 340177000481 KOW motif; Region: KOW; cl00354 340177000482 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 340177000483 putative substrate translocation pore; other site 340177000484 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 340177000485 metal binding triad [ion binding]; metal-binding site 340177000486 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 340177000487 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 340177000488 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 340177000489 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 340177000490 pyruvate phosphate dikinase; Provisional; Region: PRK09279 340177000491 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 340177000492 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 340177000493 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 340177000494 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 340177000495 TM-ABC transporter signature motif; other site 340177000496 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 340177000497 ZIP Zinc transporter; Region: Zip; pfam02535 340177000498 TspO/MBR family; Region: TspO_MBR; cl01379 340177000499 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177000500 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 340177000501 binding surface 340177000502 TPR motif; other site 340177000503 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177000504 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177000505 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 340177000506 binding surface 340177000507 TPR motif; other site 340177000508 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177000509 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177000510 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 340177000511 active site 340177000512 dimerization interface [polypeptide binding]; other site 340177000513 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 340177000514 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 340177000515 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 340177000516 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 340177000517 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 340177000518 active site 340177000519 putative DNA-binding cleft [nucleotide binding]; other site 340177000520 dimer interface [polypeptide binding]; other site 340177000521 Transcriptional regulator; Region: Transcrip_reg; cl00361 340177000522 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 340177000523 Divergent AAA domain; Region: AAA_4; pfam04326 340177000524 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 340177000525 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 340177000526 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 340177000527 conserved cys residue [active] 340177000528 Isochorismatase family; Region: Isochorismatase; pfam00857 340177000529 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 340177000530 catalytic triad [active] 340177000531 dimer interface [polypeptide binding]; other site 340177000532 conserved cis-peptide bond; other site 340177000533 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 340177000534 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 340177000535 putative acyl-acceptor binding pocket; other site 340177000536 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 340177000537 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 340177000538 ATP-grasp domain; Region: ATP-grasp_4; cl03087 340177000539 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 340177000540 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 340177000541 MPN+ (JAMM) motif; other site 340177000542 Zinc-binding site [ion binding]; other site 340177000543 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 340177000544 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 340177000545 ATP-grasp domain; Region: ATP-grasp_4; cl03087 340177000546 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 340177000547 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 340177000548 active site 340177000549 ribulose/triose binding site [chemical binding]; other site 340177000550 phosphate binding site [ion binding]; other site 340177000551 substrate (anthranilate) binding pocket [chemical binding]; other site 340177000552 product (indole) binding pocket [chemical binding]; other site 340177000553 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 340177000554 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 340177000555 substrate binding site [chemical binding]; other site 340177000556 hexamer interface [polypeptide binding]; other site 340177000557 metal binding site [ion binding]; metal-binding site 340177000558 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 340177000559 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 340177000560 Surface antigen; Region: Bac_surface_Ag; cl03097 340177000561 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 340177000562 Peptidase family M23; Region: Peptidase_M23; pfam01551 340177000563 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 340177000564 DNA polymerase I; Provisional; Region: PRK05755 340177000565 active site 340177000566 putative 5' ssDNA interaction site; other site 340177000567 metal binding site 3; metal-binding site 340177000568 metal binding site 1 [ion binding]; metal-binding site 340177000569 metal binding site 2 [ion binding]; metal-binding site 340177000570 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 340177000571 putative DNA binding site [nucleotide binding]; other site 340177000572 putative metal binding site [ion binding]; other site 340177000573 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 340177000574 active site 340177000575 catalytic site [active] 340177000576 substrate binding site [chemical binding]; other site 340177000577 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 340177000578 active site 340177000579 DNA binding site [nucleotide binding] 340177000580 catalytic site [active] 340177000581 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 340177000582 Prephenate dehydratase; Region: PDT; pfam00800 340177000583 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 340177000584 putative L-Phe binding site [chemical binding]; other site 340177000585 Fic family protein [Function unknown]; Region: COG3177 340177000586 Fic/DOC family; Region: Fic; cl00960 340177000587 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 340177000588 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 340177000589 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177000590 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 340177000591 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 340177000592 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 340177000593 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000594 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 340177000595 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 340177000596 active site 340177000597 dimer interface [polypeptide binding]; other site 340177000598 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 340177000599 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 340177000600 active site 340177000601 FMN binding site [chemical binding]; other site 340177000602 substrate binding site [chemical binding]; other site 340177000603 3Fe-4S cluster binding site [ion binding]; other site 340177000604 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 340177000605 domain interface; other site 340177000606 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 340177000607 catalytic core [active] 340177000608 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 340177000609 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 340177000610 FMN binding site [chemical binding]; other site 340177000611 substrate binding site [chemical binding]; other site 340177000612 putative catalytic residue [active] 340177000613 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 340177000614 nucleoside/Zn binding site; other site 340177000615 dimer interface [polypeptide binding]; other site 340177000616 catalytic motif [active] 340177000617 Phosphotransferase enzyme family; Region: APH; pfam01636 340177000618 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 340177000619 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 340177000620 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 340177000621 Substrate binding site; other site 340177000622 metal-binding site 340177000623 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 340177000624 putative trimer interface [polypeptide binding]; other site 340177000625 putative CoA binding site [chemical binding]; other site 340177000626 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 340177000627 Sodium:solute symporter family; Region: SSF; cl00456 340177000628 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 340177000629 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 340177000630 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 340177000631 active site 340177000632 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 340177000633 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 340177000634 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 340177000635 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340177000636 active site 340177000637 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 340177000638 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 340177000639 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177000640 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177000641 Domain of unknown function DUF20; Region: UPF0118; pfam01594 340177000642 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 340177000643 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 340177000644 active site 340177000645 multimer interface [polypeptide binding]; other site 340177000646 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 340177000647 catalytic triad [active] 340177000648 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 340177000649 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 340177000650 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340177000651 catalytic residue [active] 340177000652 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 340177000653 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 340177000654 trimerization site [polypeptide binding]; other site 340177000655 active site 340177000656 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 340177000657 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14340 340177000658 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 340177000659 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 340177000660 FeS/SAM binding site; other site 340177000661 TRAM domain; Region: TRAM; cl01282 340177000662 UbiA prenyltransferase family; Region: UbiA; cl00337 340177000663 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 340177000664 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340177000665 putative active site [active] 340177000666 putative metal binding site [ion binding]; other site 340177000667 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 340177000668 ATP phosphoribosyltransferase; Region: HisG; cl15266 340177000669 HisG, C-terminal domain; Region: HisG_C; cl06867 340177000670 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 340177000671 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 340177000672 active site 340177000673 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 340177000674 structural tetrad; other site 340177000675 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 340177000676 DNA-binding site [nucleotide binding]; DNA binding site 340177000677 RNA-binding motif; other site 340177000678 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 340177000679 Helix-turn-helix domains; Region: HTH; cl00088 340177000680 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 340177000681 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 340177000682 P loop; other site 340177000683 Nucleotide binding site [chemical binding]; other site 340177000684 DTAP/Switch II; other site 340177000685 Switch I; other site 340177000686 Bacteriochlorophyll C binding protein; Region: Bac_chlorC; pfam02043 340177000687 Chlorosome envelope protein C; Region: Chlorosome_CsmC; pfam11098 340177000688 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 340177000689 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 340177000690 P loop; other site 340177000691 Nucleotide binding site [chemical binding]; other site 340177000692 DTAP/Switch II; other site 340177000693 Switch I; other site 340177000694 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 340177000695 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 340177000696 FAD binding pocket [chemical binding]; other site 340177000697 FAD binding motif [chemical binding]; other site 340177000698 phosphate binding motif [ion binding]; other site 340177000699 beta-alpha-beta structure motif; other site 340177000700 NAD binding pocket [chemical binding]; other site 340177000701 Iron coordination center [ion binding]; other site 340177000702 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 340177000703 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 340177000704 dimer interface [polypeptide binding]; other site 340177000705 ssDNA binding site [nucleotide binding]; other site 340177000706 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340177000707 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 340177000708 DNA polymerase III, delta subunit; Region: holA; TIGR01128 340177000709 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 340177000710 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000711 NAD(P) binding site [chemical binding]; other site 340177000712 active site 340177000713 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 340177000714 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 340177000715 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340177000716 catalytic residue [active] 340177000717 magnesium chelatase, H subunit; Region: BchH; TIGR02025 340177000718 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 340177000719 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 340177000720 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 340177000721 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 340177000722 S-adenosylmethionine binding site [chemical binding]; other site 340177000723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000724 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 340177000725 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 340177000726 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 340177000727 FeS/SAM binding site; other site 340177000728 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 340177000729 catalytic center binding site [active] 340177000730 ATP binding site [chemical binding]; other site 340177000731 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 340177000732 active site 340177000733 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 340177000734 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 340177000735 dimerization interface [polypeptide binding]; other site 340177000736 active site 340177000737 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 340177000738 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 340177000739 trigger factor; Region: tig; TIGR00115 340177000740 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 340177000741 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 340177000742 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 340177000743 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 340177000744 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 340177000745 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 340177000746 putative NADP binding site [chemical binding]; other site 340177000747 putative substrate binding site [chemical binding]; other site 340177000748 active site 340177000749 recombinase A; Provisional; Region: recA; PRK09354 340177000750 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 340177000751 hexamer interface [polypeptide binding]; other site 340177000752 Walker A motif; other site 340177000753 ATP binding site [chemical binding]; other site 340177000754 Walker B motif; other site 340177000755 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 340177000756 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 340177000757 FMN binding site [chemical binding]; other site 340177000758 active site 340177000759 catalytic residues [active] 340177000760 substrate binding site [chemical binding]; other site 340177000761 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 340177000762 Ion channel; Region: Ion_trans_2; cl11596 340177000763 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 340177000764 membrane-bound complex binding site; other site 340177000765 hinge residues; other site 340177000766 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 340177000767 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 340177000768 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 340177000769 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 340177000770 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 340177000771 Mechanosensitive ion channel; Region: MS_channel; pfam00924 340177000772 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 340177000773 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 340177000774 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 340177000775 trimer interface [polypeptide binding]; other site 340177000776 putative metal binding site [ion binding]; other site 340177000777 Bacteriochlorophyll C binding protein; Region: Bac_chlorC; pfam02043 340177000778 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 340177000779 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 340177000780 Walker A/P-loop; other site 340177000781 ATP binding site [chemical binding]; other site 340177000782 Q-loop/lid; other site 340177000783 ABC transporter signature motif; other site 340177000784 Walker B; other site 340177000785 D-loop; other site 340177000786 H-loop/switch region; other site 340177000787 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 340177000788 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 340177000789 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 340177000790 Ligand Binding Site [chemical binding]; other site 340177000791 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 340177000792 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 340177000793 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 340177000794 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177000795 Walker A/P-loop; other site 340177000796 ATP binding site [chemical binding]; other site 340177000797 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177000798 ABC transporter signature motif; other site 340177000799 Walker B; other site 340177000800 D-loop; other site 340177000801 H-loop/switch region; other site 340177000802 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 340177000803 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 340177000804 purine monophosphate binding site [chemical binding]; other site 340177000805 dimer interface [polypeptide binding]; other site 340177000806 putative catalytic residues [active] 340177000807 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 340177000808 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 340177000809 pteridine reductase; Provisional; Region: PRK09135 340177000810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000811 NAD(P) binding site [chemical binding]; other site 340177000812 active site 340177000813 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 340177000814 active site 340177000815 catalytic site [active] 340177000816 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340177000817 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 340177000818 Walker A/P-loop; other site 340177000819 ATP binding site [chemical binding]; other site 340177000820 Q-loop/lid; other site 340177000821 ABC transporter signature motif; other site 340177000822 Walker B; other site 340177000823 D-loop; other site 340177000824 H-loop/switch region; other site 340177000825 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 340177000826 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 340177000827 HicB family; Region: HicB; pfam05534 340177000828 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 340177000829 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 340177000830 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 340177000831 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 340177000832 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 340177000833 nucleotide binding pocket [chemical binding]; other site 340177000834 K-X-D-G motif; other site 340177000835 catalytic site [active] 340177000836 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 340177000837 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 340177000838 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; cl00038 340177000839 Sel1 repeat; Region: Sel1; cl02723 340177000840 Sel1 repeat; Region: Sel1; cl02723 340177000841 Sel1 repeat; Region: Sel1; cl02723 340177000842 Sel1 repeat; Region: Sel1; cl02723 340177000843 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 340177000844 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 340177000845 putative active site [active] 340177000846 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 340177000847 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 340177000848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000849 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 340177000850 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 340177000851 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340177000852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177000853 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 340177000854 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 340177000855 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 340177000856 FeS/SAM binding site; other site 340177000857 HemN C-terminal domain; Region: HemN_C; pfam06969 340177000858 AIR carboxylase; Region: AIRC; cl00310 340177000859 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 340177000860 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 340177000861 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340177000862 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 340177000863 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 340177000864 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 340177000865 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 340177000866 active site 340177000867 nucleophile elbow; other site 340177000868 Surface antigen; Region: Bac_surface_Ag; cl03097 340177000869 Survival protein SurE; Region: SurE; cl00448 340177000870 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 340177000871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 340177000872 Virulence protein [General function prediction only]; Region: COG3943 340177000873 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 340177000874 Virulence protein [General function prediction only]; Region: COG3943 340177000875 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 340177000876 Predicted transcriptional regulator [General function prediction only]; Region: COG2522 340177000877 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 340177000878 Haem-binding domain; Region: Haem_bd; pfam14376 340177000879 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 340177000880 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 340177000881 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 340177000882 glutamine binding [chemical binding]; other site 340177000883 catalytic triad [active] 340177000884 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 340177000885 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 340177000886 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 340177000887 putative trimer interface [polypeptide binding]; other site 340177000888 putative CoA binding site [chemical binding]; other site 340177000889 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 340177000890 TPR repeat; Region: TPR_11; pfam13414 340177000891 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 340177000892 binding surface 340177000893 TPR repeat; Region: TPR_11; pfam13414 340177000894 TPR motif; other site 340177000895 TPR repeat; Region: TPR_11; pfam13414 340177000896 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 340177000897 binding surface 340177000898 TPR motif; other site 340177000899 TPR repeat; Region: TPR_11; pfam13414 340177000900 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 340177000901 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 340177000902 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 340177000903 binding surface 340177000904 TPR motif; other site 340177000905 TPR repeat; Region: TPR_11; pfam13414 340177000906 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 340177000907 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 340177000908 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 340177000909 binding surface 340177000910 TPR motif; other site 340177000911 TPR repeat; Region: TPR_11; pfam13414 340177000912 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 340177000913 binding surface 340177000914 TPR motif; other site 340177000915 TPR repeat; Region: TPR_11; pfam13414 340177000916 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 340177000917 binding surface 340177000918 TPR motif; other site 340177000919 TPR repeat; Region: TPR_11; pfam13414 340177000920 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 340177000921 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 340177000922 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 340177000923 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 340177000924 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 340177000925 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 340177000926 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 340177000927 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 340177000928 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 340177000929 Putative addiction module component; Region: Unstab_antitox; cl09921 340177000930 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 340177000931 Domain of unknown function (DUF955); Region: DUF955; cl01076 340177000932 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 340177000933 AIPR protein; Region: AIPR; pfam10592 340177000934 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 340177000935 excinuclease ABC subunit B; Provisional; Region: PRK05298 340177000936 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 340177000937 ATP binding site [chemical binding]; other site 340177000938 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 340177000939 nucleotide binding region [chemical binding]; other site 340177000940 ATP-binding site [chemical binding]; other site 340177000941 Ultra-violet resistance protein B; Region: UvrB; pfam12344 340177000942 UvrB/uvrC motif; Region: UVR; pfam02151 340177000943 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; cl00207 340177000944 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 340177000945 putative metal binding site [ion binding]; other site 340177000946 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 340177000947 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 340177000948 Citrate synthase; Region: Citrate_synt; pfam00285 340177000949 oxalacetate binding site [chemical binding]; other site 340177000950 citrylCoA binding site [chemical binding]; other site 340177000951 coenzyme A binding site [chemical binding]; other site 340177000952 catalytic triad [active] 340177000953 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 340177000954 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 340177000955 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 340177000956 Ligand binding site; other site 340177000957 oligomer interface; other site 340177000958 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 340177000959 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 340177000960 generic binding surface II; other site 340177000961 generic binding surface I; other site 340177000962 ribonuclease E; Reviewed; Region: rne; PRK10811 340177000963 Sporulation related domain; Region: SPOR; cl10051 340177000964 Chlide_reductase_Y : Y subunit of chlorophyllide (chlide) reductase (BchY). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase...; Region: Chlide_reductase_Y; cd01980 340177000965 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 340177000966 Protein of unknown function DUF262; Region: DUF262; cl14890 340177000967 Protein of unknown function DUF262; Region: DUF262; cl14890 340177000968 Protein of unknown function DUF262; Region: DUF262; cl14890 340177000969 ribosome recycling factor; Reviewed; Region: frr; PRK00083 340177000970 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 340177000971 hinge region; other site 340177000972 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 340177000973 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 340177000974 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 340177000975 generic binding surface II; other site 340177000976 ssDNA binding site; other site 340177000977 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 340177000978 ATP binding site [chemical binding]; other site 340177000979 putative Mg++ binding site [ion binding]; other site 340177000980 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 340177000981 nucleotide binding region [chemical binding]; other site 340177000982 ATP-binding site [chemical binding]; other site 340177000983 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 340177000984 GTPase RsgA; Reviewed; Region: PRK00098 340177000985 RNA binding site [nucleotide binding]; other site 340177000986 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 340177000987 GTPase/Zn-binding domain interface [polypeptide binding]; other site 340177000988 GTP/Mg2+ binding site [chemical binding]; other site 340177000989 G4 box; other site 340177000990 G5 box; other site 340177000991 G1 box; other site 340177000992 Switch I region; other site 340177000993 G2 box; other site 340177000994 G3 box; other site 340177000995 Switch II region; other site 340177000996 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340177000997 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 340177000998 NAD(P) binding site [chemical binding]; other site 340177000999 catalytic residues [active] 340177001000 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 340177001001 active site 340177001002 NTP binding site [chemical binding]; other site 340177001003 metal binding triad [ion binding]; metal-binding site 340177001004 antibiotic binding site [chemical binding]; other site 340177001005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177001006 MjaII restriction endonuclease; Region: RE_MjaII; pfam09520 340177001007 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 340177001008 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001009 Walker A/P-loop; other site 340177001010 ATP binding site [chemical binding]; other site 340177001011 Q-loop/lid; other site 340177001012 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001013 Q-loop/lid; other site 340177001014 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 340177001015 ABC transporter signature motif; other site 340177001016 Walker B; other site 340177001017 D-loop; other site 340177001018 ABC transporter; Region: ABC_tran_2; pfam12848 340177001019 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 340177001020 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 340177001021 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 340177001022 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 340177001023 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 340177001024 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 340177001025 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 340177001026 Walker A/P-loop; other site 340177001027 ATP binding site [chemical binding]; other site 340177001028 Q-loop/lid; other site 340177001029 ABC transporter signature motif; other site 340177001030 Walker B; other site 340177001031 D-loop; other site 340177001032 H-loop/switch region; other site 340177001033 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 340177001034 FtsX-like permease family; Region: FtsX; cl15850 340177001035 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 340177001036 ATP-grasp domain; Region: ATP-grasp_4; cl03087 340177001037 CoA-ligase; Region: Ligase_CoA; cl02894 340177001038 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 340177001039 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 340177001040 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 340177001041 DXD motif; other site 340177001042 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 340177001043 binding surface 340177001044 Tetratricopeptide repeat; Region: TPR_16; pfam13432 340177001045 TPR motif; other site 340177001046 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 340177001047 binding surface 340177001048 TPR motif; other site 340177001049 TPR repeat; Region: TPR_11; pfam13414 340177001050 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 340177001051 binding surface 340177001052 TPR motif; other site 340177001053 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 340177001054 binding surface 340177001055 TPR motif; other site 340177001056 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 340177001057 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 340177001058 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 340177001059 Photosystem I psaA/psaB protein; Region: PsaA_PsaB; cl08224 340177001060 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 340177001061 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 340177001062 Ligand binding site; other site 340177001063 Putative Catalytic site; other site 340177001064 DXD motif; other site 340177001065 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 340177001066 elongation factor G; Reviewed; Region: PRK12740 340177001067 G1 box; other site 340177001068 putative GEF interaction site [polypeptide binding]; other site 340177001069 GTP/Mg2+ binding site [chemical binding]; other site 340177001070 Switch I region; other site 340177001071 G2 box; other site 340177001072 G3 box; other site 340177001073 Switch II region; other site 340177001074 G4 box; other site 340177001075 G5 box; other site 340177001076 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 340177001077 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 340177001078 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 340177001079 enolase; Provisional; Region: eno; PRK00077 340177001080 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 340177001081 dimer interface [polypeptide binding]; other site 340177001082 metal binding site [ion binding]; metal-binding site 340177001083 substrate binding pocket [chemical binding]; other site 340177001084 Septum formation initiator; Region: DivIC; cl11433 340177001085 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 340177001086 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 340177001087 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 340177001088 classical (c) SDRs; Region: SDR_c; cd05233 340177001089 NAD(P) binding site [chemical binding]; other site 340177001090 active site 340177001091 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 340177001092 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 340177001093 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 340177001094 putative homodimer interface [polypeptide binding]; other site 340177001095 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 340177001096 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 340177001097 23S rRNA interface [nucleotide binding]; other site 340177001098 L7/L12 interface [polypeptide binding]; other site 340177001099 putative thiostrepton binding site; other site 340177001100 L25 interface [polypeptide binding]; other site 340177001101 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 340177001102 mRNA/rRNA interface [nucleotide binding]; other site 340177001103 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 340177001104 23S rRNA interface [nucleotide binding]; other site 340177001105 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 340177001106 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 340177001107 L11 interface [polypeptide binding]; other site 340177001108 putative EF-Tu interaction site [polypeptide binding]; other site 340177001109 putative EF-G interaction site [polypeptide binding]; other site 340177001110 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 340177001111 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 340177001112 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 340177001113 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 340177001114 RPB11 interaction site [polypeptide binding]; other site 340177001115 RPB12 interaction site [polypeptide binding]; other site 340177001116 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 340177001117 RPB3 interaction site [polypeptide binding]; other site 340177001118 RPB1 interaction site [polypeptide binding]; other site 340177001119 RPB11 interaction site [polypeptide binding]; other site 340177001120 RPB10 interaction site [polypeptide binding]; other site 340177001121 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 340177001122 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 340177001123 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 340177001124 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 340177001125 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 340177001126 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 340177001127 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 340177001128 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 340177001129 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 340177001130 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 340177001131 DNA binding site [nucleotide binding] 340177001132 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 340177001133 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 340177001134 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 340177001135 ATP-grasp domain; Region: ATP-grasp_4; cl03087 340177001136 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 340177001137 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 340177001138 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 340177001139 carboxyltransferase (CT) interaction site; other site 340177001140 biotinylation site [posttranslational modification]; other site 340177001141 elongation factor P; Validated; Region: PRK00529 340177001142 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 340177001143 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 340177001144 RNA binding site [nucleotide binding]; other site 340177001145 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 340177001146 RNA binding site [nucleotide binding]; other site 340177001147 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 340177001148 IHF - DNA interface [nucleotide binding]; other site 340177001149 IHF dimer interface [polypeptide binding]; other site 340177001150 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 340177001151 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 340177001152 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 340177001153 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001154 Uncharacterized conserved protein [Function unknown]; Region: COG1262 340177001155 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 340177001156 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 340177001157 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 340177001158 TPP-binding site [chemical binding]; other site 340177001159 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 340177001160 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 340177001161 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 340177001162 PYR/PP interface [polypeptide binding]; other site 340177001163 TPP binding site [chemical binding]; other site 340177001164 dimer interface [polypeptide binding]; other site 340177001165 substrate binding site [chemical binding]; other site 340177001166 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 340177001167 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 340177001168 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 340177001169 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 340177001170 motif 1; other site 340177001171 active site 340177001172 motif 2; other site 340177001173 motif 3; other site 340177001174 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 340177001175 DNA-directed RNA polymerase subunit D; Provisional; Region: PRK00783 340177001176 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 340177001177 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 340177001178 GTP cyclohydrolase I; Provisional; Region: PLN03044 