-- dump date 20111121_013608 -- class Genbank::misc_feature -- table misc_feature_note -- id note 472759000001 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 472759000002 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 472759000003 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 472759000004 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 472759000005 ATP binding site [chemical binding]; other site 472759000006 putative Mg++ binding site [ion binding]; other site 472759000007 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 472759000008 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 472759000009 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 472759000010 HsdM N-terminal domain; Region: HsdM_N; pfam12161 472759000011 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; cl12011 472759000012 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 472759000013 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 472759000014 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 472759000015 non-specific DNA binding site [nucleotide binding]; other site 472759000016 salt bridge; other site 472759000017 sequence-specific DNA binding site [nucleotide binding]; other site 472759000018 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 472759000019 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 472759000020 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 472759000021 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 472759000022 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 472759000023 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 472759000024 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 472759000025 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...; Region: rubredoxin_like; cl00202 472759000026 iron binding site [ion binding]; other site 472759000027 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 472759000028 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 472759000029 Domain of unknown function (DUF932); Region: DUF932; cl12129 472759000030 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 472759000031 HicB family; Region: HicB; pfam05534 472759000032 Type II transport protein GspH; Region: GspH; pfam12019 472759000033 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 472759000034 catalytic motif [active] 472759000035 Catalytic residue [active] 472759000036 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 472759000037 putative active site [active] 472759000038 putative catalytic site [active] 472759000039 putative Mg binding site IVb [ion binding]; other site 472759000040 putative phosphate binding site [ion binding]; other site 472759000041 putative DNA binding site [nucleotide binding]; other site 472759000042 putative Mg binding site IVa [ion binding]; other site 472759000043 Restriction endonuclease; Region: Mrr_cat; cl00747 472759000044 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 472759000045 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 472759000046 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...; Region: ParA; cd02042 472759000047 Magnesium ion binding site [ion binding]; other site 472759000048 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 472759000049 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...; Region: ParA; cd02042 472759000050 P-loop; other site 472759000051 Magnesium ion binding site [ion binding]; other site 472759000052 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...; Region: ParA; cd02042 472759000053 Magnesium ion binding site [ion binding]; other site 472759000054 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 472759000055 ParB-like nuclease domain; Region: ParBc; cl02129 472759000056 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 472759000057 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 472759000058 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 472759000059 DNA binding site [nucleotide binding] 472759000060 Int/Topo IB signature motif; other site 472759000061 active site 472759000062 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 472759000063 DNA binding site [nucleotide binding] 472759000064 dimer interface [polypeptide binding]; other site 472759000065 Int/Topo IB signature motif; other site 472759000066 active site 472759000067 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 472759000068 Restriction endonuclease; Region: Mrr_cat; cl00747 472759000069 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl01740 472759000070 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...; Region: HNHc; cd00085 472759000071 active site 472759000072 M28 Zn-Peptidases; Region: M28_like_1; cd05640 472759000073 metal binding site [ion binding]; metal-binding site 472759000074 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 472759000075 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 472759000076 ATP binding site [chemical binding]; other site 472759000077 putative Mg++ binding site [ion binding]; other site 472759000078 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 472759000079 nucleotide binding region [chemical binding]; other site 472759000080 ATP-binding site [chemical binding]; other site 472759000081 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 472759000082 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 472759000083 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 472759000084 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...; Region: AAA; cd00009 472759000085 Walker A motif; other site 472759000086 ATP binding site [chemical binding]; other site 472759000087 Walker B motif; other site 472759000088 arginine finger; other site 472759000089 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 472759000090 DnaA box-binding interface [nucleotide binding]; other site 472759000091 DNA polymerase III subunit beta; Validated; Region: PRK05643 472759000092 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...; Region: beta_clamp; cd00140 472759000093 putative DNA binding surface [nucleotide binding]; other site 472759000094 dimer interface [polypeptide binding]; other site 472759000095 beta-clamp/clamp loader binding surface; other site 472759000096 beta-clamp/translesion DNA polymerase binding surface; other site 472759000097 recombination protein F; Reviewed; Region: recF; PRK00064 472759000098 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759000099 Walker A/P-loop; other site 472759000100 ATP binding site [chemical binding]; other site 472759000101 Q-loop/lid; other site 472759000102 ABC transporter signature motif; other site 472759000103 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759000104 ABC transporter signature motif; other site 472759000105 Walker B; other site 472759000106 D-loop; other site 472759000107 H-loop/switch region; other site 472759000108 