340177001179 homodecamer interface [polypeptide binding]; other site 340177001180 active site 340177001181 putative catalytic site residues [active] 340177001182 zinc binding site [ion binding]; other site 340177001183 GTP-CH-I/GFRP interaction surface; other site 340177001184 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 340177001185 active site 340177001186 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 340177001187 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001188 Walker A/P-loop; other site 340177001189 ATP binding site [chemical binding]; other site 340177001190 Q-loop/lid; other site 340177001191 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 340177001192 ABC transporter signature motif; other site 340177001193 Walker B; other site 340177001194 D-loop; other site 340177001195 ABC transporter; Region: ABC_tran_2; pfam12848 340177001196 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 340177001197 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 340177001198 Predicted helicase [General function prediction only]; Region: COG4889 340177001199 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 340177001200 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 340177001201 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 340177001202 Predicted helicase [General function prediction only]; Region: COG4889 340177001203 Restriction endonuclease; Region: Mrr_cat; cl00516 340177001204 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001206 Predicted helicase [General function prediction only]; Region: COG4889 340177001207 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 340177001208 non-specific DNA binding site [nucleotide binding]; other site 340177001209 salt bridge; other site 340177001210 sequence-specific DNA binding site [nucleotide binding]; other site 340177001211 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 340177001212 ThiC-associated domain; Region: ThiC-associated; pfam13667 340177001213 ThiC family; Region: ThiC; cl08031 340177001214 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 340177001215 classical (c) SDRs; Region: SDR_c; cd05233 340177001216 NAD(P) binding site [chemical binding]; other site 340177001217 active site 340177001218 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 340177001219 NADH(P)-binding; Region: NAD_binding_10; pfam13460 340177001220 NAD(P) binding site [chemical binding]; other site 340177001221 putative active site [active] 340177001222 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 340177001223 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 340177001224 dimer interface [polypeptide binding]; other site 340177001225 active site 340177001226 heme binding site [chemical binding]; other site 340177001227 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 340177001228 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 340177001229 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 340177001230 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340177001231 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 340177001232 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 340177001233 DNA binding residues [nucleotide binding] 340177001234 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 340177001235 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340177001236 active site 340177001237 HIGH motif; other site 340177001238 nucleotide binding site [chemical binding]; other site 340177001239 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 340177001240 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 340177001241 active site 340177001242 KMSKS motif; other site 340177001243 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 340177001244 tRNA binding surface [nucleotide binding]; other site 340177001245 anticodon binding site; other site 340177001246 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 340177001247 Clp protease; Region: CLP_protease; pfam00574 340177001248 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 340177001249 oligomer interface [polypeptide binding]; other site 340177001250 active site residues [active] 340177001251 Thymidylate synthase complementing protein; Region: Thy1; cl03630 340177001252 FtsH Extracellular; Region: FtsH_ext; pfam06480 340177001253 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 340177001254 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 340177001255 Walker B motif; other site 340177001256 arginine finger; other site 340177001257 Peptidase family M41; Region: Peptidase_M41; pfam01434 340177001258 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 340177001259 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 340177001260 HIGH motif; other site 340177001261 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 340177001262 active site 340177001263 KMSKS motif; other site 340177001264 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 340177001265 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 340177001266 iron-sulfur cluster [ion binding]; other site 340177001267 [2Fe-2S] cluster binding site [ion binding]; other site 340177001268 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 340177001269 heme bL binding site [chemical binding]; other site 340177001270 interchain domain interface [polypeptide binding]; other site 340177001271 intrachain domain interface; other site 340177001272 heme bH binding site [chemical binding]; other site 340177001273 Qo binding site; other site 340177001274 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 340177001275 interchain domain interface [polypeptide binding]; other site 340177001276 intrachain domain interface; other site 340177001277 Qi binding site; other site 340177001278 Qo binding site; other site 340177001279 Low molecular weight phosphatase family; Region: LMWPc; cd00115 340177001280 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 340177001281 active site 340177001282 Predicted permease; Region: DUF318; pfam03773 340177001283 Predicted permeases [General function prediction only]; Region: COG0701 340177001284 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 340177001285 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001286 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 340177001287 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 340177001288 DNA binding residues [nucleotide binding] 340177001289 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 340177001290 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 340177001291 putative NAD(P) binding site [chemical binding]; other site 340177001292 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; cl06353 340177001293 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 340177001294 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 340177001295 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 340177001296 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 340177001297 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 340177001298 dimer interface [polypeptide binding]; other site 340177001299 active site 340177001300 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 340177001301 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 340177001302 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 340177001303 dimer interface [polypeptide binding]; other site 340177001304 active site 340177001305 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 340177001306 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 340177001307 Low molecular weight phosphatase family; Region: LMWPc; cd00115 340177001308 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 340177001309 active site 340177001310 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 340177001311 Membrane transport protein; Region: Mem_trans; cl09117 340177001312 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 340177001313 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 340177001314 phosphoserine phosphatase SerB; Region: serB; TIGR00338 340177001315 viral phosphatase superfamily protein; Provisional; Region: PHA03398 340177001316 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 340177001317 motif II; other site 340177001318 MOSC domain; Region: MOSC; pfam03473 340177001319 Helix-turn-helix domain; Region: HTH_18; pfam12833 340177001320 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 340177001321 molybdenum transport protein ModD; Provisional; Region: PRK06096 340177001322 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 340177001323 dimerization interface [polypeptide binding]; other site 340177001324 active site 340177001325 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 340177001326 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 340177001327 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 340177001328 dimer interface [polypeptide binding]; other site 340177001329 conserved gate region; other site 340177001330 putative PBP binding loops; other site 340177001331 ABC-ATPase subunit interface; other site 340177001332 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001333 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 340177001334 Walker A/P-loop; other site 340177001335 ATP binding site [chemical binding]; other site 340177001336 Q-loop/lid; other site 340177001337 ABC transporter signature motif; other site 340177001338 Walker B; other site 340177001339 D-loop; other site 340177001340 H-loop/switch region; other site 340177001341 TOBE domain; Region: TOBE_2; cl01440 340177001342 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 340177001343 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 340177001344 helix-hairpin-helix signature motif; other site 340177001345 substrate binding pocket [chemical binding]; other site 340177001346 active site 340177001347 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 340177001348 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 340177001349 putative RNA binding site [nucleotide binding]; other site 340177001350 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 340177001351 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 340177001352 motif II; other site 340177001353 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 340177001354 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 340177001355 Walker A/P-loop; other site 340177001356 ATP binding site [chemical binding]; other site 340177001357 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 340177001358 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 340177001359 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 340177001360 Q-loop/lid; other site 340177001361 ABC transporter signature motif; other site 340177001362 Walker B; other site 340177001363 D-loop; other site 340177001364 H-loop/switch region; other site 340177001365 dihydropteroate synthase; Region: DHPS; TIGR01496 340177001366 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 340177001367 substrate binding pocket [chemical binding]; other site 340177001368 dimer interface [polypeptide binding]; other site 340177001369 inhibitor binding site; inhibition site 340177001370 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 340177001371 active site 340177001372 aminodeoxychorismate synthase; Provisional; Region: PRK07508 340177001373 chorismate binding enzyme; Region: Chorismate_bind; cl10555 340177001374 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 340177001375 substrate-cofactor binding pocket; other site 340177001376 homodimer interface [polypeptide binding]; other site 340177001377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177001378 catalytic residue [active] 340177001379 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 340177001380 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 340177001381 enterobactin exporter EntS; Provisional; Region: PRK10489 340177001382 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 340177001383 putative substrate translocation pore; other site 340177001384 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 340177001385 dimerization interface [polypeptide binding]; other site 340177001386 putative DNA binding site [nucleotide binding]; other site 340177001387 putative Zn2+ binding site [ion binding]; other site 340177001388 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 340177001389 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 340177001390 PemK-like protein; Region: PemK; cl00995 340177001391 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 340177001392 putative active site [active] 340177001393 putative metal binding site [ion binding]; other site 340177001394 polyphosphate kinase; Provisional; Region: PRK05443 340177001395 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 340177001396 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 340177001397 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 340177001398 putative domain interface [polypeptide binding]; other site 340177001399 putative active site [active] 340177001400 catalytic site [active] 340177001401 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 340177001402 putative domain interface [polypeptide binding]; other site 340177001403 putative active site [active] 340177001404 catalytic site [active] 340177001405 transcriptional regulator PhoU; Provisional; Region: PRK11115 340177001406 PhoU domain; Region: PhoU; pfam01895 340177001407 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 340177001408 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 340177001409 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340177001410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340177001411 active site 340177001412 phosphorylation site [posttranslational modification] 340177001413 intermolecular recognition site; other site 340177001414 dimerization interface [polypeptide binding]; other site 340177001415 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 340177001416 DNA binding site [nucleotide binding] 340177001417 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 340177001418 dimerization interface [polypeptide binding]; other site 340177001419 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 340177001420 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 340177001421 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 340177001422 dimer interface [polypeptide binding]; other site 340177001423 phosphorylation site [posttranslational modification] 340177001424 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 340177001425 ATP binding site [chemical binding]; other site 340177001426 Mg2+ binding site [ion binding]; other site 340177001427 G-X-G motif; other site 340177001428 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 340177001429 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 340177001430 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 340177001431 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 340177001432 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 340177001433 dimer interface [polypeptide binding]; other site 340177001434 phosphorylation site [posttranslational modification] 340177001435 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 340177001436 ATP binding site [chemical binding]; other site 340177001437 Mg2+ binding site [ion binding]; other site 340177001438 G-X-G motif; other site 340177001439 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340177001440 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340177001441 active site 340177001442 phosphorylation site [posttranslational modification] 340177001443 intermolecular recognition site; other site 340177001444 dimerization interface [polypeptide binding]; other site 340177001445 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 340177001446 DNA binding site [nucleotide binding] 340177001447 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 340177001448 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 340177001449 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 340177001450 substrate binding site [chemical binding]; other site 340177001451 glutamase interaction surface [polypeptide binding]; other site 340177001452 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 340177001453 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 340177001454 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 340177001455 dimer interface [polypeptide binding]; other site 340177001456 substrate binding site [chemical binding]; other site 340177001457 metal binding sites [ion binding]; metal-binding site 340177001458 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 340177001459 putative ADP-binding pocket [chemical binding]; other site 340177001460 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 340177001461 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 340177001462 inhibitor-cofactor binding pocket; inhibition site 340177001463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177001464 catalytic residue [active] 340177001465 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 340177001466 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 340177001467 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340177001468 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 340177001469 putative active site [active] 340177001470 homotetrameric interface [polypeptide binding]; other site 340177001471 metal binding site [ion binding]; metal-binding site 340177001472 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 340177001473 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 340177001474 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177001475 catalytic residue [active] 340177001476 Fic/DOC family; Region: Fic; cl00960 340177001477 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340177001478 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340177001479 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 340177001480 Walker A/P-loop; other site 340177001481 ATP binding site [chemical binding]; other site 340177001482 Q-loop/lid; other site 340177001483 ABC transporter signature motif; other site 340177001484 Walker B; other site 340177001485 D-loop; other site 340177001486 H-loop/switch region; other site 340177001487 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 340177001488 This PGM-like (phosphoglucomutase-like) domain is located C-terminal to a mannose-1-phosphate guanyltransferase domain in a protein of unknown function that is found in both prokaryotes and eukaryotes. This domain belongs to the alpha-D-phosphohexomutase...; Region: PGM_like4; cd05803 340177001489 active site 340177001490 substrate binding site [chemical binding]; other site 340177001491 metal binding site [ion binding]; metal-binding site 340177001492 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 340177001493 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 340177001494 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 340177001495 RuvA N terminal domain; Region: RuvA_N; pfam01330 340177001496 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 340177001497 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 340177001498 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 340177001499 transcription termination factor Rho; Provisional; Region: rho; PRK09376 340177001500 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 340177001501 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 340177001502 RNA binding site [nucleotide binding]; other site 340177001503 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 340177001504 multimer interface [polypeptide binding]; other site 340177001505 Walker A motif; other site 340177001506 ATP binding site [chemical binding]; other site 340177001507 Walker B motif; other site 340177001508 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 340177001509 Ligand binding site [chemical binding]; other site 340177001510 Electron transfer flavoprotein domain; Region: ETF; pfam01012 340177001511 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 340177001512 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 340177001513 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 340177001514 Bifunctional nuclease; Region: DNase-RNase; cl00553 340177001515 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 340177001516 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 340177001517 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 340177001518 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 340177001519 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 340177001520 Surface antigen; Region: Bac_surface_Ag; cl03097 340177001521 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; cd00475 340177001522 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 340177001523 catalytic residue [active] 340177001524 putative FPP diphosphate binding site; other site 340177001525 putative FPP binding hydrophobic cleft; other site 340177001526 dimer interface [polypeptide binding]; other site 340177001527 putative IPP diphosphate binding site; other site 340177001528 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 340177001529 Amidase; Region: Amidase; cl11426 340177001530 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 340177001531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177001532 CoA-ligase; Region: Ligase_CoA; cl02894 340177001533 KpsF/GutQ family protein; Region: kpsF; TIGR00393 340177001534 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 340177001535 putative active site [active] 340177001536 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 340177001537 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 340177001538 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 340177001539 dimer interface [polypeptide binding]; other site 340177001540 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 340177001541 dimer interface [polypeptide binding]; other site 340177001542 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 340177001543 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340177001544 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 340177001545 DNA binding residues [nucleotide binding] 340177001546 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 340177001547 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 340177001548 active site 340177001549 substrate binding site [chemical binding]; other site 340177001550 metal binding site [ion binding]; metal-binding site 340177001551 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 340177001552 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 340177001553 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 340177001554 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 340177001555 mce related protein; Region: MCE; pfam02470 340177001556 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 340177001557 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; 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...; Region: ABC_Org_Solvent_Resistant; cd03261 340177001558 Walker A/P-loop; other site 340177001559 ATP binding site [chemical binding]; other site 340177001560 Q-loop/lid; other site 340177001561 ABC transporter signature motif; other site 340177001562 Walker B; other site 340177001563 D-loop; other site 340177001564 H-loop/switch region; other site 340177001565 Permease; Region: Permease; cl00510 340177001566 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 340177001567 Bacitracin resistance protein BacA; Region: BacA; cl00858 340177001568 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 340177001569 active site 340177001570 dimerization interface [polypeptide binding]; other site 340177001571 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 340177001572 active site 340177001573 hydrophilic channel; other site 340177001574 dimerization interface [polypeptide binding]; other site 340177001575 catalytic residues [active] 340177001576 active site lid [active] 340177001577 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001578 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001579 Helix-turn-helix domains; Region: HTH; cl00088 340177001580 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 340177001581 binding surface 340177001582 TPR motif; other site 340177001583 TPR repeat; Region: TPR_11; pfam13414 340177001584 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 340177001585 binding surface 340177001586 TPR motif; other site 340177001587 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 340177001588 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 340177001589 putative active site [active] 340177001590 substrate binding site [chemical binding]; other site 340177001591 putative cosubstrate binding site; other site 340177001592 catalytic site [active] 340177001593 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 340177001594 substrate binding site [chemical binding]; other site 340177001595 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 340177001596 active site 340177001597 catalytic residues [active] 340177001598 metal binding site [ion binding]; metal-binding site 340177001599 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 340177001600 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 340177001601 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 340177001602 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 340177001603 active site 340177001604 GTP-binding protein LepA; Provisional; Region: PRK05433 340177001605 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 340177001606 G1 box; other site 340177001607 putative GEF interaction site [polypeptide binding]; other site 340177001608 GTP/Mg2+ binding site [chemical binding]; other site 340177001609 Switch I region; other site 340177001610 G2 box; other site 340177001611 G3 box; other site 340177001612 Switch II region; other site 340177001613 G4 box; other site 340177001614 G5 box; other site 340177001615 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 340177001616 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 340177001617 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 340177001618 signal peptidase I; Provisional; Region: PRK10861 340177001619 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 340177001620 Catalytic site [active] 340177001621 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 340177001622 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 340177001623 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 340177001624 chorismate binding enzyme; Region: Chorismate_bind; cl10555 340177001625 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 340177001626 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 340177001627 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 340177001628 protein binding site [polypeptide binding]; other site 340177001629 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 340177001630 protein binding site [polypeptide binding]; other site 340177001631 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 340177001632 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 340177001633 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 340177001634 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 340177001635 substrate binding site [chemical binding]; other site 340177001636 dimer interface [polypeptide binding]; other site 340177001637 catalytic triad [active] 340177001638 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 340177001639 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 340177001640 Walker A/P-loop; other site 340177001641 ATP binding site [chemical binding]; other site 340177001642 Q-loop/lid; other site 340177001643 ABC transporter signature motif; other site 340177001644 Walker B; other site 340177001645 D-loop; other site 340177001646 H-loop/switch region; other site 340177001647 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 340177001648 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 340177001649 dimer interface [polypeptide binding]; other site 340177001650 conserved gate region; other site 340177001651 putative PBP binding loops; other site 340177001652 ABC-ATPase subunit interface; other site 340177001653 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 340177001654 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 340177001655 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 340177001656 dimer interface [polypeptide binding]; other site 340177001657 conserved gate region; other site 340177001658 putative PBP binding loops; other site 340177001659 ABC-ATPase subunit interface; other site 340177001660 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 340177001661 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 340177001662 acetylornithine aminotransferase; Provisional; Region: PRK02627 340177001663 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 340177001664 inhibitor-cofactor binding pocket; inhibition site 340177001665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177001666 catalytic residue [active] 340177001667 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 340177001668 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 340177001669 active site 340177001670 substrate binding site [chemical binding]; other site 340177001671 cosubstrate binding site; other site 340177001672 catalytic site [active] 340177001673 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 340177001674 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 340177001675 FeS/SAM binding site; other site 340177001676 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 340177001677 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 340177001678 Ligand binding site; other site 340177001679 Putative Catalytic site; other site 340177001680 DXD motif; other site 340177001681 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001682 G3 box; other site 340177001683 Switch II region; other site 340177001684 G4 box; other site 340177001685 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 340177001686 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001687 G1 box; other site 340177001688 GTP/Mg2+ binding site [chemical binding]; other site 340177001689 G2 box; other site 340177001690 Switch I region; other site 340177001691 G3 box; other site 340177001692 Switch II region; other site 340177001693 G4 box; other site 340177001694 G5 box; other site 340177001695 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 340177001696 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 340177001697 Walker A motif; other site 340177001698 ATP binding site [chemical binding]; other site 340177001699 Walker B motif; other site 340177001700 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 340177001701 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 340177001702 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 340177001703 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 340177001704 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 340177001705 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 340177001706 substrate binding site; other site 340177001707 tetramer interface; other site 340177001708 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 340177001709 Cupin domain; Region: Cupin_2; cl09118 340177001710 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 340177001711 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 340177001712 NADP binding site [chemical binding]; other site 340177001713 active site 340177001714 putative substrate binding site [chemical binding]; other site 340177001715 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 340177001716 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 340177001717 NAD binding site [chemical binding]; other site 340177001718 substrate binding site [chemical binding]; other site 340177001719 homodimer interface [polypeptide binding]; other site 340177001720 active site 340177001721 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 340177001722 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 340177001723 NAD binding site [chemical binding]; other site 340177001724 homodimer interface [polypeptide binding]; other site 340177001725 active site 340177001726 substrate binding site [chemical binding]; other site 340177001727 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 340177001728 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 340177001729 Substrate binding site; other site 340177001730 Cupin domain; Region: Cupin_2; cl09118 340177001731 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 340177001732 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 340177001733 Protein of unknown function (DUF3680); Region: DUF3680; cl02189 340177001734 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 340177001735 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340177001736 active site 340177001737 HIGH motif; other site 340177001738 nucleotide binding site [chemical binding]; other site 340177001739 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340177001740 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340177001741 active site 340177001742 KMSKS motif; other site 340177001743 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 340177001744 tRNA binding surface [nucleotide binding]; other site 340177001745 anticodon binding site; other site 340177001746 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 340177001747 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 340177001748 amidophosphoribosyltransferase; Provisional; Region: PRK09123 340177001749 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 340177001750 active site 340177001751 tetramer interface [polypeptide binding]; other site 340177001752 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340177001753 active site 340177001754 FtsX-like permease family; Region: FtsX; cl15850 340177001755 endonuclease IV; Provisional; Region: PRK01060 340177001756 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 340177001757 AP (apurinic/apyrimidinic) site pocket; other site 340177001758 DNA interaction; other site 340177001759 Metal-binding active site; metal-binding site 340177001760 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 340177001761 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001762 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001763 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001764 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001765 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001766 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001767 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001768 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001769 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001770 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001771 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001772 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001773 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001774 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001775 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001776 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001777 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001778 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001779 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001780 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001781 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001782 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001783 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001784 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001785 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001786 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001787 Bacterial Ig-like domain; Region: Big_5; cl01012 340177001788 Hydrogenase formation hypA family; Region: HypD; cl12072 340177001789 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 340177001790 HupF/HypC family; Region: HupF_HypC; cl00394 340177001791 Acylphosphatase; Region: Acylphosphatase; cl00551 340177001792 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 340177001793 HypF finger; Region: zf-HYPF; pfam07503 340177001794 HypF finger; Region: zf-HYPF; pfam07503 340177001795 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 340177001796 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001797 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 340177001798 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 340177001799 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 340177001800 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 340177001801 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 340177001802 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 340177001803 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340177001804 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340177001805 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 340177001806 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 340177001807 FAD binding pocket [chemical binding]; other site 340177001808 FAD binding motif [chemical binding]; other site 340177001809 phosphate binding motif [ion binding]; other site 340177001810 beta-alpha-beta structure motif; other site 340177001811 NAD binding pocket [chemical binding]; other site 340177001812 Iron coordination center [ion binding]; other site 340177001813 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 340177001814 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 340177001815 putative active site [active] 340177001816 oxyanion strand; other site 340177001817 catalytic triad [active] 340177001818 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 340177001819 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 340177001820 catalytic residues [active] 340177001821 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 340177001822 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 340177001823 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 340177001824 RNA binding surface [nucleotide binding]; other site 340177001825 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 340177001826 active site 340177001827 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 340177001828 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 340177001829 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 340177001830 putative protease; Provisional; Region: PRK15452 340177001831 Peptidase family U32; Region: Peptidase_U32; cl03113 340177001832 DNA primase, catalytic core; Region: dnaG; TIGR01391 340177001833 CHC2 zinc finger; Region: zf-CHC2; cl15369 340177001834 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 340177001835 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 340177001836 active site 340177001837 metal binding site [ion binding]; metal-binding site 340177001838 interdomain interaction site; other site 340177001839 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 340177001840 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 340177001841 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 340177001842 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 340177001843 Gram-negative bacterial tonB protein; Region: TonB; cl10048 340177001844 iron-sulfur cluster binding protein, putative; Region: TIGR00276 340177001845 Transposase IS200 like; Region: Y1_Tnp; cl00848 340177001846 Transposase IS200 like; Region: Y1_Tnp; cl00848 340177001847 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 340177001848 dimerization interface [polypeptide binding]; other site 340177001849 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 340177001850 ATP binding site [chemical binding]; other site 340177001851 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 340177001852 PDGLE domain; Region: PDGLE; cl07986 340177001853 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 340177001854 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 340177001855 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 340177001856 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 340177001857 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 340177001858 S-adenosylmethionine binding site [chemical binding]; other site 340177001859 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 340177001860 PAS domain; Region: PAS_9; pfam13426 340177001861 Helix-turn-helix domains; Region: HTH; cl00088 340177001862 CheB methylesterase; Region: CheB_methylest; pfam01339 340177001863 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 340177001864 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 340177001865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177001866 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 340177001867 PAS domain; Region: PAS_10; pfam13596 340177001868 PAS fold; Region: PAS; pfam00989 340177001869 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 340177001870 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 340177001871 IHF dimer interface [polypeptide binding]; other site 340177001872 IHF - DNA interface [nucleotide binding]; other site 340177001873 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 340177001874 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340177001875 active site 340177001876 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 340177001877 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 340177001878 rod shape-determining protein MreC; Provisional; Region: PRK13922 340177001879 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 340177001880 GTPase Era; Reviewed; Region: era; PRK00089 340177001881 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 340177001882 G1 box; other site 340177001883 GTP/Mg2+ binding site [chemical binding]; other site 340177001884 Switch I region; other site 340177001885 G2 box; other site 340177001886 Switch II region; other site 340177001887 G3 box; other site 340177001888 G4 box; other site 340177001889 G5 box; other site 340177001890 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 340177001891 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 340177001892 RNA binding site [nucleotide binding]; other site 340177001893 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 340177001894 RNA binding site [nucleotide binding]; other site 340177001895 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 340177001896 RNA binding site [nucleotide binding]; other site 340177001897 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 340177001898 RNA binding site [nucleotide binding]; other site 340177001899 S1_RPS1_repeat_ec5: 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_ec5; cd05690 340177001900 RNA binding site [nucleotide binding]; other site 340177001901 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 340177001902 RNA binding site [nucleotide binding]; other site 340177001903 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 340177001904 CMP-binding site; other site 340177001905 The sites determining sugar specificity; other site 340177001906 GTP-binding protein YchF; Reviewed; Region: PRK09601 340177001907 YchF GTPase; Region: YchF; cd01900 340177001908 G1 box; other site 340177001909 GTP/Mg2+ binding site [chemical binding]; other site 340177001910 Switch I region; other site 340177001911 G2 box; other site 340177001912 Switch II region; other site 340177001913 G3 box; other site 340177001914 G4 box; other site 340177001915 G5 box; other site 340177001916 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 340177001917 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 340177001918 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 340177001919 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 340177001920 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 340177001921 LytB protein; Region: LYTB; cl00507 340177001922 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 340177001923 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 340177001924 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 340177001925 catalytic loop [active] 340177001926 iron binding site [ion binding]; other site 340177001927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177001928 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340177001929 Putative addiction module component; Region: Unstab_antitox; cl09921 340177001930 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 340177001931 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 340177001932 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 340177001933 FMN binding site [chemical binding]; other site 340177001934 dimer interface [polypeptide binding]; other site 340177001935 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 340177001936 Predicted ATPase [General function prediction only]; Region: COG4637 340177001937 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177001938 Walker A/P-loop; other site 340177001939 ATP binding site [chemical binding]; other site 340177001940 GMP synthase; Reviewed; Region: guaA; PRK00074 340177001941 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 340177001942 AMP/PPi binding site [chemical binding]; other site 340177001943 candidate oxyanion hole; other site 340177001944 catalytic triad [active] 340177001945 potential glutamine specificity residues [chemical binding]; other site 340177001946 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 340177001947 ATP Binding subdomain [chemical binding]; other site 340177001948 Ligand Binding sites [chemical binding]; other site 340177001949 Dimerization subdomain; other site 340177001950 Transglycosylase; Region: Transgly; cl07896 340177001951 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 340177001952 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 340177001953 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340177001954 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 340177001955 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 340177001956 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 340177001957 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 340177001958 active site 340177001959 NTP binding site [chemical binding]; other site 340177001960 metal binding triad [ion binding]; metal-binding site 340177001961 antibiotic binding site [chemical binding]; other site 340177001962 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cd06551 340177001963 putative acyl-acceptor binding pocket; other site 340177001964 Predicted acetyltransferase [General function prediction only]; Region: COG3153 340177001965 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340177001966 Coenzyme A binding pocket [chemical binding]; other site 340177001967 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177001968 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177001969 Virulence protein [General function prediction only]; Region: COG3943 340177001970 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 340177001971 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 340177001972 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 340177001973 AMP binding site [chemical binding]; other site 340177001974 metal binding site [ion binding]; metal-binding site 340177001975 active site 340177001976 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 340177001977 DHH family; Region: DHH; pfam01368 340177001978 DHHA1 domain; Region: DHHA1; pfam02272 340177001979 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 340177001980 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 340177001981 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 340177001982 Ligand binding site; other site 340177001983 Putative Catalytic site; other site 340177001984 DXD motif; other site 340177001985 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 340177001986 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 340177001987 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 340177001988 active site 340177001989 Domain of unknown function (DUF202); Region: DUF202; cl09954 340177001990 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 340177001991 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 340177001992 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 340177001993 Histidine kinase-like ATPases; This family includes several ATP-binding 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 340177001994 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 340177001995 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 340177001996 active site 340177001997 dimer interface [polypeptide binding]; other site 340177001998 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 340177001999 dimer interface [polypeptide binding]; other site 340177002000 active site 340177002001 SapC; Region: SapC; pfam07277 340177002002 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 340177002003 Beta/Gamma crystallin; Region: Crystall; cl02528 340177002004 hypothetical protein; Provisional; Region: PHA03020 340177002005 Polysulphide reductase, NrfD; Region: NrfD; cl01295 340177002006 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 340177002007 4Fe-4S binding domain; Region: Fer4; cl02805 340177002008 thiosulfate reductase PhsA; Provisional; Region: PRK15488 340177002009 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 340177002010 putative [Fe4-S4] binding site [ion binding]; other site 340177002011 putative molybdopterin cofactor binding site [chemical binding]; other site 340177002012 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 340177002013 putative molybdopterin cofactor binding site; other site 340177002014 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 340177002015 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 340177002016 catalytic motif [active] 340177002017 Zn binding site [ion binding]; other site 340177002018 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 340177002019 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 340177002020 catalytic motif [active] 340177002021 Zn binding site [ion binding]; other site 340177002022 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 340177002023 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 340177002024 dimer interface [polypeptide binding]; other site 340177002025 catalytic triad [active] 340177002026 peroxidatic and resolving cysteines [active] 340177002027 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 340177002028 Lumazine binding domain; Region: Lum_binding; pfam00677 340177002029 Lumazine binding domain; Region: Lum_binding; pfam00677 340177002030 recombination factor protein RarA; Reviewed; Region: PRK13342 340177002031 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 340177002032 Walker A motif; other site 340177002033 ATP binding site [chemical binding]; other site 340177002034 Walker B motif; other site 340177002035 arginine finger; other site 340177002036 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 340177002037 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 340177002038 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 340177002039 S-adenosylmethionine binding site [chemical binding]; other site 340177002040 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 340177002041 nucleotide binding site/active site [active] 340177002042 HIT family signature motif; other site 340177002043 catalytic residue [active] 340177002044 Ferrochelatase; Region: Ferrochelatase; pfam00762 340177002045 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 340177002046 C-terminal domain interface [polypeptide binding]; other site 340177002047 active site 340177002048 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 340177002049 N-terminal domain interface [polypeptide binding]; other site 340177002050 active site 340177002051 TPR repeat; Region: TPR_11; pfam13414 340177002052 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 340177002053 binding surface 340177002054 TPR motif; other site 340177002055 TPR repeat; Region: TPR_11; pfam13414 340177002056 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 340177002057 binding surface 340177002058 TPR motif; other site 340177002059 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 340177002060 NADH dehydrogenase subunit B; Provisional; Region: PRK14813 340177002061 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 340177002062 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 340177002063 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 340177002064 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 340177002065 NADH dehydrogenase; Region: NADHdh; cl00469 340177002066 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 340177002067 4Fe-4S binding domain; Region: Fer4; cl02805 340177002068 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 340177002069 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 340177002070 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 340177002071 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 340177002072 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 340177002073 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 340177002074 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07376 340177002075 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 340177002076 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 340177002077 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 340177002078 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 340177002079 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 340177002080 Mg++ binding site [ion binding]; other site 340177002081 putative catalytic motif [active] 340177002082 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 340177002083 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 340177002084 Chain length determinant protein; Region: Wzz; cl15801 340177002085 tyrosine kinase; Provisional; Region: PRK11519 340177002086 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177002087 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 340177002088 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 340177002089 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 340177002090 NADP binding site [chemical binding]; other site 340177002091 active site 340177002092 putative substrate binding site [chemical binding]; other site 340177002093 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 340177002094 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 340177002095 NADP-binding site; other site 340177002096 homotetramer interface [polypeptide binding]; other site 340177002097 substrate binding site [chemical binding]; other site 340177002098 homodimer interface [polypeptide binding]; other site 340177002099 active site 340177002100 PemK-like protein; Region: PemK; cl00995 340177002101 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 340177002102 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 340177002103 oligomeric interface; other site 340177002104 putative active site [active] 340177002105 homodimer interface [polypeptide binding]; other site 340177002106 Divergent AAA domain; Region: AAA_4; pfam04326 340177002107 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 340177002108 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177002109 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177002110 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 340177002111 putative active site [active] 340177002112 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 340177002113 PemK-like protein; Region: PemK; cl00995 340177002114 Divergent AAA domain; Region: AAA_4; pfam04326 340177002115 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 340177002116 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 340177002117 MatE; Region: MatE; cl10513 340177002118 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 340177002119 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 340177002120 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 340177002121 S-adenosylmethionine binding site [chemical binding]; other site 340177002122 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 340177002123 Ligand Binding Site [chemical binding]; other site 340177002124 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 340177002125 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 340177002126 putative active site [active] 340177002127 putative metal binding site [ion binding]; other site 340177002128 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 340177002129 active site 340177002130 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 340177002131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177002132 NAD(P) binding site [chemical binding]; other site 340177002133 active site 340177002134 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 340177002135 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 340177002136 inhibitor-cofactor binding pocket; inhibition site 340177002137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177002138 catalytic residue [active] 340177002139 putative glycosyl transferase; Provisional; Region: PRK10063 340177002140 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 340177002141 active site 340177002142 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 340177002143 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 340177002144 active site 340177002145 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 340177002146 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 340177002147 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-like; cd09875 340177002148 putative active site [active] 340177002149 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 340177002150 Integrase core domain; Region: rve; cl01316 340177002151 Putative addiction module component; Region: Unstab_antitox; cl09921 340177002152 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 340177002153 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 340177002154 FeS/SAM binding site; other site 340177002155 PUCC protein; Region: PUCC; pfam03209 340177002156 putative lyase; Provisional; Region: PRK09687 340177002157 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 340177002158 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 340177002159 classical (c) SDRs; Region: SDR_c; cd05233 340177002160 NAD(P) binding site [chemical binding]; other site 340177002161 active site 340177002162 GatB domain; Region: GatB_Yqey; cl11497 340177002163 seryl-tRNA synthetase; Provisional; Region: PRK05431 340177002164 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 340177002165 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 340177002166 dimer interface [polypeptide binding]; other site 340177002167 active site 340177002168 motif 1; other site 340177002169 motif 2; other site 340177002170 motif 3; other site 340177002171 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 340177002172 putative active site [active] 340177002173 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 340177002174 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 340177002175 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 340177002176 Walker A/P-loop; other site 340177002177 ATP binding site [chemical binding]; other site 340177002178 Q-loop/lid; other site 340177002179 ABC transporter signature motif; other site 340177002180 Walker B; other site 340177002181 D-loop; other site 340177002182 H-loop/switch region; other site 340177002183 Smr domain; Region: Smr; cl02619 340177002184 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 340177002185 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 340177002186 dimer interface [polypeptide binding]; other site 340177002187 decamer (pentamer of dimers) interface [polypeptide binding]; other site 340177002188 catalytic triad [active] 340177002189 peroxidatic and resolving cysteines [active] 340177002190 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 340177002191 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 340177002192 catalytic residues [active] 340177002193 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 340177002194 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 340177002195 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 340177002196 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 340177002197 thioester formation/cholesterol transfer; other site 340177002198 protein-splicing catalytic site; other site 340177002199 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 340177002200 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 340177002201 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 340177002202 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 340177002203 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 340177002204 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 340177002205 TSCPD domain; Region: TSCPD; cl14834 340177002206 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 340177002207 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177002208 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177002209 prolyl-tRNA synthetase; Provisional; Region: PRK08661 340177002210 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_arch_euk; cd00778 340177002211 dimer interface [polypeptide binding]; other site 340177002212 motif 1; other site 340177002213 active site 340177002214 motif 2; other site 340177002215 motif 3; other site 340177002216 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 340177002217 anticodon binding site; other site 340177002218 zinc-binding site [ion binding]; other site 340177002219 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 340177002220 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 340177002221 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 340177002222 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 340177002223 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 340177002224 FeS/SAM binding site; other site 340177002225 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177002226 AAA domain; Region: AAA_33; pfam13671 340177002227 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 340177002228 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340177002229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177002230 Walker A/P-loop; other site 340177002231 ATP binding site [chemical binding]; other site 340177002232 Q-loop/lid; other site 340177002233 ABC transporter signature motif; other site 340177002234 Walker B; other site 340177002235 D-loop; other site 340177002236 H-loop/switch region; other site 340177002237 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 340177002238 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177002239 Walker A/P-loop; other site 340177002240 ATP binding site [chemical binding]; other site 340177002241 Q-loop/lid; other site 340177002242 ABC transporter signature motif; other site 340177002243 Walker B; other site 340177002244 D-loop; other site 340177002245 H-loop/switch region; other site 340177002246 ParA-like protein; Provisional; Region: PHA02518 340177002247 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 340177002248 P-loop; other site 340177002249 Magnesium ion binding site [ion binding]; other site 340177002250 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 340177002251 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 340177002252 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 340177002253 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 340177002254 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 340177002255 active site 340177002256 NTP binding site [chemical binding]; other site 340177002257 metal binding triad [ion binding]; metal-binding site 340177002258 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 340177002259 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 340177002260 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 340177002261 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 340177002262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177002263 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 340177002264 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 340177002265 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340177002266 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 340177002267 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 340177002268 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 340177002269 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 340177002270 cobalamin binding residues [chemical binding]; other site 340177002271 putative BtuC binding residues; other site 340177002272 dimer interface [polypeptide binding]; other site 340177002273 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 340177002274 nudix motif; other site 340177002275 hypothetical protein; Provisional; Region: PRK08185 340177002276 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 340177002277 intersubunit interface [polypeptide binding]; other site 340177002278 active site 340177002279 zinc binding site [ion binding]; other site 340177002280 Na+ binding site [ion binding]; other site 340177002281 carboxy-terminal protease; Provisional; Region: PRK11186 340177002282 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 340177002283 protein binding site [polypeptide binding]; other site 340177002284 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 340177002285 Catalytic dyad [active] 340177002286 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 340177002287 argininosuccinate lyase; Provisional; Region: PRK00855 340177002288 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 340177002289 active sites [active] 340177002290 tetramer interface [polypeptide binding]; other site 340177002291 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 340177002292 AAA domain; Region: AAA_33; pfam13671 340177002293 ligand-binding site [chemical binding]; other site 340177002294 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 340177002295 binding surface 340177002296 TPR motif; other site 340177002297 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 340177002298 binding surface 340177002299 TPR motif; other site 340177002300 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 340177002301 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 340177002302 binding surface 340177002303 TPR motif; other site 340177002304 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 340177002305 TIGR03032 family protein; Region: TIGR03032 340177002306 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340177002307 Coenzyme A binding pocket [chemical binding]; other site 340177002308 Influenza RNA-dependent RNA polymerase subunit PA; Region: Flu_PA; pfam00603 340177002309 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 340177002310 active site 340177002311 NTP binding site [chemical binding]; other site 340177002312 metal binding triad [ion binding]; metal-binding site 340177002313 antibiotic binding site [chemical binding]; other site 340177002314 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 340177002315 Bacterial Ig-like domain; Region: Big_5; cl01012 340177002316 Family description; Region: VCBS; pfam13517 340177002317 Family description; Region: VCBS; pfam13517 340177002318 Family description; Region: VCBS; pfam13517 340177002319 Bacterial Ig-like domain; Region: Big_5; cl01012 340177002320 Family description; Region: VCBS; pfam13517 340177002321 Family description; Region: VCBS; pfam13517 340177002322 Family description; Region: VCBS; pfam13517 340177002323 Family description; Region: VCBS; pfam13517 340177002324 Family description; Region: VCBS; pfam13517 340177002325 Family description; Region: VCBS; pfam13517 340177002326 Family description; Region: VCBS; pfam13517 340177002327 Family description; Region: VCBS; pfam13517 340177002328 Family description; Region: VCBS; pfam13517 340177002329 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177002330 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177002331 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177002332 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177002333 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177002334 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177002335 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177002336 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177002337 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177002338 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177002339 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177002340 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177002341 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177002342 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177002343 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177002344 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177002345 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177002346 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177002347 Calx-beta domain; Region: Calx-beta; cl02522 340177002348 Bacterial Ig-like domain; Region: Big_5; cl01012 340177002349 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 340177002350 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 340177002351 Walker A/P-loop; other site 340177002352 ATP binding site [chemical binding]; other site 340177002353 Q-loop/lid; other site 340177002354 ABC transporter signature motif; other site 340177002355 Walker B; other site 340177002356 D-loop; other site 340177002357 H-loop/switch region; other site 340177002358 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 340177002359 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 340177002360 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 340177002361 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 340177002362 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 340177002363 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 340177002364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177002365 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177002366 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177002367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177002368 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340177002369 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 340177002370 ribonuclease R; Region: RNase_R; TIGR02063 340177002371 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 340177002372 RNB domain; Region: RNB; pfam00773 340177002373 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 340177002374 RNA binding site [nucleotide binding]; other site 340177002375 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 340177002376 Walker A motif; other site 340177002377 homodimer interface [polypeptide binding]; other site 340177002378 ATP binding site [chemical binding]; other site 340177002379 hydroxycobalamin binding site [chemical binding]; other site 340177002380 Walker B motif; other site 340177002381 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 340177002382 ABC-ATPase subunit interface; other site 340177002383 dimer interface [polypeptide binding]; other site 340177002384 putative PBP binding regions; other site 340177002385 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 340177002386 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 340177002387 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 340177002388 PUA domain; Region: PUA; cl00607 340177002389 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 340177002390 CobD/Cbib protein; Region: CobD_Cbib; cl00561 340177002391 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 340177002392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177002393 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 340177002394 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 340177002395 ATP binding site [chemical binding]; other site 340177002396 putative Mg++ binding site [ion binding]; other site 340177002397 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 340177002398 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 340177002399 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 340177002400 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 340177002401 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 340177002402 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177002403 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177002404 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 340177002405 AIPR protein; Region: AIPR; pfam10592 340177002406 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 340177002407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177002408 Family description; Region: UvrD_C_2; cl15862 340177002409 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 340177002410 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177002411 Family description; Region: UvrD_C_2; cl15862 340177002412 YXWGXW repeat (2 copies); Region: YXWGXW; pfam12779 340177002413 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 340177002414 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177002415 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 340177002416 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 340177002417 heterotetramer interface [polypeptide binding]; other site 340177002418 active site pocket [active] 340177002419 cleavage site 340177002420 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 340177002421 feedback inhibition sensing region; other site 340177002422 homohexameric interface [polypeptide binding]; other site 340177002423 nucleotide binding site [chemical binding]; other site 340177002424 N-acetyl-L-glutamate binding site [chemical binding]; other site 340177002425 ornithine carbamoyltransferase; Provisional; Region: PRK00779 340177002426 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 340177002427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177002428 Arginine repressor [Transcription]; Region: ArgR; COG1438 340177002429 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 340177002430 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 340177002431 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 340177002432 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 340177002433 ANP binding site [chemical binding]; other site 340177002434 Substrate Binding Site II [chemical binding]; other site 340177002435 Substrate Binding Site I [chemical binding]; other site 340177002436 DNA repair protein RadA; Provisional; Region: PRK11823 340177002437 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 340177002438 Walker A motif/ATP binding site; other site 340177002439 ATP binding site [chemical binding]; other site 340177002440 Walker B motif; other site 340177002441 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 340177002442 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14174 340177002443 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 340177002444 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 340177002445 homodimer interface [polypeptide binding]; other site 340177002446 NADP binding site [chemical binding]; other site 340177002447 substrate binding site [chemical binding]; other site 340177002448 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 340177002449 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 340177002450 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 340177002451 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 340177002452 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 340177002453 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 340177002454 active site 340177002455 HslU subunit interaction site [polypeptide binding]; other site 340177002456 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 340177002457 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177002458 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 340177002459 Walker A motif; other site 340177002460 ATP binding site [chemical binding]; other site 340177002461 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177002462 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 340177002463 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 340177002464 trimer interface [polypeptide binding]; other site 340177002465 active site 340177002466 dimer interface [polypeptide binding]; other site 340177002467 Predicted membrane protein (DUF2335); Region: DUF2335; cl02210 340177002468 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 340177002469 active site 340177002470 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177002471 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177002472 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 340177002473 PAS domain; Region: PAS_9; pfam13426 340177002474 putative active site [active] 340177002475 heme pocket [chemical binding]; other site 340177002476 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 340177002477 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 340177002478 ATP binding site [chemical binding]; other site 340177002479 Mg2+ binding site [ion binding]; other site 340177002480 G-X-G motif; other site 340177002481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340177002482 active site 340177002483 phosphorylation site [posttranslational modification] 340177002484 intermolecular recognition site; other site 340177002485 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 340177002486 NlpC/P60 family; Region: NLPC_P60; cl11438 340177002487 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 340177002488 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 340177002489 ligand binding site [chemical binding]; other site 340177002490 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 340177002491 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 340177002492 putative NADP binding site [chemical binding]; other site 340177002493 putative substrate binding site [chemical binding]; other site 340177002494 active site 340177002495 Predicted membrane protein [Function unknown]; Region: COG2119 340177002496 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 340177002497 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 340177002498 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 340177002499 ATP-grasp domain; Region: ATP-grasp_4; cl03087 340177002500 ATP citrate (pro-S)-lyase; Region: PLN02235 340177002501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177002502 ATP citrate (pro-S)-lyase; Region: PLN02522 340177002503 CoA-ligase; Region: Ligase_CoA; cl02894 340177002504 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 340177002505 active site 340177002506 oxalacetate binding site [chemical binding]; other site 340177002507 citrylCoA binding site [chemical binding]; other site 340177002508 coenzyme A binding site [chemical binding]; other site 340177002509 catalytic triad [active] 340177002510 aminotransferase; Validated; Region: PRK07777 340177002511 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 340177002512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177002513 homodimer interface [polypeptide binding]; other site 340177002514 catalytic residue [active] 340177002515 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 340177002516 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 340177002517 FAD binding domain; Region: FAD_binding_4; pfam01565 340177002518 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 340177002519 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 340177002520 Cysteine-rich domain; Region: CCG; pfam02754 340177002521 Cysteine-rich domain; Region: CCG; pfam02754 340177002522 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 340177002523 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 340177002524 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 340177002525 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 340177002526 RimM N-terminal domain; Region: RimM; pfam01782 340177002527 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 340177002528 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 340177002529 signal recognition particle protein; Provisional; Region: PRK10867 340177002530 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 340177002531 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 340177002532 P loop; other site 340177002533 GTP binding site [chemical binding]; other site 340177002534 Signal peptide binding domain; Region: SRP_SPB; pfam02978 340177002535 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 340177002536 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 340177002537 putative ribose interaction site [chemical binding]; other site 340177002538 putative ADP binding site [chemical binding]; other site 340177002539 HsdM N-terminal domain; Region: HsdM_N; pfam12161 340177002540 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 340177002541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177002542 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 340177002543 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 340177002544 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 340177002545 Transposase IS200 like; Region: Y1_Tnp; cl00848 340177002546 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 340177002547 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 340177002548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177002549 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177002550 nucleotide binding region [chemical binding]; other site 340177002551 ATP-binding site [chemical binding]; other site 340177002552 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 340177002553 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 340177002554 hydrophobic ligand binding site; other site 340177002555 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 340177002556 hydrophobic ligand binding site; other site 340177002557 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 340177002558 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 340177002559 protein binding site [polypeptide binding]; other site 340177002560 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 340177002561 Catalytic dyad [active] 340177002562 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 340177002563 homotrimer interaction site [polypeptide binding]; other site 340177002564 putative active site [active] 340177002565 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 340177002566 active site 340177002567 thiamine phosphate binding site [chemical binding]; other site 340177002568 pyrophosphate binding site [ion binding]; other site 340177002569 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 340177002570 thiamine phosphate binding site [chemical binding]; other site 340177002571 active site 340177002572 pyrophosphate binding site [ion binding]; other site 340177002573 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 340177002574 dimer interface [polypeptide binding]; other site 340177002575 substrate binding site [chemical binding]; other site 340177002576 ATP binding site [chemical binding]; other site 340177002577 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 340177002578 