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 472759000109 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 472759000110 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 472759000111 anchoring element; other site 472759000112 dimer interface [polypeptide binding]; other site 472759000113 ATP binding site [chemical binding]; other site 472759000114 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 472759000115 active site 472759000116 putative metal-binding site [ion binding]; other site 472759000117 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 472759000118 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 472759000119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759000120 dihydropteroate synthase-related protein; Region: TIGR00284 472759000121 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 472759000122 substrate binding pocket [chemical binding]; other site 472759000123 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 472759000124 dimer interface [polypeptide binding]; other site 472759000125 inhibitor binding site; inhibition site 472759000126 Protein of unknown function (DUF447); Region: DUF447; cl01035 472759000127 Protein of unknown function (DUF556); Region: DUF556; cl00822 472759000128 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 472759000129 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759000130 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759000131 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-1,7-...; Region: FBPase; cd00354 472759000132 AMP binding site [chemical binding]; other site 472759000133 metal binding site [ion binding]; metal-binding site 472759000134 active site 472759000135 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 472759000136 domain_subunit interface; other site 472759000137 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 472759000138 lobe; Region: FTR; pfam01913 472759000139 FTR, proximal lobe; Region: FTR_C; pfam02741 472759000140 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 472759000141 Formylmethanofuran dehydrogenase (FMDH) subunit A; Methanogenic bacteria and archea derive the energy for autotrophic growth from methanogenesis, the reduction of CO2 with molecular hydrogen as the electron donor. FMDH catalyzes the first step in...; Region: FMDH_A; cd01304 472759000142 active site 472759000143 formylmethanofuran dehydrogenase subunit B; Region: one_C_dehyd_B; TIGR03129 472759000144 The MopB_FmdB-FwdB CD contains the molybdenum/tungsten formylmethanofuran dehydrogenases, subunit B (FmdB/FwdB), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea...; Region: MopB_FmdB-FwdB; cd02761 472759000145 putative [4Fe-4S] binding site [ion binding]; other site 472759000146 putative molybdopterin cofactor binding site [chemical binding]; other site 472759000147 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 472759000148 aromatic arch; other site 472759000149 DCoH dimer interaction site [polypeptide binding]; other site 472759000150 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 472759000151 DCoH tetramer interaction site [polypeptide binding]; other site 472759000152 substrate binding site [chemical binding]; other site 472759000153 Sporulation related domain; Region: SPOR; cl10051 472759000154 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 472759000155 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 472759000156 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 472759000157 active site 472759000158 HIGH motif; other site 472759000159 nucleotide binding site [chemical binding]; other site 472759000160 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 472759000161 KMSK motif region; other site 472759000162 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 472759000163 tRNA binding surface [nucleotide binding]; other site 472759000164 anticodon binding site; other site 472759000165 primosome assembly protein PriA; Validated; Region: PRK05580 472759000166 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 472759000167 ATP binding site [chemical binding]; other site 472759000168 putative Mg++ binding site [ion binding]; other site 472759000169 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759000170 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 472759000171 conserved cys residue [active] 472759000172 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 472759000173 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 472759000174 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 472759000175 protein binding site [polypeptide binding]; other site 472759000176 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 472759000177 Catalytic dyad [active] 472759000178 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 472759000179 Sulfatase; Region: Sulfatase; cl10460 472759000180 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 472759000181 active site residue [active] 472759000182 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 472759000183 GSH binding site [chemical binding]; other site 472759000184 catalytic residues [active] 472759000185 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 472759000186 SecA binding site; other site 472759000187 Preprotein binding site; other site 472759000188 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 472759000189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759000190 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 472759000191 Uncharacterized conserved protein [Function unknown]; Region: COG1565 472759000192 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 472759000193 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 472759000194 catalytic center binding site [active] 472759000195 ATP binding site [chemical binding]; other site 472759000196 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines...; Region: DHNA_DHNTPE; cd00534 472759000197 homooctamer interface [polypeptide binding]; other site 472759000198 active site 472759000199 Domain of unknown function (DUF205); Region: DUF205; cl00410 472759000200 UGMP family protein; Validated; Region: PRK09604 472759000201 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 472759000202 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 472759000203 GatB domain; Region: GatB_Yqey; cl11497 472759000204 DNA primase, catalytic core; Region: dnaG; TIGR01391 472759000205 CHC2 zinc finger; Region: zf-CHC2; cl02597 472759000206 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 472759000207 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 472759000208 active site 472759000209 metal binding site [ion binding]; metal-binding site 472759000210 interdomain interaction site; other site 472759000211 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 472759000212 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 472759000213 