putative active site [active] 340177002579 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 340177002580 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 340177002581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177002582 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 340177002583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177002584 Biogenesis of lysosome-related organelles complex-1 subunit 2; Region: BLOC1_2; pfam10046 340177002585 multifunctional aminopeptidase A; Provisional; Region: PRK00913 340177002586 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 340177002587 interface (dimer of trimers) [polypeptide binding]; other site 340177002588 Substrate-binding/catalytic site; other site 340177002589 Zn-binding sites [ion binding]; other site 340177002590 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 340177002591 DHH family; Region: DHH; pfam01368 340177002592 DHHA1 domain; Region: DHHA1; pfam02272 340177002593 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14456 340177002594 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 340177002595 FeS/SAM binding site; other site 340177002596 adenylate kinase; Reviewed; Region: adk; PRK00279 340177002597 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 340177002598 AMP-binding site [chemical binding]; other site 340177002599 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 340177002600 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 340177002601 Helix-turn-helix domains; Region: HTH; cl00088 340177002602 primosome assembly protein PriA; Validated; Region: PRK05580 340177002603 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 340177002604 ATP binding site [chemical binding]; other site 340177002605 putative Mg++ binding site [ion binding]; other site 340177002606 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 340177002607 nucleotide binding region [chemical binding]; other site 340177002608 ATP-binding site [chemical binding]; other site 340177002609 PemK-like protein; Region: PemK; cl00995 340177002610 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 340177002611 Fic family protein [Function unknown]; Region: COG3177 340177002612 Fic/DOC family; Region: Fic; cl00960 340177002613 Helix-turn-helix domains; Region: HTH; cl00088 340177002614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177002615 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177002616 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 340177002617 putative hydrophobic ligand binding site [chemical binding]; other site 340177002618 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340177002619 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 340177002620 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 340177002621 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 340177002622 active site 340177002623 catalytic triad [active] 340177002624 dimer interface [polypeptide binding]; other site 340177002625 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177002626 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 340177002627 binding surface 340177002628 TPR motif; other site 340177002629 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177002630 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 340177002631 binding surface 340177002632 TPR motif; other site 340177002633 Tetratricopeptide repeat; Region: TPR_16; pfam13432 340177002634 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177002635 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177002636 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 340177002637 binding surface 340177002638 TPR motif; other site 340177002639 Tetratricopeptide repeat; Region: TPR_16; pfam13432 340177002640 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 340177002641 binding surface 340177002642 TPR motif; other site 340177002643 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177002644 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 340177002645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 340177002646 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177002647 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 340177002648 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 340177002649 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 340177002650 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 340177002651 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 340177002652 YokU-like protein; Region: YokU; cl15819 340177002653 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 340177002654 non-specific DNA binding site [nucleotide binding]; other site 340177002655 salt bridge; other site 340177002656 sequence-specific DNA binding site [nucleotide binding]; other site 340177002657 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 340177002658 homotrimer interface [polypeptide binding]; other site 340177002659 Walker A motif; other site 340177002660 GTP binding site [chemical binding]; other site 340177002661 Walker B motif; other site 340177002662 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 340177002663 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177002664 Family description; Region: UvrD_C_2; cl15862 340177002665 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 340177002666 IHF dimer interface [polypeptide binding]; other site 340177002667 IHF - DNA interface [nucleotide binding]; other site 340177002668 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 340177002669 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 340177002670 Walker A/P-loop; other site 340177002671 ATP binding site [chemical binding]; other site 340177002672 Q-loop/lid; other site 340177002673 ABC transporter signature motif; other site 340177002674 Walker B; other site 340177002675 D-loop; other site 340177002676 H-loop/switch region; other site 340177002677 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 340177002678 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 340177002679 Walker A/P-loop; other site 340177002680 ATP binding site [chemical binding]; other site 340177002681 Q-loop/lid; other site 340177002682 ABC transporter signature motif; other site 340177002683 Walker B; other site 340177002684 D-loop; other site 340177002685 H-loop/switch region; other site 340177002686 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 340177002687 TM-ABC transporter signature motif; other site 340177002688 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 340177002689 TM-ABC transporter signature motif; other site 340177002690 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 340177002691 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 340177002692 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 340177002693 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177002694 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 340177002695 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 340177002696 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 340177002697 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 340177002698 active site 340177002699 catalytic residues [active] 340177002700 metal binding site [ion binding]; metal-binding site 340177002701 homodimer binding site [polypeptide binding]; other site 340177002702 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 340177002703 carboxyltransferase (CT) interaction site; other site 340177002704 biotinylation site [posttranslational modification]; other site 340177002705 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 340177002706 Fumarase C-terminus; Region: Fumerase_C; cl00795 340177002707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 340177002708 AAA domain; Region: AAA_33; pfam13671 340177002709 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 340177002710 ATP-binding site [chemical binding]; other site 340177002711 Gluconate-6-phosphate binding site [chemical binding]; other site 340177002712 malate dehydrogenase; Reviewed; Region: PRK06223 340177002713 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 340177002714 NAD(P) binding site [chemical binding]; other site 340177002715 dimer interface [polypeptide binding]; other site 340177002716 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340177002717 substrate binding site [chemical binding]; other site 340177002718 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 340177002719 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 340177002720 Copper resistance protein D; Region: CopD; cl00563 340177002721 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 340177002722 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 340177002723 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340177002724 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 340177002725 Walker A/P-loop; other site 340177002726 ATP binding site [chemical binding]; other site 340177002727 Q-loop/lid; other site 340177002728 ABC transporter signature motif; other site 340177002729 Walker B; other site 340177002730 D-loop; other site 340177002731 H-loop/switch region; other site 340177002732 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 340177002733 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 340177002734 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 340177002735 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 340177002736 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177002737 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 340177002738 binding surface 340177002739 TPR motif; other site 340177002740 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 340177002741 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 340177002742 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 340177002743 catalytic triad [active] 340177002744 photolyase PhrII; Region: phr2; TIGR00591 340177002745 DNA photolyase; Region: DNA_photolyase; pfam00875 340177002746 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 340177002747 AAA domain; Region: AAA_21; pfam13304 340177002748 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 340177002749 active site 340177002750 ADP/pyrophosphate binding site [chemical binding]; other site 340177002751 dimerization interface [polypeptide binding]; other site 340177002752 allosteric effector site; other site 340177002753 fructose-1,6-bisphosphate binding site; other site 340177002754 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 340177002755 putative active site [active] 340177002756 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 340177002757 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 340177002758 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 340177002759 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 340177002760 S-adenosylmethionine binding site [chemical binding]; other site 340177002761 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 340177002762 OsmC-like protein; Region: OsmC; cl00767 340177002763 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 340177002764 putative active site [active] 340177002765 metal binding site [ion binding]; metal-binding site 340177002766 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 340177002767 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340177002768 putative substrate translocation pore; other site 340177002769 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 340177002770 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 340177002771 DNA binding site [nucleotide binding] 340177002772 active site 340177002773 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 340177002774 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 340177002775 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 340177002776 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 340177002777 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 340177002778 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 340177002779 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 340177002780 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 340177002781 generic binding surface II; other site 340177002782 generic binding surface I; other site 340177002783 Protein of unknown function DUF262; Region: DUF262; cl14890 340177002784 Protein of unknown function DUF262; Region: DUF262; cl14890 340177002785 Protein of unknown function DUF262; Region: DUF262; cl14890 340177002786 Predicted acetyltransferase [General function prediction only]; Region: COG3153 340177002787 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340177002788 Coenzyme A binding pocket [chemical binding]; other site 340177002789 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 340177002790 S-adenosylmethionine binding site [chemical binding]; other site 340177002791 dihydroorotase; Validated; Region: pyrC; PRK09357 340177002792 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 340177002793 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 340177002794 active site 340177002795 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 340177002796 polyphosphate kinase; Provisional; Region: PRK05443 340177002797 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 340177002798 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 340177002799 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 340177002800 putative domain interface [polypeptide binding]; other site 340177002801 putative active site [active] 340177002802 catalytic site [active] 340177002803 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 340177002804 putative domain interface [polypeptide binding]; other site 340177002805 putative active site [active] 340177002806 catalytic site [active] 340177002807 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 340177002808 FOG: CBS domain [General function prediction only]; Region: COG0517 340177002809 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 340177002810 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 340177002811 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 340177002812 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 340177002813 metal binding site [ion binding]; metal-binding site 340177002814 dimer interface [polypeptide binding]; other site 340177002815 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 340177002816 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 340177002817 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 340177002818 ATP-grasp domain; Region: ATP-grasp_4; cl03087 340177002819 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 340177002820 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 340177002821 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 340177002822 oligomerization interface [polypeptide binding]; other site 340177002823 active site 340177002824 metal binding site [ion binding]; metal-binding site 340177002825 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 340177002826 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 340177002827 Histidine kinase-like ATPases; This family includes several ATP-binding 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 340177002828 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 340177002829 putative active site [active] 340177002830 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 340177002831 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 340177002832 non-specific DNA binding site [nucleotide binding]; other site 340177002833 salt bridge; other site 340177002834 sequence-specific DNA binding site [nucleotide binding]; other site 340177002835 Cytochrome c; Region: Cytochrom_C; cl11414 340177002836 Cytochrome c; Region: Cytochrom_C; cl11414 340177002837 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 340177002838 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 340177002839 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 340177002840 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 340177002841 FtsX-like permease family; Region: FtsX; cl15850 340177002842 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 340177002843 metal binding site [ion binding]; metal-binding site 340177002844 active site 340177002845 I-site; other site 340177002846 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 340177002847 Spore germination protein; Region: Spore_permease; cl15802 340177002848 amino acid transporter; Region: 2A0306; TIGR00909 340177002849 Spore germination protein; Region: Spore_permease; cl15802 340177002850 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 340177002851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177002852 NAD(P) binding site [chemical binding]; other site 340177002853 active site 340177002854 thymidylate kinase; Validated; Region: tmk; PRK00698 340177002855 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 340177002856 TMP-binding site; other site 340177002857 ATP-binding site [chemical binding]; other site 340177002858 phosphoglycolate phosphatase; Provisional; Region: PRK01158 340177002859 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 340177002860 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 340177002861 motif II; other site 340177002862 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 340177002863 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 340177002864 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 340177002865 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 340177002866 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 340177002867 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 340177002868 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 340177002869 substrate binding site; other site 340177002870 dimer interface; other site 340177002871 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 340177002872 CoenzymeA binding site [chemical binding]; other site 340177002873 subunit interaction site [polypeptide binding]; other site 340177002874 PHB binding site; other site 340177002875 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 340177002876 B12 binding site [chemical binding]; other site 340177002877 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 340177002878 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 340177002879 FeS/SAM binding site; other site 340177002880 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 340177002881 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 340177002882 dimer interface [polypeptide binding]; other site 340177002883 anticodon binding site; other site 340177002884 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 340177002885 homodimer interface [polypeptide binding]; other site 340177002886 motif 1; other site 340177002887 active site 340177002888 motif 2; other site 340177002889 GAD domain; Region: GAD; pfam02938 340177002890 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 340177002891 active site 340177002892 motif 3; other site 340177002893 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14954 340177002894 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14955 340177002895 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 340177002896 Walker A motif; other site 340177002897 ATP binding site [chemical binding]; other site 340177002898 Walker B motif; other site 340177002899 arginine finger; other site 340177002900 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 340177002901 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 340177002902 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 340177002903 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 340177002904 putative substrate translocation pore; other site 340177002905 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 340177002906 putative active site [active] 340177002907 catalytic triad [active] 340177002908 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 340177002909 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 340177002910 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 340177002911 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 340177002912 agmatine deiminase; Region: agmatine_aguA; TIGR03380 340177002913 Peptidase family M48; Region: Peptidase_M48; cl12018 340177002914 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 340177002915 N-carbamolyputrescine amidase; Region: PLN02747 340177002916 putative active site; other site 340177002917 catalytic triad [active] 340177002918 putative dimer interface [polypeptide binding]; other site 340177002919 UbiA prenyltransferase family; Region: UbiA; cl00337 340177002920 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 340177002921 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340177002922 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 340177002923 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 340177002924 G1 box; other site 340177002925 putative GEF interaction site [polypeptide binding]; other site 340177002926 GTP/Mg2+ binding site [chemical binding]; other site 340177002927 Switch I region; other site 340177002928 G2 box; other site 340177002929 G3 box; other site 340177002930 Switch II region; other site 340177002931 G4 box; other site 340177002932 G5 box; other site 340177002933 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 340177002934 cyanophycin synthetase; Provisional; Region: PRK14016 340177002935 ATP-grasp domain; Region: ATP-grasp_4; cl03087 340177002936 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340177002937 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 340177002938 cyanophycin synthetase; Provisional; Region: PRK14016 340177002939 ATP-grasp domain; Region: ATP-grasp_4; cl03087 340177002940 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 340177002941 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 340177002942 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 340177002943 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 340177002944 Polysulphide reductase, NrfD; Region: NrfD; cl01295 340177002945 tetrathionate reductase subunit B; Provisional; Region: PRK14993 340177002946 DMSO reductase family type II enzyme, molybdopterin subunit; Region: DMSO_red_II_alp; TIGR03479 340177002947 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 340177002948 molybdopterin cofactor binding site; other site 340177002949 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 340177002950 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 340177002951 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 340177002952 putative molybdopterin cofactor binding site; other site 340177002953 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 340177002954 active site residue [active] 340177002955 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 340177002956 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 340177002957 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 340177002958 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 340177002959 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 340177002960 metal-binding site [ion binding] 340177002961 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340177002962 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340177002963 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 340177002964 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 340177002965 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 340177002966 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 340177002967 active site 340177002968 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 340177002969 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 340177002970 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 340177002971 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 340177002972 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 340177002973 substrate binding pocket [chemical binding]; other site 340177002974 chain length determination region; other site 340177002975 substrate-Mg2+ binding site; other site 340177002976 catalytic residues [active] 340177002977 aspartate-rich region 1; other site 340177002978 active site lid residues [active] 340177002979 aspartate-rich region 2; other site 340177002980 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 340177002981 dephospho-CoA kinase; Provisional; Region: coaE; PRK14731 340177002982 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 340177002983 CoA-binding site [chemical binding]; other site 340177002984 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 340177002985 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 340177002986 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 340177002987 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 340177002988 DoxX-like family; Region: DoxX_3; pfam13781 340177002989 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 340177002990 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 340177002991 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 340177002992 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 340177002993 PhoU domain; Region: PhoU; pfam01895 340177002994 PhoU domain; Region: PhoU; pfam01895 340177002995 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 340177002996 PhoU domain; Region: PhoU; pfam01895 340177002997 PhoU domain; Region: PhoU; pfam01895 340177002998 putative minor structural protein; Region: PHA01351 340177002999 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 340177003000 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 340177003001 motif II; other site 340177003002 CHAD domain; Region: CHAD; cl10506 340177003003 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 340177003004 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 340177003005 P-loop; other site 340177003006 Magnesium ion binding site [ion binding]; other site 340177003007 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 340177003008 Magnesium ion binding site [ion binding]; other site 340177003009 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 340177003010 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 340177003011 Walker A/P-loop; other site 340177003012 ATP binding site [chemical binding]; other site 340177003013 Q-loop/lid; other site 340177003014 ABC transporter signature motif; other site 340177003015 Walker B; other site 340177003016 D-loop; other site 340177003017 H-loop/switch region; other site 340177003018 Fic family protein [Function unknown]; Region: COG3177 340177003019 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 340177003020 Fic/DOC family; Region: Fic; cl00960 340177003021 putative acetyltransferase; Provisional; Region: PRK03624 340177003022 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340177003023 Coenzyme A binding pocket [chemical binding]; other site 340177003024 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 340177003025 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 340177003026 AMP-binding enzyme; Region: AMP-binding; cl15778 340177003027 cyanophycin synthetase; Provisional; Region: PRK14016 340177003028 ATP-grasp domain; Region: ATP-grasp_4; cl03087 340177003029 magnesium chelatase, H subunit; Region: BchH; TIGR02025 340177003030 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 340177003031 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 340177003032 CHAT domain; Region: CHAT; pfam12770 340177003033 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 340177003034 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 340177003035 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 340177003036 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 340177003037 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 340177003038 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340177003039 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 340177003040 Walker A/P-loop; other site 340177003041 ATP binding site [chemical binding]; other site 340177003042 Q-loop/lid; other site 340177003043 ABC transporter signature motif; other site 340177003044 Walker B; other site 340177003045 D-loop; other site 340177003046 H-loop/switch region; other site 340177003047 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 340177003048 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 340177003049 FtsX-like permease family; Region: FtsX; cl15850 340177003050 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 340177003051 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 340177003052 FtsX-like permease family; Region: FtsX; cl15850 340177003053 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 340177003054 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 340177003055 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 340177003056 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 340177003057 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 340177003058 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 340177003059 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 340177003060 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 340177003061 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 340177003062 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177003063 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 340177003064 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 340177003065 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177003066 homodimer interface [polypeptide binding]; other site 340177003067 catalytic residue [active] 340177003068 cobyric acid synthase; Provisional; Region: PRK00784 340177003069 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177003070 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 340177003071 catalytic triad [active] 340177003072 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 340177003073 putative FMN binding site [chemical binding]; other site 340177003074 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 340177003075 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 340177003076 N-terminal plug; other site 340177003077 ligand-binding site [chemical binding]; other site 340177003078 Helix-turn-helix domains; Region: HTH; cl00088 340177003079 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 340177003080 NADH(P)-binding; Region: NAD_binding_10; pfam13460 340177003081 NAD(P) binding site [chemical binding]; other site 340177003082 putative active site [active] 340177003083 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 340177003084 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 340177003085 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 340177003086 minor groove reading motif; other site 340177003087 helix-hairpin-helix signature motif; other site 340177003088 substrate binding pocket [chemical binding]; other site 340177003089 active site 340177003090 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12900 340177003091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177003092 ATP binding site [chemical binding]; other site 340177003093 putative Mg++ binding site [ion binding]; other site 340177003094 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 340177003095 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 340177003096 nucleotide binding region [chemical binding]; other site 340177003097 ATP-binding site [chemical binding]; other site 340177003098 SEC-C motif; Region: SEC-C; pfam02810 340177003099 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 340177003100 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 340177003101 dimerization interface [polypeptide binding]; other site 340177003102 ATP binding site [chemical binding]; other site 340177003103 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 340177003104 dimerization interface [polypeptide binding]; other site 340177003105 ATP binding site [chemical binding]; other site 340177003106 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 340177003107 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 340177003108 putative substrate binding site [chemical binding]; other site 340177003109 putative ATP binding site [chemical binding]; other site 340177003110 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 340177003111 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 340177003112 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003113 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003114 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003115 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003116 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003117 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003118 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003119 Bacterial Ig-like domain; Region: Big_5; cl01012 340177003120 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003121 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003122 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003123 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003124 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003125 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003126 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 340177003127 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 340177003128 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340177003129 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 340177003130 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 340177003131 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 340177003132 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 340177003133 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 340177003134 ligand binding surface [chemical binding]; other site 340177003135 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 340177003136 ligand binding surface [chemical binding]; other site 340177003137 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 340177003138 ligand binding surface [chemical binding]; other site 340177003139 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 340177003140 ligand binding surface [chemical binding]; other site 340177003141 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 340177003142 ligand binding surface [chemical binding]; other site 340177003143 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 340177003144 ligand binding surface [chemical binding]; other site 340177003145 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 340177003146 ligand binding surface [chemical binding]; other site 340177003147 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 340177003148 ligand binding surface [chemical binding]; other site 340177003149 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 340177003150 Bacterial Ig-like domain; Region: Big_5; cl01012 340177003151 Family description; Region: VCBS; pfam13517 340177003152 Family description; Region: VCBS; pfam13517 340177003153 Family description; Region: VCBS; pfam13517 340177003154 aminotransferase; Validated; Region: PRK08175 340177003155 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 340177003156 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177003157 homodimer interface [polypeptide binding]; other site 340177003158 catalytic residue [active] 340177003159 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 340177003160 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 340177003161 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 340177003162 Cysteine-rich domain; Region: CCG; pfam02754 340177003163 Cysteine-rich domain; Region: CCG; pfam02754 340177003164 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 340177003165 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 340177003166 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 340177003167 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 340177003168 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 340177003169 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 340177003170 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 340177003171 FAD binding pocket [chemical binding]; other site 340177003172 FAD binding motif [chemical binding]; other site 340177003173 phosphate binding motif [ion binding]; other site 340177003174 beta-alpha-beta structure motif; other site 340177003175 NAD binding pocket [chemical binding]; other site 340177003176 Iron coordination center [ion binding]; other site 340177003177 YXWGXW repeat (2 copies); Region: YXWGXW; pfam12779 340177003178 YXWGXW repeat (2 copies); Region: YXWGXW; pfam12779 340177003179 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 340177003180 ligand binding site [chemical binding]; other site 340177003181 YXWGXW repeat (2 copies); Region: YXWGXW; pfam12779 340177003182 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 340177003183 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 340177003184 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 340177003185 Dicarboxylate transport; Region: DctA-YdbH; cl14674 340177003186 Dicarboxylate transport; Region: DctA-YdbH; cl14674 340177003187 Dicarboxylate transport; Region: DctA-YdbH; cl14674 340177003188 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 340177003189 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 340177003190 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 340177003191 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 340177003192 Putative addiction module component; Region: Unstab_antitox; cl09921 340177003193 Putative addiction module component; Region: Unstab_antitox; cl09921 340177003194 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 340177003195 flavoprotein, HI0933 family; Region: TIGR00275 340177003196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177003197 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 340177003198 haemagglutination activity domain; Region: Haemagg_act; cl05436 340177003199 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 340177003200 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 340177003201 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 340177003202 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 340177003203 Surface antigen; Region: Bac_surface_Ag; cl03097 340177003204 haemagglutination activity domain; Region: Haemagg_act; cl05436 340177003205 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 340177003206 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 340177003207 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 340177003208 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 340177003209 Surface antigen; Region: Bac_surface_Ag; cl03097 340177003210 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 340177003211 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 340177003212 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 340177003213 active site pocket [active] 340177003214 putative dimer interface [polypeptide binding]; other site 340177003215 putative cataytic base [active] 340177003216 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 340177003217 NADH(P)-binding; Region: NAD_binding_10; pfam13460 340177003218 NAD(P) binding site [chemical binding]; other site 340177003219 putative active site [active] 340177003220 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional; Region: PRK14490 340177003221 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 340177003222 Walker A motif; other site 340177003223 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 340177003224 GTP binding site; other site 340177003225 Abi-like protein; Region: Abi_2; cl01988 340177003226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177003227 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177003228 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 340177003229 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 340177003230 dimer interface [polypeptide binding]; other site 340177003231 putative functional site; other site 340177003232 putative MPT binding site; other site 340177003233 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 340177003234 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 340177003235 trimer interface [polypeptide binding]; other site 340177003236 dimer interface [polypeptide binding]; other site 340177003237 putative active site [active] 340177003238 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 340177003239 MPT binding site; other site 340177003240 trimer interface [polypeptide binding]; other site 340177003241 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 340177003242 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 340177003243 lipoyl synthase; Provisional; Region: PRK05481 340177003244 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 340177003245 diiron binding motif [ion binding]; other site 340177003246 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 340177003247 heat shock protein 90; Provisional; Region: PRK05218 340177003248 Histidine kinase-like ATPases; This family includes several ATP-binding 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 340177003249 NeuB family; Region: NeuB; cl00496 340177003250 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340177003251 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 340177003252 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 340177003253 Predicted amidohydrolase [General function prediction only]; Region: COG0388 340177003254 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 340177003255 putative active site [active] 340177003256 catalytic triad [active] 340177003257 putative dimer interface [polypeptide binding]; other site 340177003258 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 340177003259 AP (apurinic/apyrimidinic) site pocket; other site 340177003260 DNA interaction; other site 340177003261 Metal-binding active site; metal-binding site 340177003262 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 340177003263 putative active site [active] 340177003264 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 340177003265 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 340177003266 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 340177003267 Walker A/P-loop; other site 340177003268 ATP binding site [chemical binding]; other site 340177003269 Q-loop/lid; other site 340177003270 ABC transporter signature motif; other site 340177003271 Walker B; other site 340177003272 D-loop; other site 340177003273 H-loop/switch region; other site 340177003274 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 340177003275 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 340177003276 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 340177003277 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 340177003278 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 340177003279 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 340177003280 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177003281 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 340177003282 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 340177003283 NADP binding site [chemical binding]; other site 340177003284 homopentamer interface [polypeptide binding]; other site 340177003285 substrate binding site [chemical binding]; other site 340177003286 active site 340177003287 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 340177003288 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 340177003289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177003290 homodimer interface [polypeptide binding]; other site 340177003291 catalytic residue [active] 340177003292 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 340177003293 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 340177003294 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340177003295 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 340177003296 putative active site [active] 340177003297 catalytic residue [active] 340177003298 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 340177003299 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 340177003300 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 340177003301 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 340177003302 AAA domain; Region: AAA_27; pfam13514 340177003303 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 340177003304 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340177003305 active site 340177003306 metal binding site [ion binding]; metal-binding site 340177003307 DNA binding site [nucleotide binding] 340177003308 RmuC family; Region: RmuC; pfam02646 340177003309 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 340177003310 gamma-glutamyl kinase; Provisional; Region: PRK05429 340177003311 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 340177003312 nucleotide binding site [chemical binding]; other site 340177003313 homotetrameric interface [polypeptide binding]; other site 340177003314 putative phosphate binding site [ion binding]; other site 340177003315 putative allosteric binding site; other site 340177003316 PUA domain; Region: PUA; cl00607 340177003317 Helix-turn-helix domains; Region: HTH; cl00088 340177003318 Fic family protein [Function unknown]; Region: COG3177 340177003319 Fic/DOC family; Region: Fic; cl00960 340177003320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177003321 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 340177003322 MjaI restriction endonuclease; Region: RE_MjaI; pfam09568 340177003323 Divergent AAA domain; Region: AAA_4; pfam04326 340177003324 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 340177003325 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 340177003326 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 340177003327 putative catalytic cysteine [active] 340177003328 Protein of unknown function (DUF497); Region: DUF497; cl01108 340177003329 UbiA prenyltransferase family; Region: UbiA; cl00337 340177003330 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 340177003331 active site 340177003332 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 340177003333 Competence protein; Region: Competence; cl00471 340177003334 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 340177003335 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 340177003336 FAD binding site [chemical binding]; other site 340177003337 diaminopimelate decarboxylase; Region: lysA; TIGR01048 340177003338 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 340177003339 active site 340177003340 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 340177003341 substrate binding site [chemical binding]; other site 340177003342 catalytic residues [active] 340177003343 dimer interface [polypeptide binding]; other site 340177003344 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 340177003345 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 340177003346 Putative zinc ribbon domain; Region: DUF164; pfam02591 340177003347 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 340177003348 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 340177003349 inhibitor-cofactor binding pocket; inhibition site 340177003350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177003351 catalytic residue [active] 340177003352 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 340177003353 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 340177003354 helicase 45; Provisional; Region: PTZ00424 340177003355 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 340177003356 ATP binding site [chemical binding]; other site 340177003357 Mg++ binding site [ion binding]; other site 340177003358 motif III; other site 340177003359 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 340177003360 nucleotide binding region [chemical binding]; other site 340177003361 ATP-binding site [chemical binding]; other site 340177003362 DbpA RNA binding domain; Region: DbpA; pfam03880 340177003363 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 340177003364 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 340177003365 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 340177003366 Int/Topo IB signature motif; other site 340177003367 active site 340177003368 16S rRNA methyltransferase B; Provisional; Region: PRK14904 340177003369 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 340177003370 putative RNA binding site [nucleotide binding]; other site 340177003371 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 340177003372 HsdM N-terminal domain; Region: HsdM_N; pfam12161 340177003373 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 340177003374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177003375 BRO family, N-terminal domain; Region: Bro-N; cl10591 340177003376 ORF6N domain; Region: ORF6N; pfam10543 340177003377 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 340177003378 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 340177003379 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 340177003380 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 340177003381 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 340177003382 ATP binding site [chemical binding]; other site 340177003383 putative Mg++ binding site [ion binding]; other site 340177003384 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 340177003385 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 340177003386 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 340177003387 AMP-binding enzyme; Region: AMP-binding; cl15778 340177003388 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 340177003389 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 340177003390 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 340177003391 dimer interface [polypeptide binding]; other site 340177003392 substrate binding site [chemical binding]; other site 340177003393 metal binding site [ion binding]; metal-binding site 340177003394 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 340177003395 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 340177003396 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 340177003397 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 340177003398 active site 340177003399 NAD binding site [chemical binding]; other site 340177003400 metal binding site [ion binding]; metal-binding site 340177003401 Putative addiction module component; Region: Unstab_antitox; cl09921 340177003402 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 340177003403 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 340177003404 ligand binding site; other site 340177003405 tetramer interface; other site 340177003406 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 340177003407 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 340177003408 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 340177003409 AMP-binding enzyme; Region: AMP-binding; cl15778 340177003410 Transposase IS200 like; Region: Y1_Tnp; cl00848 340177003411 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 340177003412 endonuclease III; Region: ENDO3c; smart00478 340177003413 minor groove reading motif; other site 340177003414 helix-hairpin-helix signature motif; other site 340177003415 substrate binding pocket [chemical binding]; other site 340177003416 active site 340177003417 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340177003418 adenylosuccinate lyase; Provisional; Region: PRK07492 340177003419 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 340177003420 tetramer interface [polypeptide binding]; other site 340177003421 active site 340177003422 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 340177003423 DoxX; Region: DoxX; cl00976 340177003424 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 340177003425 TPR motif; other site 340177003426 binding surface 340177003427 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 340177003428 TPR motif; other site 340177003429 binding surface 340177003430 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 340177003431 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 340177003432 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340177003433 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 340177003434 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340177003435 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 340177003436 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 340177003437 Cation efflux family; Region: Cation_efflux; cl00316 340177003438 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 340177003439 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 340177003440 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 340177003441 heme-binding residues [chemical binding]; other site 340177003442 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_23; cd04682 340177003443 nudix motif; other site 340177003444 DsrE/DsrF-like family; Region: DrsE; cl00672 340177003445 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 340177003446 catalytic residues [active] 340177003447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177003448 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 340177003449 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340177003450 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 340177003451 ligand binding site [chemical binding]; other site 340177003452 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 340177003453 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 340177003454 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 340177003455 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 340177003456 trimer interface [polypeptide binding]; other site 340177003457 active site 340177003458 UDP-GlcNAc binding site [chemical binding]; other site 340177003459 lipid binding site [chemical binding]; lipid-binding site 340177003460 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 340177003461 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 340177003462 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340177003463 active site 340177003464 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 340177003465 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 340177003466 5S rRNA interface [nucleotide binding]; other site 340177003467 CTC domain interface [polypeptide binding]; other site 340177003468 L16 interface [polypeptide binding]; other site 340177003469 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 340177003470 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 340177003471 dimer interface [polypeptide binding]; other site 340177003472 conserved gate region; other site 340177003473 putative PBP binding loops; other site 340177003474 ABC-ATPase subunit interface; other site 340177003475 L-aspartate oxidase; Provisional; Region: PRK09077 340177003476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177003477 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 340177003478 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 340177003479 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 340177003480 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 340177003481 active site 340177003482 HIGH motif; other site 340177003483 dimer interface [polypeptide binding]; other site 340177003484 KMSKS motif; other site 340177003485 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 340177003486 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 340177003487 SmpB-tmRNA interface; other site 340177003488 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 340177003489 FAD binding domain; Region: FAD_binding_4; pfam01565 340177003490 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 340177003491 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 340177003492 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 340177003493 rod shape-determining protein MreD; Region: MreD; cl01087 340177003494 rod shape-determining protein MreC; Region: MreC; pfam04085 340177003495 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 340177003496 oligomerisation interface [polypeptide binding]; other site 340177003497 mobile loop; other site 340177003498 roof hairpin; other site 340177003499 Quinolinate synthetase A protein; Region: NadA; cl00420 340177003500 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 340177003501 binding surface 340177003502 TPR motif; other site 340177003503 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177003504 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 340177003505 binding surface 340177003506 TPR motif; other site 340177003507 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177003508 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177003509 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 340177003510 binding surface 340177003511 TPR motif; other site 340177003512 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177003513 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 340177003514 putative active site [active] 340177003515 putative metal binding site [ion binding]; other site 340177003516 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 340177003517 active site clefts [active] 340177003518 zinc binding site [ion binding]; other site 340177003519 dimer interface [polypeptide binding]; other site 340177003520 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 340177003521 catalytic loop [active] 340177003522 iron binding site [ion binding]; other site 340177003523 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 340177003524 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 340177003525 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 340177003526 HflX GTPase family; Region: HflX; cd01878 340177003527 G1 box; other site 340177003528 GTP/Mg2+ binding site [chemical binding]; other site 340177003529 Switch I region; other site 340177003530 G2 box; other site 340177003531 G3 box; other site 340177003532 Switch II region; other site 340177003533 G4 box; other site 340177003534 G5 box; other site 340177003535 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 340177003536 active site lid residues [active] 340177003537 substrate binding pocket [chemical binding]; other site 340177003538 catalytic residues [active] 340177003539 substrate-Mg2+ binding site; other site 340177003540 aspartate-rich region 1; other site 340177003541 aspartate-rich region 2; other site 340177003542 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 340177003543 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 340177003544 dimer interface [polypeptide binding]; other site 340177003545 putative anticodon binding site; other site 340177003546 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 340177003547 motif 1; other site 340177003548 active site 340177003549 motif 2; other site 340177003550 motif 3; other site 340177003551 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 340177003552 Uncharacterized conserved protein [Function unknown]; Region: COG4715 340177003553 SWIM zinc finger; Region: SWIM; cl15408 340177003554 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 340177003555 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 340177003556 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 340177003557 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 340177003558 putative NAD(P) binding site [chemical binding]; other site 340177003559 active site 340177003560 putative substrate binding site [chemical binding]; other site 340177003561 Uncharacterized conserved protein [Function unknown]; Region: COG2308 340177003562 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 340177003563 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 340177003564 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 340177003565 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 340177003566 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340177003567 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 340177003568 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 340177003569 phytoene desaturase; Region: phytoene_desat; TIGR02731 340177003570 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177003571 recombination protein RecR; Reviewed; Region: recR; PRK00076 340177003572 RecR protein; Region: RecR; pfam02132 340177003573 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 340177003574 putative active site [active] 340177003575 putative metal-binding site [ion binding]; other site 340177003576 tetramer interface [polypeptide binding]; other site 340177003577 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 340177003578 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 340177003579 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 340177003580 PYR/PP interface [polypeptide binding]; other site 340177003581 dimer interface [polypeptide binding]; other site 340177003582 TPP binding site [chemical binding]; other site 340177003583 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 340177003584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177003585 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 340177003586 non-specific DNA binding site [nucleotide binding]; other site 340177003587 salt bridge; other site 340177003588 sequence-specific DNA binding site [nucleotide binding]; other site 340177003589 Domain of unknown function (DUF955); Region: DUF955; cl01076 340177003590 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 340177003591 Predicted helicase [General function prediction only]; Region: COG4889 340177003592 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 340177003593 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 340177003594 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 340177003595 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 340177003596 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 340177003597 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 340177003598 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 340177003599 E3 interaction surface; other site 340177003600 lipoyl attachment site [posttranslational modification]; other site 340177003601 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 340177003602 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 340177003603 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 340177003604 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 340177003605 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 340177003606 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 340177003607 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 340177003608 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 340177003609 SurA N-terminal domain; Region: SurA_N_3; cl07813 340177003610 PPIC-type PPIASE domain; Region: Rotamase; cl08278 340177003611 PPIC-type PPIASE domain; Region: Rotamase; cl08278 340177003612 PPIC-type PPIASE domain; Region: Rotamase; cl08278 340177003613 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 340177003614 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 340177003615 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 340177003616 GIY-YIG motif/motif A; other site 340177003617 putative active site [active] 340177003618 putative metal binding site [ion binding]; other site 340177003619 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 340177003620 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 340177003621 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 340177003622 P loop; other site 340177003623 GTP binding site [chemical binding]; other site 340177003624 thiamine monophosphate kinase; Provisional; Region: PRK05731 340177003625 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 340177003626 ATP binding site [chemical binding]; other site 340177003627 dimerization interface [polypeptide binding]; other site 340177003628 Flagellin N-methylase; Region: FliB; cl00497 340177003629 DsrE/DsrF-like family; Region: DrsE; cl00672 340177003630 Type III pantothenate kinase; Region: Pan_kinase; cl09130 340177003631 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 340177003632 active site 340177003633 dimer interface [polypeptide binding]; other site 340177003634 metal binding site [ion binding]; metal-binding site 340177003635 shikimate kinase; Reviewed; Region: aroK; PRK00131 340177003636 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 340177003637 ADP binding site [chemical binding]; other site 340177003638 magnesium binding site [ion binding]; other site 340177003639 putative shikimate binding site; other site 340177003640 Divergent AAA domain; Region: AAA_4; pfam04326 340177003641 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 340177003642 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 340177003643 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 340177003644 heterodimer interface [polypeptide binding]; other site 340177003645 substrate interaction site [chemical binding]; other site 340177003646 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 340177003647 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 340177003648 active site 340177003649 substrate binding site [chemical binding]; other site 340177003650 coenzyme B12 binding site [chemical binding]; other site 340177003651 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 340177003652 B12 binding site [chemical binding]; other site 340177003653 cobalt ligand [ion binding]; other site 340177003654 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 340177003655 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 340177003656 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 340177003657 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 340177003658 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 340177003659 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 340177003660 Predicted ATPase [General function prediction only]; Region: COG4637 340177003661 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177003662 Walker A/P-loop; other site 340177003663 ATP binding site [chemical binding]; other site 340177003664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177003665 Walker B; other site 340177003666 D-loop; other site 340177003667 H-loop/switch region; other site 340177003668 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 340177003669 Nif-specific regulatory protein; Region: nifA; TIGR01817 340177003670 GAF domain; Region: GAF; cl15785 340177003671 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 340177003672 Walker A motif; other site 340177003673 ATP binding site [chemical binding]; other site 340177003674 Walker B motif; other site 340177003675 arginine finger; other site 340177003676 Helix-turn-helix domains; Region: HTH; cl00088 340177003677 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 340177003678 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 340177003679 active site 340177003680 catalytic residues [active] 340177003681 metal binding site [ion binding]; metal-binding site 340177003682 Helix-turn-helix domains; Region: HTH; cl00088 340177003683 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 340177003684 TOBE domain; Region: TOBE_2; cl01440 340177003685 TOBE domain; Region: TOBE_2; cl01440 340177003686 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 340177003687 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 340177003688 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 340177003689 active site 340177003690 catalytic tetrad [active] 340177003691 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 340177003692 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 340177003693 Ligand Binding Site [chemical binding]; other site 340177003694 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 340177003695 Bacterial Ig-like domain; Region: Big_5; cl01012 340177003696 membrane ATPase/protein kinase; Provisional; Region: PRK09435 340177003697 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 340177003698 Walker A; other site 340177003699 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177003700 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 340177003701 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003702 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003703 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003704 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003705 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003706 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003707 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 340177003708 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 340177003709 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 340177003710 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 340177003711 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 340177003712 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 340177003713 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003714 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003715 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003716 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003717 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003718 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003719 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003720 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003721 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003722 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003723 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003724 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003725 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003726 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003727 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003728 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003729 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003730 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003731 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003732 VCBS repeat; Region: VCBS_repeat; TIGR01965 340177003733 Calx-beta domain; Region: Calx-beta; cl02522 340177003734 Bacterial Ig-like domain; Region: Big_5; cl01012 340177003735 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 340177003736 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 340177003737 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 340177003738 Nucleotide-binding sites [chemical binding]; other site 340177003739 Walker A motif; other site 340177003740 Switch I region of nucleotide binding site; other site 340177003741 Fe4S4 binding sites [ion binding]; other site 340177003742 Switch II region of nucleotide binding site; other site 340177003743 Nitrogen regulatory protein P-II; Region: P-II; cl00412 340177003744 Nitrogen regulatory protein P-II; Region: P-II; smart00938 340177003745 Nitrogen regulatory protein P-II; Region: P-II; cl00412 340177003746 Nitrogen regulatory protein P-II; Region: P-II; smart00938 340177003747 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 340177003748 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 340177003749 MoFe protein alpha/beta subunit interactions; other site 340177003750 Alpha subunit P cluster binding residues; other site 340177003751 FeMoco binding residues [chemical binding]; other site 340177003752 MoFe protein alpha subunit/Fe protein contacts; other site 340177003753 MoFe protein dimer/ dimer interactions; other site 340177003754 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 340177003755 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 340177003756 MoFe protein beta/alpha subunit interactions; other site 340177003757 Beta subunit P cluster binding residues; other site 340177003758 MoFe protein beta subunit/Fe protein contacts; other site 340177003759 MoFe protein dimer/ dimer interactions; other site 340177003760 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 340177003761 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 340177003762 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 340177003763 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 340177003764 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 340177003765 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 340177003766 FeS/SAM binding site; other site 340177003767 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 340177003768 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 340177003769 dimer interface [polypeptide binding]; other site 340177003770 [2Fe-2S] cluster binding site [ion binding]; other site 340177003771 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 340177003772 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 340177003773 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 340177003774 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 340177003775 ligand binding site [chemical binding]; other site 340177003776 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 340177003777 binding surface 340177003778 TPR repeat; Region: TPR_11; pfam13414 340177003779 TPR motif; other site 340177003780 TPR repeat; Region: TPR_11; pfam13414 340177003781 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 340177003782 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 340177003783 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 340177003784 homodimer interface [polypeptide binding]; other site 340177003785 substrate-cofactor binding pocket; other site 340177003786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177003787 catalytic residue [active] 340177003788 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 340177003789 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 340177003790 dimer interface [polypeptide binding]; other site 340177003791 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177003792 catalytic residue [active] 340177003793 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 340177003794 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 340177003795 serine O-acetyltransferase; Region: cysE; TIGR01172 340177003796 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 340177003797 trimer interface [polypeptide binding]; other site 340177003798 active site 340177003799 substrate binding site [chemical binding]; other site 340177003800 CoA binding site [chemical binding]; other site 340177003801 KilA-N domain; Region: KilA-N; pfam04383 340177003802 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 340177003803 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 340177003804 homodimer interface [polypeptide binding]; other site 340177003805 substrate-cofactor binding pocket; other site 340177003806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177003807 catalytic residue [active] 340177003808 OpgC protein; Region: OpgC_C; cl00792 340177003809 Acyltransferase family; Region: Acyl_transf_3; pfam01757 340177003810 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 340177003811 thiS-thiF/thiG interaction site; other site 340177003812 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 340177003813 ThiS interaction site; other site 340177003814 putative active site [active] 340177003815 tetramer interface [polypeptide binding]; other site 340177003816 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 340177003817 Radical SAM superfamily; Region: Radical_SAM; pfam04055 340177003818 FeS/SAM binding site; other site 340177003819 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 340177003820 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 340177003821 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 340177003822 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 340177003823 ATP binding site [chemical binding]; other site 340177003824 substrate interface [chemical binding]; other site 340177003825 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 340177003826 active site residue [active] 340177003827 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 340177003828 Predicted acetyltransferase [General function prediction only]; Region: COG3153 340177003829 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 340177003830 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 340177003831 non-specific DNA binding site [nucleotide binding]; other site 340177003832 salt bridge; other site 340177003833 sequence-specific DNA binding site [nucleotide binding]; other site 340177003834 HipA N-terminal domain; Region: Couple_hipA; cl11853 340177003835 HipA-like N-terminal domain; Region: HipA_N; pfam07805 340177003836 HipA-like C-terminal domain; Region: HipA_C; pfam07804 340177003837 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 340177003838 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340177003839 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340177003840 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 340177003841 NAD synthase; Region: NAD_synthase; pfam02540 340177003842 homodimer interface [polypeptide binding]; other site 340177003843 NAD binding pocket [chemical binding]; other site 340177003844 ATP binding pocket [chemical binding]; other site 340177003845 Mg binding site [ion binding]; other site 340177003846 active-site loop [active] 340177003847 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 340177003848 Peptidase family M23; Region: Peptidase_M23; pfam01551 340177003849 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 340177003850 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 340177003851 hinge; other site 340177003852 active site 340177003853 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cd00562 340177003854 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 340177003855 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 340177003856 substrate binding site [chemical binding]; other site 340177003857 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 340177003858 substrate binding site [chemical binding]; other site 340177003859 ligand binding site [chemical binding]; other site 340177003860 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 340177003861 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 340177003862 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 340177003863 histidinol dehydrogenase; Region: hisD; TIGR00069 340177003864 NAD binding site [chemical binding]; other site 340177003865 dimerization interface [polypeptide binding]; other site 340177003866 product binding site; other site 340177003867 substrate binding site [chemical binding]; other site 340177003868 zinc binding site [ion binding]; other site 340177003869 catalytic residues [active] 340177003870 rod shape-determining protein MreB; Provisional; Region: PRK13930 340177003871 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 340177003872 ATP binding site [chemical binding]; other site 340177003873 gelsolin binding site; other site 340177003874 profilin binding site; other site 340177003875 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 340177003876 putative active site [active] 340177003877 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 340177003878 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 340177003879 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 340177003880 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 340177003881 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 340177003882 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 340177003883 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 340177003884 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177003885 catalytic residue [active] 340177003886 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 340177003887 hydrolase; Region: PLN02578 340177003888 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 340177003889 Rrf2 family protein; Region: rrf2_super; TIGR00738 340177003890 Helix-turn-helix domains; Region: HTH; cl00088 340177003891 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 340177003892 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 340177003893 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177003894 ABC transporter signature motif; other site 340177003895 Walker B; other site 340177003896 D-loop; other site 340177003897 H-loop/switch region; other site 340177003898 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 340177003899 Predicted ATPase [General function prediction only]; Region: COG4637 340177003900 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177003901 Walker A/P-loop; other site 340177003902 ATP binding site [chemical binding]; other site 340177003903 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 340177003904 ABC transporter signature motif; other site 340177003905 Walker B; other site 340177003906 D-loop; other site 340177003907 H-loop/switch region; other site 340177003908 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 340177003909 oligomerisation interface [polypeptide binding]; other site 340177003910 mobile loop; other site 340177003911 roof hairpin; other site 340177003912 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 340177003913 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 340177003914 ring oligomerisation interface [polypeptide binding]; other site 340177003915 ATP/Mg binding site [chemical binding]; other site 340177003916 stacking interactions; other site 340177003917 hinge regions; other site 340177003918 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 340177003919 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 340177003920 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 340177003921 active site 340177003922 HicB family; Region: HicB; pfam05534 340177003923 Protein of unknown function (DUF433); Region: DUF433; cl01030 340177003924 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 340177003925 Ligand Binding Site [chemical binding]; other site 340177003926 CAAX protease self-immunity; Region: Abi; cl00558 340177003927 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 340177003928 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 340177003929 substrate binding site [chemical binding]; other site 340177003930 active site 340177003931 catalytic residues [active] 340177003932 heterodimer interface [polypeptide binding]; other site 340177003933 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 340177003934 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 340177003935 Probable Catalytic site; other site 340177003936 metal-binding site 340177003937 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 340177003938 MutS domain I; Region: MutS_I; pfam01624 340177003939 MutS domain II; Region: MutS_II; pfam05188 340177003940 MutS family domain IV; Region: MutS_IV; pfam05190 340177003941 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 340177003942 Walker A/P-loop; other site 340177003943 ATP binding site [chemical binding]; other site 340177003944 Q-loop/lid; other site 340177003945 ABC transporter signature motif; other site 340177003946 Walker B; other site 340177003947 D-loop; other site 340177003948 H-loop/switch region; other site 340177003949 PemK-like protein; Region: PemK; cl00995 340177003950 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 340177003951 B12 binding site [chemical binding]; other site 340177003952 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 340177003953 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 340177003954 FeS/SAM binding site; other site 340177003955 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 340177003956 Putative addiction module component; Region: Unstab_antitox; cl09921 340177003957 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 340177003958 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 340177003959 oligomeric interface; other site 340177003960 putative active site [active] 340177003961 homodimer interface [polypeptide binding]; other site 340177003962 RF-1 domain; Region: RF-1; cl02875 340177003963 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340177003964 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340177003965 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177003966 Walker A/P-loop; other site 340177003967 ATP binding site [chemical binding]; other site 340177003968 Q-loop/lid; other site 340177003969 ABC transporter signature motif; other site 340177003970 Walker B; other site 340177003971 D-loop; other site 340177003972 H-loop/switch region; other site 340177003973 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 340177003974 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 340177003975 DNA binding residues [nucleotide binding] 340177003976 Bacteriochlorophyll A protein; Region: BChl_A; pfam02327 340177003977 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 340177003978 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 340177003979 putative active site [active] 340177003980 catalytic triad [active] 340177003981 putative dimer interface [polypeptide binding]; other site 340177003982 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 340177003983 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 340177003984 Walker A motif; other site 340177003985 ATP binding site [chemical binding]; other site 340177003986 Walker B motif; other site 340177003987 arginine finger; other site 340177003988 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 340177003989 Helix-turn-helix domains; Region: HTH; cl00088 340177003990 Sporulation related domain; Region: SPOR; cl10051 340177003991 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14616 340177003992 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 340177003993 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 340177003994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177003995 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 340177003996 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 340177003997 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 340177003998 Ligand Binding Site [chemical binding]; other site 340177003999 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 340177004000 putative substrate translocation pore; other site 340177004001 metabolite-proton symporter; Region: 2A0106; TIGR00883 340177004002 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14671 340177004003 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 340177004004 GIY-YIG motif/motif A; other site 340177004005 active site 340177004006 catalytic site [active] 340177004007 putative DNA binding site [nucleotide binding]; other site 340177004008 metal binding site [ion binding]; metal-binding site 340177004009 UvrB/uvrC motif; Region: UVR; pfam02151 340177004010 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 340177004011 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 340177004012 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 340177004013 TPR repeat; Region: TPR_11; pfam13414 340177004014 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 340177004015 binding surface 340177004016 TPR motif; other site 340177004017 Tetratricopeptide repeat; Region: TPR_16; pfam13432 340177004018 TPR repeat; Region: TPR_11; pfam13414 340177004019 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 340177004020 binding surface 340177004021 TPR motif; other site 340177004022 TPR repeat; Region: TPR_11; pfam13414 340177004023 TPR repeat; Region: TPR_11; pfam13414 340177004024 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 340177004025 binding surface 340177004026 TPR motif; other site 340177004027 TPR repeat; Region: TPR_11; pfam13414 340177004028 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 340177004029 binding surface 340177004030 TPR motif; other site 340177004031 TPR repeat; Region: TPR_11; pfam13414 340177004032 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 340177004033 binding surface 340177004034 TPR motif; other site 340177004035 TPR repeat; Region: TPR_11; pfam13414 340177004036 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 340177004037 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 340177004038 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 340177004039 shikimate binding site; other site 340177004040 NAD(P) binding site [chemical binding]; other site 340177004041 lipoprotein signal peptidase; Provisional; Region: PRK14787 340177004042 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 340177004043 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 340177004044 active site 340177004045 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 340177004046 binding surface 340177004047 TPR motif; other site 340177004048 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 340177004049 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 340177004050 active site 340177004051 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 340177004052 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 340177004053 catalytic residue [active] 340177004054 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 340177004055 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 340177004056 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 340177004057 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 340177004058 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 340177004059 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 340177004060 Low-spin heme binding site [chemical binding]; other site 340177004061 D-pathway; other site 340177004062 Putative water exit pathway; other site 340177004063 Binuclear center (active site) [active] 340177004064 K-pathway; other site 340177004065 Putative proton exit pathway; other site 340177004066 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 340177004067 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 340177004068 Cytochrome c; Region: Cytochrom_C; cl11414 340177004069 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 340177004070 4Fe-4S binding domain; Region: Fer4_5; pfam12801 340177004071 Protein of unknown function (DUF497); Region: DUF497; cl01108 340177004072 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 340177004073 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 340177004074 Catalytic domain of Protein Kinases; Region: PKc; cd00180 340177004075 active site 340177004076 ATP binding site [chemical binding]; other site 340177004077 substrate binding site [chemical binding]; other site 340177004078 activation loop (A-loop); other site 340177004079 FixH; Region: FixH; cl01254 340177004080 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 340177004081 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 340177004082 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 340177004083 metal-binding site [ion binding] 340177004084 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 340177004085 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340177004086 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340177004087 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 340177004088 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 340177004089 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 340177004090 NeuB family; Region: NeuB; cl00496 340177004091 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 340177004092 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 340177004093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177004094 ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-like; cd04879 340177004095 L-serine binding site [chemical binding]; other site 340177004096 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 340177004097 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 340177004098 P loop; other site 340177004099 Nucleotide binding site [chemical binding]; other site 340177004100 DTAP/Switch II; other site 340177004101 Switch I; other site 340177004102 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 340177004103 N-acetyl-D-glucosamine binding site [chemical binding]; other site 340177004104 catalytic residue [active] 340177004105 autolysin; Reviewed; Region: PRK06347 340177004106 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 340177004107 putative peptidoglycan binding site; other site 340177004108 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 340177004109 putative peptidoglycan binding site; other site 340177004110 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 340177004111 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 340177004112 dimerization interface 3.5A [polypeptide binding]; other site 340177004113 active site 340177004114 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 340177004115 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 340177004116 active site 340177004117 catalytic site [active] 340177004118 Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_C; cd01946 340177004119 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 340177004120 substrate binding site [chemical binding]; other site 340177004121 ATP binding site [chemical binding]; other site 340177004122 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 340177004123 active site 340177004124 NTP binding site [chemical binding]; other site 340177004125 metal binding triad [ion binding]; metal-binding site 340177004126 antibiotic binding site [chemical binding]; other site 340177004127 Sodium:solute symporter family; Region: SSF; cl00456 340177004128 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 340177004129 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 340177004130 non-specific DNA binding site [nucleotide binding]; other site 340177004131 salt bridge; other site 340177004132 sequence-specific DNA binding site [nucleotide binding]; other site 340177004133 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 340177004134 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 340177004135 active site 340177004136 metal binding site [ion binding]; metal-binding site 340177004137 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 340177004138 oligomeric interface; other site 340177004139 putative active site [active] 340177004140 homodimer interface [polypeptide binding]; other site 340177004141 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 340177004142 putative active site [active] 340177004143 Tsp45I type II restriction enzyme; Region: Tsp45I; pfam06300 340177004144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177004145 Maf-like protein; Region: Maf; pfam02545 340177004146 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 340177004147 active site 340177004148 dimer interface [polypeptide binding]; other site 340177004149 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177004150 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 340177004151 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 340177004152 anti sigma factor interaction site; other site 340177004153 regulatory phosphorylation site [posttranslational modification]; other site 340177004154 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 340177004155 oligosaccharyl transferase, archaeosortase system-associated; Region: archaeo_STT3; TIGR04154 340177004156 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 340177004157 transmembrane helices; other site 340177004158 Domain of unknown function (DUF389); Region: DUF389; cl00781 340177004159 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 340177004160 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 340177004161 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 340177004162 Cl- selectivity filter; other site 340177004163 Cl- binding residues [ion binding]; other site 340177004164 pore gating glutamate residue; other site 340177004165 dimer interface [polypeptide binding]; other site 340177004166 FOG: CBS domain [General function prediction only]; Region: COG0517 340177004167 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_assoc2; cd04613 340177004168 The Death Domain Superfamily of protein-protein interaction domains; Region: DD_superfamily; cl14633 340177004169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177004170 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 340177004171 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 340177004172 active site 340177004173 HIGH motif; other site 340177004174 KMSKS motif; other site 340177004175 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 340177004176 tRNA binding surface [nucleotide binding]; other site 340177004177 anticodon binding site; other site 340177004178 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 340177004179 dimer interface [polypeptide binding]; other site 340177004180 putative tRNA-binding site [nucleotide binding]; other site 340177004181 PSP1 C-terminal conserved region; Region: PSP1; cl00770 340177004182 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; cd05709 340177004183 active site 340177004184 putative substrate binding region [chemical binding]; other site 340177004185 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 340177004186 GAF domain; Region: GAF; cl15785 340177004187 HlyD family secretion protein; Region: HlyD; pfam00529 340177004188 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 340177004189 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 340177004190 HlyD family secretion protein; Region: HlyD; pfam00529 340177004191 Plant ATP synthase F0; Region: YMF19; cl07975 340177004192 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 340177004193 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 340177004194 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 340177004195 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 340177004196 NAD binding site [chemical binding]; other site 340177004197 homotetramer interface [polypeptide binding]; other site 340177004198 homodimer interface [polypeptide binding]; other site 340177004199 substrate binding site [chemical binding]; other site 340177004200 active site 340177004201 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 340177004202 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 340177004203 DTAP/Switch II; other site 340177004204 Switch I; other site 340177004205 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 340177004206 FMN binding site [chemical binding]; other site 340177004207 dimer interface [polypeptide binding]; other site 340177004208 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 340177004209 Flavoprotein; Region: Flavoprotein; cl08021 340177004210 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 340177004211 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177004212 Family description; Region: UvrD_C_2; cl15862 340177004213 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_1; cd11347 340177004214 active site 340177004215 catalytic site [active] 340177004216 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 340177004217 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 340177004218 tetramer interfaces [polypeptide binding]; other site 340177004219 binuclear metal-binding site [ion binding]; other site 340177004220 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 340177004221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177004222 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 340177004223 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 340177004224 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 340177004225 chaperone protein DnaJ; Provisional; Region: PRK14281 340177004226 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 340177004227 HSP70 interaction site [polypeptide binding]; other site 340177004228 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 340177004229 substrate binding site [polypeptide binding]; other site 340177004230 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 340177004231 Zn binding sites [ion binding]; other site 340177004232 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 340177004233 dimer interface [polypeptide binding]; other site 340177004234 heat shock protein GrpE; Provisional; Region: PRK14141 340177004235 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 340177004236 dimer interface [polypeptide binding]; other site 340177004237 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 340177004238 Helix-turn-helix domains; Region: HTH; cl00088 340177004239 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 340177004240 HrcA protein C terminal domain; Region: HrcA; pfam01628 340177004241 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 340177004242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177004243 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 340177004244 S-adenosylmethionine binding site [chemical binding]; other site 340177004245 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 340177004246 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 340177004247 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177004248 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 340177004249 catalytic triad [active] 340177004250 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 340177004251 FAD binding domain; Region: FAD_binding_4; pfam01565 340177004252 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 340177004253 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 340177004254 putative heme binding site [chemical binding]; other site 340177004255 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 340177004256 putative catalytic site [active] 340177004257 putative metal binding site [ion binding]; other site 340177004258 putative phosphate binding site [ion binding]; other site 340177004259 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 340177004260 oligomeric interface; other site 340177004261 putative active site [active] 340177004262 homodimer interface [polypeptide binding]; other site 340177004263 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 340177004264 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 340177004265 ATP binding site [chemical binding]; other site 340177004266 active site 340177004267 substrate binding site [chemical binding]; other site 340177004268 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 340177004269 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 340177004270 TPP-binding site [chemical binding]; other site 340177004271 dimer interface [polypeptide binding]; other site 340177004272 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 340177004273 S-adenosylmethionine binding site [chemical binding]; other site 340177004274 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 340177004275 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 340177004276 active site 340177004277 (T/H)XGH motif; other site 340177004278 aspartate aminotransferase; Provisional; Region: PRK05764 340177004279 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 340177004280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177004281 homodimer interface [polypeptide binding]; other site 340177004282 catalytic residue [active] 340177004283 Fic family protein [Function unknown]; Region: COG3177 340177004284 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 340177004285 Fic/DOC family; Region: Fic; cl00960 340177004286 KilA-N domain; Region: KilA-N; pfam04383 340177004287 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 340177004288 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177004289 Walker A/P-loop; other site 340177004290 ATP binding site [chemical binding]; other site 340177004291 Q-loop/lid; other site 340177004292 ABC transporter signature motif; other site 340177004293 Walker B; other site 340177004294 D-loop; other site 340177004295 H-loop/switch region; other site 340177004296 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 340177004297 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 340177004298 homotetramer interface [polypeptide binding]; other site 340177004299 FMN binding site [chemical binding]; other site 340177004300 homodimer contacts [polypeptide binding]; other site 340177004301 putative active site [active] 340177004302 putative substrate binding site [chemical binding]; other site 340177004303 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 340177004304 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 340177004305 substrate binding pocket [chemical binding]; other site 340177004306 chain length determination region; other site 340177004307 substrate-Mg2+ binding site; other site 340177004308 catalytic residues [active] 340177004309 aspartate-rich region 1; other site 340177004310 active site lid residues [active] 340177004311 aspartate-rich region 2; other site 340177004312 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 340177004313 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 340177004314 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 340177004315 periplasmic chaperone; Provisional; Region: PRK10780 340177004316 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 340177004317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 340177004318 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 340177004319 tetramerization interface [polypeptide binding]; other site 340177004320 active site 340177004321 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 340177004322 Substrate binding site; other site 340177004323 Mg++ binding site; other site 340177004324 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 340177004325 binding surface 340177004326 TPR motif; other site 340177004327 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004328 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004329 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 340177004330 binding surface 340177004331 TPR motif; other site 340177004332 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004333 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004334 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 340177004335 binding surface 340177004336 TPR motif; other site 340177004337 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004338 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 340177004339 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 340177004340 active site 340177004341 metal binding site [ion binding]; metal-binding site 340177004342 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 340177004343 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 340177004344 catalytic site [active] 340177004345 G-X2-G-X-G-K; other site 340177004346 hypothetical protein; Provisional; Region: PRK11820 340177004347 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 340177004348 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 340177004349 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 340177004350 16S/18S rRNA binding site [nucleotide binding]; other site 340177004351 S13e-L30e interaction site [polypeptide binding]; other site 340177004352 25S rRNA binding site [nucleotide binding]; other site 340177004353 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 340177004354 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 340177004355 active site 340177004356 Riboflavin kinase; Region: Flavokinase; cl03312 340177004357 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 340177004358 RNA binding site [nucleotide binding]; other site 340177004359 active site 340177004360 Ribosome-binding factor A; Region: RBFA; cl00542 340177004361 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 340177004362 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 340177004363 translation initiation factor IF-2; Region: IF-2; TIGR00487 340177004364 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 340177004365 G1 box; other site 340177004366 putative GEF interaction site [polypeptide binding]; other site 340177004367 GTP/Mg2+ binding site [chemical binding]; other site 340177004368 Switch I region; other site 340177004369 G2 box; other site 340177004370 G3 box; other site 340177004371 Switch II region; other site 340177004372 G4 box; other site 340177004373 G5 box; other site 340177004374 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 340177004375 Translation-initiation factor 2; Region: IF-2; pfam11987 340177004376 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 340177004377 NusA N-terminal domain; Region: NusA_N; pfam08529 340177004378 transcription termination factor NusA; Region: NusA; TIGR01953 340177004379 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 340177004380 RNA binding site [nucleotide binding]; other site 340177004381 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 340177004382 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 340177004383 G-X-X-G motif; other site 340177004384 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 340177004385 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 340177004386 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 340177004387 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 340177004388 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 340177004389 motif 1; other site 340177004390 dimer interface [polypeptide binding]; other site 340177004391 active site 340177004392 motif 2; other site 340177004393 motif 3; other site 340177004394 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 340177004395 anticodon binding site; other site 340177004396 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 340177004397 active site 340177004398 phosphorylation site [posttranslational modification] 340177004399 Virulence protein [General function prediction only]; Region: COG3943 340177004400 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 340177004401 Fic/DOC family; Region: Fic; cl00960 340177004402 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 340177004403 CAAX protease self-immunity; Region: Abi; cl00558 340177004404 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 340177004405 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 340177004406 putative ADP-binding pocket [chemical binding]; other site 340177004407 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340177004408 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 340177004409 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 340177004410 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 340177004411 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 340177004412 putative ADP-binding pocket [chemical binding]; other site 340177004413 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 340177004414 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340177004415 putative ADP-binding pocket [chemical binding]; other site 340177004416 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 340177004417 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 340177004418 active site 340177004419 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 340177004420 active site 340177004421 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 340177004422 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 340177004423 trimer interface [polypeptide binding]; other site 340177004424 active site 340177004425 substrate binding site [chemical binding]; other site 340177004426 CoA binding site [chemical binding]; other site 340177004427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177004428 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 340177004429 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340177004430 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340177004431 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 340177004432 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 340177004433 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340177004434 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 340177004435 Walker A/P-loop; other site 340177004436 ATP binding site [chemical binding]; other site 340177004437 Q-loop/lid; other site 340177004438 ABC transporter signature motif; other site 340177004439 Walker B; other site 340177004440 D-loop; other site 340177004441 H-loop/switch region; other site 340177004442 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 340177004443 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 340177004444 putative acyl-acceptor binding pocket; other site 340177004445 Clp protease ATP binding subunit; Region: clpC; CHL00095 340177004446 Clp amino terminal domain; Region: Clp_N; pfam02861 340177004447 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 340177004448 Walker A motif; other site 340177004449 ATP binding site [chemical binding]; other site 340177004450 Walker B motif; other site 340177004451 arginine finger; other site 340177004452 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 340177004453 Walker A motif; other site 340177004454 ATP binding site [chemical binding]; other site 340177004455 Walker B motif; other site 340177004456 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 340177004457 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 340177004458 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 340177004459 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 340177004460 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 340177004461 putative active site [active] 340177004462 hybrid cluster protein; Provisional; Region: PRK05290 340177004463 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 340177004464 ACS interaction site; other site 340177004465 CODH interaction site; other site 340177004466 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 340177004467 hybrid metal cluster; other site 340177004468 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 340177004469 TPR motif; other site 340177004470 TPR repeat; Region: TPR_11; pfam13414 340177004471 binding surface 340177004472 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 340177004473 4Fe-4S binding domain; Region: Fer4; cl02805 340177004474 Rrf2 family protein; Region: rrf2_super; TIGR00738 340177004475 Helix-turn-helix domains; Region: HTH; cl00088 340177004476 YcfA-like protein; Region: YcfA; cl00752 340177004477 Membrane protein of unknown function; Region: DUF360; cl00850 340177004478 SET domain; Region: SET; cl02566 340177004479 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 340177004480 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 340177004481 putative NAD(P) binding site [chemical binding]; other site 340177004482 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 340177004483 This family represents the domain I 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_I; cd03216 340177004484 Walker A/P-loop; other site 340177004485 ATP binding site [chemical binding]; other site 340177004486 Q-loop/lid; other site 340177004487 ABC transporter signature motif; other site 340177004488 Walker B; other site 340177004489 D-loop; other site 340177004490 H-loop/switch region; other site 340177004491 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 340177004492 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 340177004493 TM-ABC transporter signature motif; other site 340177004494 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 340177004495 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 340177004496 CHAT domain; Region: CHAT; pfam12770 340177004497 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177004498 Archaeal ATPase; Region: Arch_ATPase; pfam01637 340177004499 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004500 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004501 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 340177004502 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004503 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 340177004504 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004505 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 340177004506 binding surface 340177004507 TPR motif; other site 340177004508 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004509 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004510 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 340177004511 binding surface 340177004512 TPR motif; other site 340177004513 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004514 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 340177004515 binding surface 340177004516 TPR motif; other site 340177004517 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004518 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177004519 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 340177004520 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177004521 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177004522 haemagglutination activity domain; Region: Haemagg_act; cl05436 340177004523 hypothetical protein; Reviewed; Region: PRK00024 340177004524 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 340177004525 MPN+ (JAMM) motif; other site 340177004526 Zinc-binding site [ion binding]; other site 340177004527 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 340177004528 active site 340177004529 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 340177004530 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 340177004531 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 340177004532 domain interfaces; other site 340177004533 active site 340177004534 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 340177004535 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 340177004536 tRNA; other site 340177004537 putative tRNA binding site [nucleotide binding]; other site 340177004538 putative NADP binding site [chemical binding]; other site 340177004539 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 340177004540 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 340177004541 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 340177004542 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 340177004543 putative GEF interaction site [polypeptide binding]; other site 340177004544 G1 box; other site 340177004545 GTP/Mg2+ binding site [chemical binding]; other site 340177004546 Switch I region; other site 340177004547 G2 box; other site 340177004548 G3 box; other site 340177004549 Switch II region; other site 340177004550 G4 box; other site 340177004551 G5 box; other site 340177004552 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 340177004553 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 340177004554 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 340177004555 Tetramer interface [polypeptide binding]; other site 340177004556 active site 340177004557 FMN-binding site [chemical binding]; other site 340177004558 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 340177004559 dimer interface [polypeptide binding]; other site 340177004560 allosteric magnesium binding site [ion binding]; other site 340177004561 active site 340177004562 aspartate-rich active site metal binding site; other site 340177004563 Schiff base residues; other site 340177004564 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 340177004565 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 340177004566 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 340177004567 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 340177004568 active site 340177004569 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 340177004570 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 340177004571 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 340177004572 ATP binding site [chemical binding]; other site 340177004573 putative Mg++ binding site [ion binding]; other site 340177004574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177004575 nucleotide binding region [chemical binding]; other site 340177004576 ATP-binding site [chemical binding]; other site 340177004577 BRO family, N-terminal domain; Region: Bro-N; cl10591 340177004578 HsdM N-terminal domain; Region: HsdM_N; pfam12161 340177004579 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 340177004580 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177004581 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 340177004582 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 340177004583 Preprotein translocase SecG subunit; Region: SecG; cl09123 340177004584 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 340177004585 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 340177004586 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 340177004587 putative active site pocket [active] 340177004588 4-fold oligomerization interface [polypeptide binding]; other site 340177004589 metal binding residues [ion binding]; metal-binding site 340177004590 3-fold/trimer interface [polypeptide binding]; other site 340177004591 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 340177004592 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 340177004593 B12 binding site [chemical binding]; other site 340177004594 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 340177004595 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 340177004596 FeS/SAM binding site; other site 340177004597 UbiA prenyltransferase family; Region: UbiA; cl00337 340177004598 PAS fold; Region: PAS_4; pfam08448 340177004599 PAS domain S-box; Region: sensory_box; TIGR00229 340177004600 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 340177004601 putative active site [active] 340177004602 heme pocket [chemical binding]; other site 340177004603 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 340177004604 PAS fold; Region: PAS_3; pfam08447 340177004605 putative active site [active] 340177004606 heme pocket [chemical binding]; other site 340177004607 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 340177004608 PAS fold; Region: PAS_3; pfam08447 340177004609 putative active site [active] 340177004610 heme pocket [chemical binding]; other site 340177004611 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 340177004612 PAS fold; Region: PAS_3; pfam08447 340177004613 putative active site [active] 340177004614 heme pocket [chemical binding]; other site 340177004615 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 340177004616 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 340177004617 putative active site [active] 340177004618 heme pocket [chemical binding]; other site 340177004619 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 340177004620 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 340177004621 dimer interface [polypeptide binding]; other site 340177004622 phosphorylation site [posttranslational modification] 340177004623 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 340177004624 ATP binding site [chemical binding]; other site 340177004625 Mg2+ binding site [ion binding]; other site 340177004626 G-X-G motif; other site 340177004627 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 340177004628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 340177004629 active site 340177004630 phosphorylation site [posttranslational modification] 340177004631 intermolecular recognition site; other site 340177004632 dimerization interface [polypeptide binding]; other site 340177004633 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 340177004634 DNA binding site [nucleotide binding] 340177004635 phosphodiesterase; Provisional; Region: PRK12704 340177004636 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 340177004637 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 340177004638 Cell division protein ZapA; Region: ZapA; cl01146 340177004639 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 340177004640 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 340177004641 putative tRNA-binding site [nucleotide binding]; other site 340177004642 B3/4 domain; Region: B3_4; cl11458 340177004643 tRNA synthetase B5 domain; Region: B5; cl08394 340177004644 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 340177004645 dimer interface [polypeptide binding]; other site 340177004646 motif 1; other site 340177004647 motif 3; other site 340177004648 motif 2; other site 340177004649 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 340177004650 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 340177004651 nudix motif; other site 340177004652 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 340177004653 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 340177004654 active site 340177004655 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 340177004656 S-adenosylmethionine synthetase; Validated; Region: PRK05250 340177004657 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 340177004658 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 340177004659 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 340177004660 Adenosylhomocysteinase; Provisional; Region: PTZ00075 340177004661 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 340177004662 oligomerization interface [polypeptide binding]; other site 340177004663 active site 340177004664 NAD+ binding site [chemical binding]; other site 340177004665 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 340177004666 active site 340177004667 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 340177004668 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 340177004669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177004670 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 340177004671 RNA/DNA binding site [nucleotide binding]; other site 340177004672 RRM dimerization site [polypeptide binding]; other site 340177004673 Sulfate transporter family; Region: Sulfate_transp; cl15842 340177004674 putative transporter; Provisional; Region: PRK11660 340177004675 Sulfate transporter family; Region: Sulfate_transp; cl15842 340177004676 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 340177004677 Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also...; Region: ArsC_15kD; cd03033 340177004678 putative catalytic residues [active] 340177004679 Domain of unknown function (DUF296); Region: DUF296; cl00720 340177004680 Transposase; Region: DEDD_Tnp_IS110; pfam01548 340177004681 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 340177004682 Protein of unknown function (DUF972); Region: DUF972; pfam06156 340177004683 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 340177004684 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 340177004685 Family description; Region: VCBS; pfam13517 340177004686 Family description; Region: VCBS; pfam13517 340177004687 Family description; Region: VCBS; pfam13517 340177004688 Family description; Region: VCBS; pfam13517 340177004689 Family description; Region: VCBS; pfam13517 340177004690 FG-GAP repeat; Region: FG-GAP; cl15299 340177004691 Family description; Region: VCBS; pfam13517 340177004692 Bacterial Ig-like domain; Region: Big_5; cl01012 340177004693 Family description; Region: VCBS; pfam13517 340177004694 Family description; Region: VCBS; pfam13517 340177004695 Family description; Region: VCBS; pfam13517 340177004696 Family description; Region: VCBS; pfam13517 340177004697 Family description; Region: VCBS; pfam13517 340177004698 Family description; Region: VCBS; pfam13517 340177004699 Bacterial Ig-like domain; Region: Big_5; cl01012 340177004700 Protein of unknown function DUF45; Region: DUF45; cl00636 340177004701 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 340177004702 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 340177004703 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12898 340177004704 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 340177004705 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 340177004706 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 340177004707 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 340177004708 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 340177004709 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 340177004710 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 340177004711 FAD binding pocket [chemical binding]; other site 340177004712 FAD binding motif [chemical binding]; other site 340177004713 phosphate binding motif [ion binding]; other site 340177004714 beta-alpha-beta structure motif; other site 340177004715 NAD binding pocket [chemical binding]; other site 340177004716 Iron coordination center [ion binding]; other site 340177004717 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 340177004718 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 340177004719 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 340177004720 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 340177004721 putative NAD(P) binding site [chemical binding]; other site 340177004722 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 340177004723 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 340177004724 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 340177004725 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 340177004726 FeS/SAM binding site; other site 340177004727 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 340177004728 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 340177004729 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 340177004730 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177004731 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177004732 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 340177004733 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 340177004734 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 340177004735 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 340177004736 tricarballylate utilization protein B; Provisional; Region: PRK15033 340177004737 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 340177004738 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 340177004739 4Fe-4S binding domain; Region: Fer4; cl02805 340177004740 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 340177004741 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 340177004742 4Fe-4S binding domain; Region: Fer4; cl02805 340177004743 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177004744 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 340177004745 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 340177004746 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 340177004747 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 340177004748 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 340177004749 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 340177004750 ATP-sulfurylase; Region: ATPS; cd00517 340177004751 active site 340177004752 HXXH motif; other site 340177004753 flexible loop; other site 340177004754 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 340177004755 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 340177004756 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 340177004757 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 340177004758 Helix-turn-helix domains; Region: HTH; cl00088 340177004759 phytoene desaturase; Region: phytoene_desat; TIGR02731 340177004760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177004761 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 340177004762 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 340177004763 FeS/SAM binding site; other site 340177004764 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 340177004765 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 340177004766 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 340177004767 Probable Catalytic site; other site 340177004768 chlorosome envelope protein H repeat; Region: rpt_csmH; TIGR03058 340177004769 chlorosome envelope protein H repeat; Region: rpt_csmH; TIGR03058 340177004770 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 340177004771 trimer interface [polypeptide binding]; other site 340177004772 active site 340177004773 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 340177004774 Family description; Region: VCBS; pfam13517 340177004775 Family description; Region: VCBS; pfam13517 340177004776 Family description; Region: VCBS; pfam13517 340177004777 Family description; Region: VCBS; pfam13517 340177004778 Family description; Region: VCBS; pfam13517 340177004779 Family description; Region: VCBS; pfam13517 340177004780 Family description; Region: VCBS; pfam13517 340177004781 Family description; Region: VCBS; pfam13517 340177004782 Family description; Region: VCBS; pfam13517 340177004783 Bacterial Ig-like domain; Region: Big_5; cl01012 340177004784 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 340177004785 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177004786 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 340177004787 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 340177004788 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177004789 Walker A/P-loop; other site 340177004790 ATP binding site [chemical binding]; other site 340177004791 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 340177004792 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 340177004793 catalytic triad [active] 340177004794 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 340177004795 nudix motif; other site 340177004796 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 340177004797 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340177004798 putative active site [active] 340177004799 metal binding site [ion binding]; metal-binding site 340177004800 homodimer binding site [polypeptide binding]; other site 340177004801 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 340177004802 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 340177004803 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 340177004804 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 340177004805 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 340177004806 replicative DNA helicase; Region: DnaB; TIGR00665 340177004807 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 340177004808 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 340177004809 Walker A motif; other site 340177004810 ATP binding site [chemical binding]; other site 340177004811 Walker B motif; other site 340177004812 DNA binding loops [nucleotide binding] 340177004813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177004814 AccI restriction endonuclease; Region: RE_AccI; pfam09545 340177004815 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 340177004816 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177004817 ABC transporter signature motif; other site 340177004818 Walker B; other site 340177004819 D-loop; other site 340177004820 H-loop/switch region; other site 340177004821 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 340177004822 Flavoprotein; Region: Flavoprotein; cl08021 340177004823 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 340177004824 Family of unknown function (DUF490); Region: DUF490; pfam04357 340177004825 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340177004826 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 340177004827 active site 340177004828 nucleotide binding site [chemical binding]; other site 340177004829 HIGH motif; other site 340177004830 KMSKS motif; other site 340177004831 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 340177004832 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340177004833 putative active site [active] 340177004834 putative metal binding site [ion binding]; other site 340177004835 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 340177004836 Predicted transcriptional regulator [Transcription]; Region: COG2944 340177004837 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 340177004838 non-specific DNA binding site [nucleotide binding]; other site 340177004839 salt bridge; other site 340177004840 sequence-specific DNA binding site [nucleotide binding]; other site 340177004841 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177004842 magnesium chelatase ATPase subunit D; Region: BchD-ChlD; TIGR02031 340177004843 Walker A motif; other site 340177004844 ATP binding site [chemical binding]; other site 340177004845 Walker B motif; other site 340177004846 arginine finger; other site 340177004847 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 340177004848 metal ion-dependent adhesion site (MIDAS); other site 340177004849 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 340177004850 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177004851 Walker A motif; other site 340177004852 ATP binding site [chemical binding]; other site 340177004853 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 340177004854 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 340177004855 RNA binding surface [nucleotide binding]; other site 340177004856 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 340177004857 active site 340177004858 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 340177004859 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 340177004860 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 340177004861 YtxH-like protein; Region: YtxH; cl02079 340177004862 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 340177004863 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340177004864 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 340177004865 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 340177004866 cofactor binding site; other site 340177004867 DNA binding site [nucleotide binding] 340177004868 substrate interaction site [chemical binding]; other site 340177004869 Protein of unknown function DUF262; Region: DUF262; cl14890 340177004870 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 340177004871 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 340177004872 hinge; other site 340177004873 active site 340177004874 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 340177004875 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 340177004876 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 340177004877 dimer interface [polypeptide binding]; other site 340177004878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177004879 catalytic residue [active] 340177004880 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 340177004881 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 340177004882 alanine racemase; Reviewed; Region: alr; PRK00053 340177004883 active site 340177004884 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 340177004885 dimer interface [polypeptide binding]; other site 340177004886 substrate binding site [chemical binding]; other site 340177004887 catalytic residues [active] 340177004888 Lipopolysaccharide-assembly; Region: LptE; cl01125 340177004889 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 340177004890 classical (c) SDRs; Region: SDR_c; cd05233 340177004891 NAD(P) binding site [chemical binding]; other site 340177004892 active site 340177004893 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 340177004894 ribulose bisphosphate carboxylase, type III; Region: rubisco_III; TIGR03326 340177004895 dimer interface [polypeptide binding]; other site 340177004896 catalytic residue [active] 340177004897 metal binding site [ion binding]; metal-binding site 340177004898 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 340177004899 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 340177004900 putative active site; other site 340177004901 catalytic residue [active] 340177004902 short chain dehydrogenase; Validated; Region: PRK08324 340177004903 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 340177004904 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 340177004905 putative NAD(P) binding site [chemical binding]; other site 340177004906 active site 340177004907 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; cl06353 340177004908 RecX family; Region: RecX; cl00936 340177004909 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 340177004910 putative nucleotide binding site [chemical binding]; other site 340177004911 uridine monophosphate binding site [chemical binding]; other site 340177004912 homohexameric interface [polypeptide binding]; other site 340177004913 elongation factor Ts; Provisional; Region: tsf; PRK09377 340177004914 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 340177004915 Elongation factor TS; Region: EF_TS; pfam00889 340177004916 Elongation factor TS; Region: EF_TS; pfam00889 340177004917 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 340177004918 rRNA interaction site [nucleotide binding]; other site 340177004919 S8 interaction site; other site 340177004920 putative laminin-1 binding site; other site 340177004921 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 340177004922 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 340177004923 23S rRNA interface [nucleotide binding]; other site 340177004924 L3 interface [polypeptide binding]; other site 340177004925 GTP-binding protein Der; Reviewed; Region: PRK00093 340177004926 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 340177004927 G1 box; other site 340177004928 GTP/Mg2+ binding site [chemical binding]; other site 340177004929 Switch I region; other site 340177004930 G2 box; other site 340177004931 Switch II region; other site 340177004932 G3 box; other site 340177004933 G4 box; other site 340177004934 G5 box; other site 340177004935 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 340177004936 G1 box; other site 340177004937 GTP/Mg2+ binding site [chemical binding]; other site 340177004938 Switch I region; other site 340177004939 G2 box; other site 340177004940 G3 box; other site 340177004941 Switch II region; other site 340177004942 G4 box; other site 340177004943 G5 box; other site 340177004944 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 340177004945 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 340177004946 Walker A motif; other site 340177004947 NifU-like domain; Region: NifU; cl00484 340177004948 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177004949 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 340177004950 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 340177004951 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 340177004952 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 340177004953 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 340177004954 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 340177004955 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 340177004956 tetramer interface [polypeptide binding]; other site 340177004957 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177004958 catalytic residue [active] 340177004959 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 340177004960 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 340177004961 dimerization interface [polypeptide binding]; other site 340177004962 active site 340177004963 metal binding site [ion binding]; metal-binding site 340177004964 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 340177004965 dsRNA binding site [nucleotide binding]; other site 340177004966 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 340177004967 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 340177004968 dimer interface [polypeptide binding]; other site 340177004969 active site 340177004970 Phosphopantetheine attachment site; Region: PP-binding; cl09936 340177004971 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 340177004972 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 340177004973 NAD(P) binding site [chemical binding]; other site 340177004974 homotetramer interface [polypeptide binding]; other site 340177004975 homodimer interface [polypeptide binding]; other site 340177004976 active site 340177004977 Acyl transferase domain; Region: Acyl_transf_1; cl08282 340177004978 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 340177004979 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 340177004980 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 340177004981 dimer interface [polypeptide binding]; other site 340177004982 active site 340177004983 CoA binding pocket [chemical binding]; other site 340177004984 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 340177004985 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 340177004986 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 340177004987 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 340177004988 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 340177004989 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 340177004990 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177004991 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 340177004992 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340177004993 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 340177004994 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 340177004995 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 340177004996 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 340177004997 AMP-binding enzyme; Region: AMP-binding; cl15778 340177004998 2-isopropylmalate synthase; Validated; Region: PRK03739 340177004999 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 340177005000 active site 340177005001 catalytic residues [active] 340177005002 metal binding site [ion binding]; metal-binding site 340177005003 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 340177005004 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 340177005005 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 340177005006 putative metal binding residues [ion binding]; other site 340177005007 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 340177005008 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 340177005009 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 340177005010 ABC-ATPase subunit interface; other site 340177005011 dimer interface [polypeptide binding]; other site 340177005012 putative PBP binding regions; other site 340177005013 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 340177005014 Oxygen tolerance; Region: BatD; pfam13584 340177005015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177005016 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 340177005017 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 340177005018 ResB-like family; Region: ResB; pfam05140 340177005019 ResB-like family; Region: ResB; pfam05140 340177005020 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 340177005021 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 340177005022 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 340177005023 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 340177005024 DsbD alpha interface [polypeptide binding]; other site 340177005025 catalytic residues [active] 340177005026 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 340177005027 acetyl-CoA synthetase; Provisional; Region: PRK00174 340177005028 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 340177005029 AMP-binding enzyme; Region: AMP-binding; cl15778 340177005030 AMP-binding enzyme; Region: AMP-binding; cl15778 340177005031 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 340177005032 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 340177005033 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 340177005034 HIGH motif; other site 340177005035 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 340177005036 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340177005037 active site 340177005038 KMSKS motif; other site 340177005039 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 340177005040 tRNA binding surface [nucleotide binding]; other site 340177005041 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 340177005042 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 340177005043 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 340177005044 RNase E interface [polypeptide binding]; other site 340177005045 trimer interface [polypeptide binding]; other site 340177005046 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 340177005047 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 340177005048 RNase E interface [polypeptide binding]; other site 340177005049 trimer interface [polypeptide binding]; other site 340177005050 active site 340177005051 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 340177005052 putative nucleic acid binding region [nucleotide binding]; other site 340177005053 G-X-X-G motif; other site 340177005054 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 340177005055 RNA binding site [nucleotide binding]; other site 340177005056 domain interface; other site 340177005057 Predicted esterase [General function prediction only]; Region: COG0400 340177005058 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 340177005059 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 340177005060 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 340177005061 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 340177005062 substrate binding pocket [chemical binding]; other site 340177005063 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 340177005064 B12 binding site [chemical binding]; other site 340177005065 cobalt ligand [ion binding]; other site 340177005066 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 340177005067 HRDC domain; Region: HRDC; cl02578 340177005068 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 340177005069 putative active site [active] 340177005070 putative NTP binding site [chemical binding]; other site 340177005071 putative nucleic acid binding site [nucleotide binding]; other site 340177005072 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 340177005073 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 340177005074 ligand binding site [chemical binding]; other site 340177005075 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 340177005076 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 340177005077 dimer interface [polypeptide binding]; other site 340177005078 tetramer interface [polypeptide binding]; other site 340177005079 PYR/PP interface [polypeptide binding]; other site 340177005080 TPP binding site [chemical binding]; other site 340177005081 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 340177005082 TPP-binding site; other site 340177005083 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 340177005084 chorismate binding enzyme; Region: Chorismate_bind; cl10555 340177005085 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 340177005086 TPR motif; other site 340177005087 Tetratricopeptide repeat; Region: TPR_16; pfam13432 340177005088 binding surface 340177005089 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 340177005090 binding surface 340177005091 TPR motif; other site 340177005092 TPR repeat; Region: TPR_11; pfam13414 340177005093 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 340177005094 tandem repeat interface [polypeptide binding]; other site 340177005095 oligomer interface [polypeptide binding]; other site 340177005096 active site residues [active] 340177005097 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 340177005098 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 340177005099 tandem repeat interface [polypeptide binding]; other site 340177005100 oligomer interface [polypeptide binding]; other site 340177005101 active site residues [active] 340177005102 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 340177005103 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 340177005104 Walker A/P-loop; other site 340177005105 ATP binding site [chemical binding]; other site 340177005106 Q-loop/lid; other site 340177005107 ABC transporter signature motif; other site 340177005108 Walker B; other site 340177005109 D-loop; other site 340177005110 H-loop/switch region; other site 340177005111 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340177005112 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 340177005113 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 340177005114 pantoate--beta-alanine ligase; Region: panC; TIGR00018 340177005115 Pantoate-beta-alanine ligase; Region: PanC; cd00560 340177005116 active site 340177005117 ATP-binding site [chemical binding]; other site 340177005118 pantoate-binding site; other site 340177005119 HXXH motif; other site 340177005120 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 340177005121 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177005122 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 340177005123 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 340177005124 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 340177005125 dimer interface [polypeptide binding]; other site 340177005126 active site 340177005127 metal binding site [ion binding]; metal-binding site 340177005128 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 340177005129 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 340177005130 dimer interface [polypeptide binding]; other site 340177005131 motif 1; other site 340177005132 active site 340177005133 motif 2; other site 340177005134 motif 3; other site 340177005135 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 340177005136 23S rRNA binding site [nucleotide binding]; other site 340177005137 L21 binding site [polypeptide binding]; other site 340177005138 L13 binding site [polypeptide binding]; other site 340177005139 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 340177005140 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 340177005141 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 340177005142 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 340177005143 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 340177005144 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 340177005145 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 340177005146 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 340177005147 active site 340177005148 dimer interface [polypeptide binding]; other site 340177005149 motif 1; other site 340177005150 motif 2; other site 340177005151 motif 3; other site 340177005152 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 340177005153 anticodon binding site; other site 340177005154 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 340177005155 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 340177005156 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 340177005157 Protein of unknown function (DUF511); Region: DUF511; cl01114 340177005158 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 340177005159 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 340177005160 active site 340177005161 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 340177005162 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 340177005163 substrate binding site [chemical binding]; other site 340177005164 oxyanion hole (OAH) forming residues; other site 340177005165 trimer interface [polypeptide binding]; other site 340177005166 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 340177005167 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 340177005168 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 340177005169 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 340177005170 Bacterial Ig-like domain; Region: Big_5; cl01012 340177005171 potassium uptake protein; Region: kup; TIGR00794 340177005172 K+ potassium transporter; Region: K_trans; cl15781 340177005173 Integral membrane protein TerC family; Region: TerC; cl10468 340177005174 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 340177005175 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 340177005176 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 340177005177 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 340177005178 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 340177005179 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 340177005180 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 340177005181 NADH(P)-binding; Region: NAD_binding_10; pfam13460 340177005182 NAD(P) binding site [chemical binding]; other site 340177005183 putative active site [active] 340177005184 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 340177005185 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 340177005186 dimer interface [polypeptide binding]; other site 340177005187 PYR/PP interface [polypeptide binding]; other site 340177005188 TPP binding site [chemical binding]; other site 340177005189 substrate binding site [chemical binding]; other site 340177005190 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 340177005191 Domain of unknown function; Region: EKR; cl11037 340177005192 4Fe-4S binding domain; Region: Fer4; cl02805 340177005193 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 340177005194 TPP-binding site [chemical binding]; other site 340177005195 dimer interface [polypeptide binding]; other site 340177005196 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 340177005197 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 340177005198 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 340177005199 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 340177005200 lipoyl attachment site [posttranslational modification]; other site 340177005201 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 340177005202 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 340177005203 tetramer interface [polypeptide binding]; other site 340177005204 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177005205 catalytic residue [active] 340177005206 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 340177005207 dihydrodipicolinate synthase; Region: dapA; TIGR00674 340177005208 dimer interface [polypeptide binding]; other site 340177005209 active site 340177005210 catalytic residue [active] 340177005211 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 340177005212 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 340177005213 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 340177005214 dinuclear metal binding motif [ion binding]; other site 340177005215 Restriction endonuclease NotI; Region: NotI; pfam12183 340177005216 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 340177005217 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 340177005218 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 340177005219 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 340177005220 active site 340177005221 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 340177005222 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 340177005223 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 340177005224 UbiA prenyltransferase family; Region: UbiA; cl00337 340177005225 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 340177005226 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 340177005227 RNA/DNA hybrid binding site [nucleotide binding]; other site 340177005228 active site 340177005229 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 340177005230 Ligand Binding Site [chemical binding]; other site 340177005231 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 340177005232 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 340177005233 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 340177005234 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 340177005235 Walker A/P-loop; other site 340177005236 ATP binding site [chemical binding]; other site 340177005237 Q-loop/lid; other site 340177005238 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 340177005239 ABC transporter signature motif; other site 340177005240 Walker B; other site 340177005241 D-loop; other site 340177005242 H-loop/switch region; other site 340177005243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177005244 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 340177005245 Putative addiction module component; Region: Unstab_antitox; cl09921 340177005246 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 340177005247 Integral membrane protein TerC family; Region: TerC; cl10468 340177005248 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 340177005249 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 340177005250 NAD(P) binding site [chemical binding]; other site 340177005251 catalytic residues [active] 340177005252 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 340177005253 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 340177005254 putative deacylase active site [active] 340177005255 Mg chelatase-related protein; Region: TIGR00368 340177005256 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 340177005257 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 340177005258 Walker A motif; other site 340177005259 ATP binding site [chemical binding]; other site 340177005260 Walker B motif; other site 340177005261 arginine finger; other site 340177005262 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 340177005263 Photosystem P840 reaction-centre cytochrome c-551; Region: Cytochrome-c551; pfam10643 340177005264 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 340177005265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177005266 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 340177005267 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 340177005268 Int/Topo IB signature motif; other site 340177005269 active site 340177005270 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 340177005271 30S subunit binding site; other site 340177005272 HPr kinase/phosphorylase; Provisional; Region: PRK05428 340177005273 DRTGG domain; Region: DRTGG; cl12147 340177005274 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 340177005275 Hpr binding site; other site 340177005276 active site 340177005277 homohexamer subunit interaction site [polypeptide binding]; other site 340177005278 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 340177005279 peptide binding site [polypeptide binding]; other site 340177005280 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 340177005281 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 340177005282 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 340177005283 dimer interface [polypeptide binding]; other site 340177005284 conserved gate region; other site 340177005285 putative PBP binding loops; other site 340177005286 ABC-ATPase subunit interface; other site 340177005287 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 340177005288 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 340177005289 Walker A motif; other site 340177005290 ATP binding site [chemical binding]; other site 340177005291 Walker B motif; other site 340177005292 arginine finger; other site 340177005293 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 340177005294 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 340177005295 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 340177005296 binding surface 340177005297 TPR motif; other site 340177005298 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 340177005299 binding surface 340177005300 TPR motif; other site 340177005301 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 340177005302 binding surface 340177005303 TPR motif; other site 340177005304 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 340177005305 Repair protein; Region: Repair_PSII; cl01535 340177005306 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177005307 AAA domain; Region: AAA_21; pfam13304 340177005308 Walker A/P-loop; other site 340177005309 ATP binding site [chemical binding]; other site 340177005310 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 340177005311 ABC transporter signature motif; other site 340177005312 Walker B; other site 340177005313 D-loop; other site 340177005314 H-loop/switch region; other site 340177005315 Repair protein; Region: Repair_PSII; cl01535 340177005316 LemA family; Region: LemA; cl00742 340177005317 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 340177005318 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 340177005319 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 340177005320 synthetase active site [active] 340177005321 NTP binding site [chemical binding]; other site 340177005322 metal binding site [ion binding]; metal-binding site 340177005323 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 340177005324 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 340177005325 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 340177005326 oligomeric interface; other site 340177005327 putative active site [active] 340177005328 homodimer interface [polypeptide binding]; other site 340177005329 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 340177005330 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 340177005331 homodimer interface [polypeptide binding]; other site 340177005332 substrate-cofactor binding pocket; other site 340177005333 catalytic residue [active] 340177005334 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 340177005335 active site 340177005336 ADP/pyrophosphate binding site [chemical binding]; other site 340177005337 dimerization interface [polypeptide binding]; other site 340177005338 allosteric effector site; other site 340177005339 fructose-1,6-bisphosphate binding site; other site 340177005340 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 340177005341 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 340177005342 FtsX-like permease family; Region: FtsX; cl15850 340177005343 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 340177005344 homotrimer interaction site [polypeptide binding]; other site 340177005345 zinc binding site [ion binding]; other site 340177005346 CDP-binding sites; other site 340177005347 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 340177005348 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 340177005349 heterodimer interface [polypeptide binding]; other site 340177005350 active site 340177005351 FMN binding site [chemical binding]; other site 340177005352 homodimer interface [polypeptide binding]; other site 340177005353 substrate binding site [chemical binding]; other site 340177005354 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 340177005355 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 340177005356 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 340177005357 active site 340177005358 metal binding site [ion binding]; metal-binding site 340177005359 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 340177005360 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 340177005361 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 340177005362 ATP-grasp domain; Region: ATP-grasp_4; cl03087 340177005363 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 340177005364 IMP binding site; other site 340177005365 dimer interface [polypeptide binding]; other site 340177005366 interdomain contacts; other site 340177005367 partial ornithine binding site; other site 340177005368 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 340177005369 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 340177005370 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 340177005371 dimerization interface [polypeptide binding]; other site 340177005372 active site 340177005373 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 340177005374 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 340177005375 dimer interface [polypeptide binding]; other site 340177005376 glycine-pyridoxal phosphate binding site [chemical binding]; other site 340177005377 active site 340177005378 folate binding site [chemical binding]; other site 340177005379 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 340177005380 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 340177005381 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 340177005382 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 340177005383 Protein of unknown function (DUF541); Region: SIMPL; cl01077 340177005384 Uncharacterized protein family (UPF0259); Region: UPF0259; cl11642 340177005385 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 340177005386 putative active site [active] 340177005387 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 340177005388 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 340177005389 putative recombination protein RecB; Provisional; Region: PRK13909 340177005390 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 340177005391 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 340177005392 non-specific DNA binding site [nucleotide binding]; other site 340177005393 salt bridge; other site 340177005394 sequence-specific DNA binding site [nucleotide binding]; other site 340177005395 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 340177005396 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 340177005397 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 340177005398 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 340177005399 MgtE intracellular N domain; Region: MgtE_N; cl15244 340177005400 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 340177005401 Divalent cation transporter; Region: MgtE; cl00786 340177005402 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 340177005403 active site 340177005404 DNA binding site [nucleotide binding] 340177005405 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 340177005406 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 340177005407 P-loop; other site 340177005408 Magnesium ion binding site [ion binding]; other site 340177005409 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 340177005410 Magnesium ion binding site [ion binding]; other site 340177005411 ParB-like nuclease domain; Region: ParBc; cl02129 340177005412 ParB-like partition proteins; Region: parB_part; TIGR00180 340177005413 dihydrodipicolinate reductase; Provisional; Region: PRK00048 340177005414 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177005415 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 340177005416 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 340177005417 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 340177005418 FeS/SAM binding site; other site 340177005419 HemN C-terminal domain; Region: HemN_C; pfam06969 340177005420 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 340177005421 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 340177005422 active site 340177005423 motif I; other site 340177005424 motif II; other site 340177005425 glycogen synthase; Provisional; Region: PRK14098 340177005426 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 340177005427 ADP-binding pocket [chemical binding]; other site 340177005428 homodimer interface [polypeptide binding]; other site 340177005429 Bacterial Ig-like domain; Region: Big_5; cl01012 340177005430 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 340177005431 Heme NO binding; Region: HNOB; cl15268 340177005432 Predicted transcriptional regulator [Transcription]; Region: COG2944 340177005433 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 340177005434 non-specific DNA binding site [nucleotide binding]; other site 340177005435 salt bridge; other site 340177005436 sequence-specific DNA binding site [nucleotide binding]; other site 340177005437 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 340177005438 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 340177005439 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 340177005440 P-loop; other site 340177005441 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 340177005442 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 340177005443 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 340177005444 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 340177005445 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 340177005446 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 340177005447 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 340177005448 GDP-binding site [chemical binding]; other site 340177005449 ACT binding site; other site 340177005450 IMP binding site; other site 340177005451 Predicted GTPase [General function prediction only]; Region: COG0218 340177005452 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 340177005453 G1 box; other site 340177005454 GTP/Mg2+ binding site [chemical binding]; other site 340177005455 Switch I region; other site 340177005456 G2 box; other site 340177005457 G3 box; other site 340177005458 Switch II region; other site 340177005459 G4 box; other site 340177005460 G5 box; other site 340177005461 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 340177005462 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 340177005463 active site 340177005464 HIGH motif; other site 340177005465 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 340177005466 KMSKS motif; other site 340177005467 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 340177005468 tRNA binding surface [nucleotide binding]; other site 340177005469 anticodon binding site; other site 340177005470 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 340177005471 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 340177005472 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 340177005473 Substrate binding site; other site 340177005474 Cupin domain; Region: Cupin_2; cl09118 340177005475 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 340177005476 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 340177005477 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 340177005478 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 340177005479 alphaNTD homodimer interface [polypeptide binding]; other site 340177005480 alphaNTD - beta interaction site [polypeptide binding]; other site 340177005481 alphaNTD - beta' interaction site [polypeptide binding]; other site 340177005482 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 340177005483 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 340177005484 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 340177005485 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 340177005486 RNA binding surface [nucleotide binding]; other site 340177005487 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 340177005488 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 340177005489 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 340177005490 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 340177005491 rRNA binding site [nucleotide binding]; other site 340177005492 predicted 30S ribosome binding site; other site 340177005493 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 340177005494 active site 340177005495 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 340177005496 SecY translocase; Region: SecY; pfam00344 340177005497 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 340177005498 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 340177005499 23S rRNA binding site [nucleotide binding]; other site 340177005500 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 340177005501 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 340177005502 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 340177005503 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 340177005504 5S rRNA interface [nucleotide binding]; other site 340177005505 23S rRNA interface [nucleotide binding]; other site 340177005506 L5 interface [polypeptide binding]; other site 340177005507 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 340177005508 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 340177005509 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 340177005510 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 340177005511 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 340177005512 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 340177005513 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 340177005514 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 340177005515 KOW motif; Region: KOW; cl00354 340177005516 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 340177005517 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 340177005518 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 340177005519 putative translocon interaction site; other site 340177005520 23S rRNA interface [nucleotide binding]; other site 340177005521 signal recognition particle (SRP54) interaction site; other site 340177005522 L23 interface [polypeptide binding]; other site 340177005523 trigger factor interaction site; other site 340177005524 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 340177005525 23S rRNA interface [nucleotide binding]; other site 340177005526 5S rRNA interface [nucleotide binding]; other site 340177005527 putative antibiotic binding site [chemical binding]; other site 340177005528 L25 interface [polypeptide binding]; other site 340177005529 L27 interface [polypeptide binding]; other site 340177005530 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 340177005531 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 340177005532 G-X-X-G motif; other site 340177005533 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 340177005534 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 340177005535 putative translocon binding site; other site 340177005536 protein-rRNA interface [nucleotide binding]; other site 340177005537 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 340177005538 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 340177005539 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 340177005540 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 340177005541 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 340177005542 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 340177005543 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 340177005544 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 340177005545 elongation factor Tu; Reviewed; Region: PRK00049 340177005546 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 340177005547 G1 box; other site 340177005548 GEF interaction site [polypeptide binding]; other site 340177005549 GTP/Mg2+ binding site [chemical binding]; other site 340177005550 Switch I region; other site 340177005551 G2 box; other site 340177005552 G3 box; other site 340177005553 Switch II region; other site 340177005554 G4 box; other site 340177005555 G5 box; other site 340177005556 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 340177005557 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 340177005558 Antibiotic Binding Site [chemical binding]; other site 340177005559 elongation factor G; Reviewed; Region: PRK00007 340177005560 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 340177005561 G1 box; other site 340177005562 putative GEF interaction site [polypeptide binding]; other site 340177005563 GTP/Mg2+ binding site [chemical binding]; other site 340177005564 Switch I region; other site 340177005565 G2 box; other site 340177005566 G3 box; other site 340177005567 Switch II region; other site 340177005568 G4 box; other site 340177005569 G5 box; other site 340177005570 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 340177005571 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 340177005572 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 340177005573 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 340177005574 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 340177005575 S17 interaction site [polypeptide binding]; other site 340177005576 S8 interaction site; other site 340177005577 16S rRNA interaction site [nucleotide binding]; other site 340177005578 streptomycin interaction site [chemical binding]; other site 340177005579 23S rRNA interaction site [nucleotide binding]; other site 340177005580 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 340177005581 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 340177005582 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 340177005583 non-specific DNA binding site [nucleotide binding]; other site 340177005584 salt bridge; other site 340177005585 sequence-specific DNA binding site [nucleotide binding]; other site 340177005586 MatE; Region: MatE; cl10513 340177005587 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 340177005588 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 340177005589 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 340177005590 putative homodimer interface [polypeptide binding]; other site 340177005591 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 340177005592 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 340177005593 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177005594 Virulence protein [General function prediction only]; Region: COG3943 340177005595 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 340177005596 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 340177005597 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 340177005598 Probable Catalytic site; other site 340177005599 metal-binding site 340177005600 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 340177005601 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 340177005602 dimerization domain swap beta strand [polypeptide binding]; other site 340177005603 regulatory protein interface [polypeptide binding]; other site 340177005604 active site 340177005605 regulatory phosphorylation site [posttranslational modification]; other site 340177005606 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 340177005607 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 340177005608 Coenzyme A binding pocket [chemical binding]; other site 340177005609 GTPase CgtA; Reviewed; Region: obgE; PRK12299 340177005610 GTP1/OBG; Region: GTP1_OBG; pfam01018 340177005611 Obg GTPase; Region: Obg; cd01898 340177005612 G1 box; other site 340177005613 GTP/Mg2+ binding site [chemical binding]; other site 340177005614 Switch I region; other site 340177005615 G2 box; other site 340177005616 G3 box; other site 340177005617 Switch II region; other site 340177005618 G4 box; other site 340177005619 G5 box; other site 340177005620 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 340177005621 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 340177005622 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 340177005623 GatB domain; Region: GatB_Yqey; cl11497 340177005624 Family of unknown function (DUF500); Region: DUF500; cl01109 340177005625 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]; Region: CDC6; COG1474 340177005626 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177005627 Tetratricopeptide repeat; Region: TPR_12; pfam13424 340177005628 Clp amino terminal domain; Region: Clp_N; pfam02861 340177005629 Clp amino terminal domain; Region: Clp_N; pfam02861 340177005630 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 340177005631 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 340177005632 Walker A motif; other site 340177005633 ATP binding site [chemical binding]; other site 340177005634 Walker B motif; other site 340177005635 arginine finger; other site 340177005636 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 340177005637 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 340177005638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177005639 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 340177005640 catalytic loop [active] 340177005641 iron binding site [ion binding]; other site 340177005642 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 340177005643 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 340177005644 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 340177005645 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 340177005646 ATP binding site [chemical binding]; other site 340177005647 putative Mg++ binding site [ion binding]; other site 340177005648 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 340177005649 nucleotide binding region [chemical binding]; other site 340177005650 ATP-binding site [chemical binding]; other site 340177005651 TRCF domain; Region: TRCF; cl04088 340177005652 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 340177005653 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 340177005654 Walker A/P-loop; other site 340177005655 ATP binding site [chemical binding]; other site 340177005656 Q-loop/lid; other site 340177005657 ABC transporter signature motif; other site 340177005658 Walker B; other site 340177005659 D-loop; other site 340177005660 H-loop/switch region; other site 340177005661 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340177005662 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 340177005663 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 340177005664 Divergent AAA domain; Region: AAA_4; pfam04326 340177005665 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 340177005666 Aerotolerance regulator N-terminal; Region: BatA; cl06567 340177005667 VWA BatA type: 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...; Region: vWA_BatA_type; cd01467 340177005668 metal ion-dependent adhesion site (MIDAS); other site 340177005669 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 340177005670 metal ion-dependent adhesion site (MIDAS); other site 340177005671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177005672 carotene isomerase; Region: carot_isom; TIGR02730 340177005673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177005674 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 340177005675 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340177005676 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 340177005677 DNA binding residues [nucleotide binding] 340177005678 Putative zinc-finger; Region: zf-HC2; cl15806 340177005679 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 340177005680 dimerization interface [polypeptide binding]; other site 340177005681 putative DNA binding site [nucleotide binding]; other site 340177005682 putative Zn2+ binding site [ion binding]; other site 340177005683 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 340177005684 putative dimer interface [polypeptide binding]; other site 340177005685 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 340177005686 Photosystem P840 reaction centre protein PscD; Region: RC-P840_PscD; pfam10657 340177005687 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 340177005688 Nidogen-like; Region: NIDO; cl02648 340177005689 Family description; Region: VCBS; pfam13517 340177005690 Family description; Region: VCBS; pfam13517 340177005691 Family description; Region: VCBS; pfam13517 340177005692 Family description; Region: VCBS; pfam13517 340177005693 Family description; Region: VCBS; pfam13517 340177005694 Bacterial Ig-like domain; Region: Big_5; cl01012 340177005695 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 340177005696 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 340177005697 active site 340177005698 catalytic residues [active] 340177005699 metal binding site [ion binding]; metal-binding site 340177005700 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 340177005701 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 340177005702 substrate binding site [chemical binding]; other site 340177005703 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 340177005704 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 340177005705 substrate binding site [chemical binding]; other site 340177005706 ligand binding site [chemical binding]; other site 340177005707 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 340177005708 tartrate dehydrogenase; Provisional; Region: PRK08194 340177005709 ketol-acid reductoisomerase; Provisional; Region: PRK05479 340177005710 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177005711 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 340177005712 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 340177005713 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 340177005714 putative valine binding site [chemical binding]; other site 340177005715 dimer interface [polypeptide binding]; other site 340177005716 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 340177005717 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 340177005718 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 340177005719 PYR/PP interface [polypeptide binding]; other site 340177005720 dimer interface [polypeptide binding]; other site 340177005721 TPP binding site [chemical binding]; other site 340177005722 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 340177005723 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 340177005724 TPP-binding site [chemical binding]; other site 340177005725 dimer interface [polypeptide binding]; other site 340177005726 Dehydratase family; Region: ILVD_EDD; cl00340 340177005727 6-phosphogluconate dehydratase; Region: edd; TIGR01196 340177005728 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 340177005729 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 340177005730 Gram-negative bacterial tonB protein; Region: TonB; cl10048 340177005731 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 340177005732 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 340177005733 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 340177005734 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 340177005735 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 340177005736 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 340177005737 ligand binding site [chemical binding]; other site 340177005738 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 340177005739 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 340177005740 binding surface 340177005741 TPR motif; other site 340177005742 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177005743 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177005744 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 340177005745 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 340177005746 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 340177005747 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 340177005748 Cytochrome c; Region: Cytochrom_C; cl11414 340177005749 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 340177005750 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 340177005751 Cytochrome c [Energy production and conversion]; Region: COG3258 340177005752 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 340177005753 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 340177005754 active site 340177005755 metal binding site [ion binding]; metal-binding site 340177005756 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 340177005757 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 340177005758 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 340177005759 catalytic residues [active] 340177005760 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 340177005761 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 340177005762 G1 box; other site 340177005763 GTP/Mg2+ binding site [chemical binding]; other site 340177005764 Switch I region; other site 340177005765 G2 box; other site 340177005766 G3 box; other site 340177005767 Switch II region; other site 340177005768 G4 box; other site 340177005769 G5 box; other site 340177005770 Nucleoside recognition; Region: Gate; cl00486 340177005771 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 340177005772 Nucleoside recognition; Region: Gate; cl00486 340177005773 FeoA domain; Region: FeoA; cl00838 340177005774 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 340177005775 nucleotide binding site/active site [active] 340177005776 HIT family signature motif; other site 340177005777 catalytic residue [active] 340177005778 Domain of unknown function DUF21; Region: DUF21; pfam01595 340177005779 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 340177005780 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 340177005781 Transporter associated domain; Region: CorC_HlyC; cl08393 340177005782 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 340177005783 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 340177005784 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 340177005785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177005786 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 340177005787 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 340177005788 proximal heme binding site [chemical binding]; other site 340177005789 putative dimer interface [polypeptide binding]; other site 340177005790 putative Iron-sulfur protein interface [polypeptide binding]; other site 340177005791 distal heme binding site [chemical binding]; other site 340177005792 Putative cyclase; Region: Cyclase; cl00814 340177005793 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 340177005794 Sel1 repeat; Region: Sel1; cl02723 340177005795 Sel1 repeat; Region: Sel1; cl02723 340177005796 Sel1 repeat; Region: Sel1; cl02723 340177005797 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 340177005798 Sel1 repeat; Region: Sel1; cl02723 340177005799 Sel1 repeat; Region: Sel1; cl02723 340177005800 Sel1 repeat; Region: Sel1; cl02723 340177005801 Sel1 repeat; Region: Sel1; cl02723 340177005802 Sel1 repeat; Region: Sel1; cl02723 340177005803 Sel1 repeat; Region: Sel1; cl02723 340177005804 Sel1 repeat; Region: Sel1; cl02723 340177005805 Esterase/lipase [General function prediction only]; Region: COG1647 340177005806 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 340177005807 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 340177005808 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 340177005809 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 340177005810 FeS/SAM binding site; other site 340177005811 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 340177005812 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 340177005813 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 340177005814 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177005815 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 340177005816 4Fe-4S binding domain; Region: Fer4; cl02805 340177005817 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 340177005818 Cysteine-rich domain; Region: CCG; pfam02754 340177005819 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 340177005820 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 340177005821 DsrE/DsrF-like family; Region: DrsE; cl00672 340177005822 DsrE/DsrF-like family; Region: DrsE; cl00672 340177005823 DsrE/DsrF-like family; Region: DrsE; cl00672 340177005824 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 340177005825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177005826 4Fe-4S binding domain; Region: Fer4; cl02805 340177005827 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 340177005828 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 340177005829 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 340177005830 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 340177005831 DsrC like protein; Region: DsrC; cl01101 340177005832 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 340177005833 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177005834 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 340177005835 catalytic triad [active] 340177005836 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 340177005837 CPxP motif; other site 340177005838 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 340177005839 active site residue [active] 340177005840 DsrE/DsrF-like family; Region: DrsE; cl00672 340177005841 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 340177005842 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 340177005843 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 340177005844 molybdopterin cofactor binding site; other site 340177005845 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 340177005846 putative molybdopterin cofactor binding site; other site 340177005847 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 340177005848 4Fe-4S binding domain; Region: Fer4; cl02805 340177005849 Polysulphide reductase, NrfD; Region: NrfD; cl01295 340177005850 Transposase IS200 like; Region: Y1_Tnp; cl00848 340177005851 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177005852 AAA domain; Region: AAA_13; pfam13166 340177005853 Walker A/P-loop; other site 340177005854 ATP binding site [chemical binding]; other site 340177005855 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340177005856 ABC transporter signature motif; other site 340177005857 Walker B; other site 340177005858 D-loop; other site 340177005859 H-loop/switch region; other site 340177005860 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 340177005861 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 340177005862 inhibitor-cofactor binding pocket; inhibition site 340177005863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340177005864 catalytic residue [active] 340177005865 Recombination protein O N terminal; Region: RecO_N; cl15812 340177005866 Recombination protein O C terminal; Region: RecO_C; pfam02565 340177005867 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 340177005868 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 340177005869 OstA-like protein; Region: OstA_2; pfam13100 340177005870 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 340177005871 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 340177005872 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 340177005873 Walker A motif; other site 340177005874 ATP binding site [chemical binding]; other site 340177005875 Walker B motif; other site 340177005876 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 340177005877 NeuB family; Region: NeuB; cl00496 340177005878 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 340177005879 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340177005880 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 340177005881 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 340177005882 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 340177005883 Rubrerythrin [Energy production and conversion]; Region: COG1592 340177005884 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 340177005885 binuclear metal center [ion binding]; other site 340177005886 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 340177005887 iron binding site [ion binding]; other site 340177005888 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 340177005889 Ferritin-like domain; Region: Ferritin; pfam00210 340177005890 diiron binding motif [ion binding]; other site 340177005891 peroxiredoxin; Provisional; Region: PRK13189 340177005892 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 340177005893 dimer interface [polypeptide binding]; other site 340177005894 decamer (pentamer of dimers) interface [polypeptide binding]; other site 340177005895 catalytic triad [active] 340177005896 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 340177005897 Transposase; Region: DDE_Tnp_ISL3; pfam01610 340177005898 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 340177005899 metal binding site 2 [ion binding]; metal-binding site 340177005900 putative DNA binding helix; other site 340177005901 metal binding site 1 [ion binding]; metal-binding site 340177005902 dimer interface [polypeptide binding]; other site 340177005903 structural Zn2+ binding site [ion binding]; other site 340177005904 trehalose synthase; Region: treS_nterm; TIGR02456 340177005905 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 340177005906 active site 340177005907 catalytic site [active] 340177005908 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 340177005909 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 340177005910 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 340177005911 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 340177005912 active site 340177005913 homodimer interface [polypeptide binding]; other site 340177005914 catalytic site [active] 340177005915 acceptor binding site [chemical binding]; other site 340177005916 LabA_like proteins; Region: LabA_like; cd06167 340177005917 putative metal binding site [ion binding]; other site 340177005918 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 340177005919 DNA-binding site [nucleotide binding]; DNA binding site 340177005920 RNA-binding motif; other site 340177005921 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 340177005922 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 340177005923 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 340177005924 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 340177005925 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 340177005926 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 340177005927 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 340177005928 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 340177005929 trimer interface [polypeptide binding]; other site 340177005930 active site 340177005931 substrate binding site [chemical binding]; other site 340177005932 CoA binding site [chemical binding]; other site 340177005933 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 340177005934 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 340177005935 protein binding site [polypeptide binding]; other site 340177005936 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 340177005937 Catalytic dyad [active] 340177005938 Restriction endonuclease; Region: Mrr_cat; cl00516 340177005939 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 340177005940 RNA/DNA hybrid binding site [nucleotide binding]; other site 340177005941 active site 340177005942 Putative addiction module component; Region: Unstab_antitox; cl09921 340177005943 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 340177005944 ScpA/B protein; Region: ScpA_ScpB; cl00598 340177005945 TPR repeat; Region: TPR_11; pfam13414 340177005946 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 340177005947 binding surface 340177005948 TPR motif; other site 340177005949 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 340177005950 binding surface 340177005951 TPR motif; other site 340177005952 Nitrogen regulatory protein P-II; Region: P-II; smart00938 340177005953 Nitrogen regulatory protein P-II; Region: P-II; cl00412 340177005954 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 340177005955 GAF domain; Region: GAF; cl15785 340177005956 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 340177005957 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 340177005958 Walker A motif; other site 340177005959 ATP binding site [chemical binding]; other site 340177005960 Walker B motif; other site 340177005961 arginine finger; other site 340177005962 Helix-turn-helix domains; Region: HTH; cl00088 340177005963 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 340177005964 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 340177005965 metal binding site 2 [ion binding]; metal-binding site 340177005966 putative DNA binding helix; other site 340177005967 metal binding site 1 [ion binding]; metal-binding site 340177005968 dimer interface [polypeptide binding]; other site 340177005969 structural Zn2+ binding site [ion binding]; other site 340177005970 Fic family protein [Function unknown]; Region: COG3177 340177005971 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 340177005972 Fic/DOC family; Region: Fic; cl00960 340177005973 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340177005974 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 340177005975 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 340177005976 Cytochrome c; Region: Cytochrom_C; cl11414 340177005977 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 340177005978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177005979 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 340177005980 DNA polymerase elongation subunit (family B) [DNA replication, recombination, and repair]; Region: PolB; COG0417 340177005981 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like2_exo; cd05785 340177005982 active site 340177005983 catalytic site [active] 340177005984 substrate binding site [chemical binding]; other site 340177005985 DNA polymerase type-II B subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II_B; cd05538 340177005986 active site 340177005987 metal-binding site 340177005988 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 340177005989 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340177005990 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 340177005991 Protein of unknown function (DUF721); Region: DUF721; cl02324 340177005992 H+ Antiporter protein; Region: 2A0121; TIGR00900 340177005993 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 340177005994 putative substrate translocation pore; other site 340177005995 Dodecin; Region: Dodecin; cl01328 340177005996 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 340177005997 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 340177005998 active site 340177005999 substrate-binding site [chemical binding]; other site 340177006000 metal-binding site [ion binding] 340177006001 GTP binding site [chemical binding]; other site 340177006002 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 340177006003 catalytic residues [active] 340177006004 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 340177006005 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 340177006006 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 340177006007 alpha subunit interaction interface [polypeptide binding]; other site 340177006008 Walker A motif; other site 340177006009 ATP binding site [chemical binding]; other site 340177006010 Walker B motif; other site 340177006011 inhibitor binding site; inhibition site 340177006012 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 340177006013 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 340177006014 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 340177006015 dimer interface [polypeptide binding]; other site 340177006016 catalytic triad [active] 340177006017 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 340177006018 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 340177006019 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 340177006020 NAD(P) binding site [chemical binding]; other site 340177006021 putative active site [active] 340177006022 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 340177006023 LabA_like proteins; Region: LabA_like; cd06167 340177006024 putative metal binding site [ion binding]; other site 340177006025 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 340177006026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177006027 NlpC/P60 family; Region: NLPC_P60; cl11438 340177006028 aspartate kinase III; Validated; Region: PRK09084 340177006029 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 340177006030 nucleotide binding site [chemical binding]; other site 340177006031 substrate binding site [chemical binding]; other site 340177006032 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 340177006033 dimer interface [polypeptide binding]; other site 340177006034 allosteric regulatory binding pocket; other site 340177006035 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 340177006036 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 340177006037 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 340177006038 dimerization interface [polypeptide binding]; other site 340177006039 putative ATP binding site [chemical binding]; other site 340177006040 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 340177006041 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 340177006042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340177006043 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 340177006044 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 340177006045 catalytic core [active] 340177006046 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 340177006047 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 340177006048 S-adenosylmethionine binding site [chemical binding]; other site 340177006049 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 340177006050 active site 340177006051 membrane protein insertase; Provisional; Region: PRK01318 340177006052 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 340177006053 Haemolytic domain; Region: Haemolytic; cl00506 340177006054 Ribonuclease P; Region: Ribonuclease_P; cl00457 340177006055 Ribosomal protein L34; Region: Ribosomal_L34; cl00370