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 472759000214 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 472759000215 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 472759000216 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 472759000217 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 472759000218 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 472759000219 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...; Region: Sigma70_r4; cd06171 472759000220 DNA binding residues [nucleotide binding] 472759000221 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 472759000222 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759000223 putative cation:proton antiport protein; Provisional; Region: PRK10669 472759000224 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 472759000225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759000226 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 472759000227 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 472759000228 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 472759000229 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 472759000230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759000231 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 472759000232 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 472759000233 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 472759000234 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 472759000235 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 472759000236 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 472759000237 nucleotide binding site/active site [active] 472759000238 HIT family signature motif; other site 472759000239 catalytic residue [active] 472759000240 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 472759000241 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 472759000242 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 472759000243 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)-formimino-5-; Region: HisF; cd04731 472759000244 substrate binding site [chemical binding]; other site 472759000245 glutamase interaction surface [polypeptide binding]; other site 472759000246 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 472759000247 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 472759000248 catalytic residues [active] 472759000249 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 472759000250 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 472759000251 putative active site [active] 472759000252 oxyanion strand; other site 472759000253 catalytic triad [active] 472759000254 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 472759000255 putative active site pocket [active] 472759000256 4-fold oligomerization interface [polypeptide binding]; other site 472759000257 metal binding residues [ion binding]; metal-binding site 472759000258 3-fold/trimer interface [polypeptide binding]; other site 472759000259 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 472759000260 Cytochrome c; Region: Cytochrom_C; cl11414 472759000261 Cytochrome c; Region: Cytochrom_C; cl11414 472759000262 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 472759000263 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 472759000264 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 472759000265 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759000266 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 472759000267 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 472759000268 Subunit I/III interface [polypeptide binding]; other site 472759000269 D-pathway; other site 472759000270 Subunit I/VIIc interface [polypeptide binding]; other site 472759000271 Subunit I/IV interface [polypeptide binding]; other site 472759000272 Subunit I/II interface [polypeptide binding]; other site 472759000273 Low-spin heme (heme a) binding site [chemical binding]; other site 472759000274 Subunit I/VIIa interface [polypeptide binding]; other site 472759000275 Subunit I/VIa interface [polypeptide binding]; other site 472759000276 Dimer interface; other site 472759000277 Putative water exit pathway; other site 472759000278 Binuclear center (heme a3/CuB) [ion binding]; other site 472759000279 K-pathway; other site 472759000280 Subunit I/Vb interface [polypeptide binding]; other site 472759000281 Putative proton exit pathway; other site 472759000282 Subunit I/VIb interface; other site 472759000283 Subunit I/VIc interface [polypeptide binding]; other site 472759000284 Electron transfer pathway; other site 472759000285 Subunit I/VIIIb interface [polypeptide binding]; other site 472759000286 Subunit I/VIIb interface [polypeptide binding]; other site 472759000287 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 472759000288 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 472759000289 Subunit III/VIIa interface [polypeptide binding]; other site 472759000290 Phospholipid binding site [chemical binding]; other site 472759000291 Subunit I/III interface [polypeptide binding]; other site 472759000292 Subunit III/VIb interface [polypeptide binding]; other site 472759000293 Subunit III/VIa interface; other site 472759000294 Subunit III/Vb interface [polypeptide binding]; other site 472759000295 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 472759000296 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 472759000297 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 472759000298 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 472759000299 UbiA prenyltransferase family; Region: UbiA; cl00337 472759000300 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 472759000301 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 472759000302 gamma-glutamyl kinase; Provisional; Region: PRK05429 472759000303 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 472759000304 nucleotide binding site [chemical binding]; other site 472759000305 homotetrameric interface [polypeptide binding]; other site 472759000306 putative phosphate binding site [ion binding]; other site 472759000307 putative allosteric binding site; other site 472759000308 PUA domain; Region: PUA; cl00607 472759000309 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 472759000310 GTP1/OBG; Region: GTP1_OBG; pfam01018 472759000311 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 472759000312 G1 box; other site 472759000313 GTP/Mg2+ binding site [chemical binding]; other site 472759000314 Switch I region; other site 472759000315 G2 box; other site 472759000316 G3 box; other site 472759000317 Switch II region; other site 472759000318 G4 box; other site 472759000319 G5 box; other site 472759000320 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 472759000321 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 472759000322 octaprenyl diphosphate synthase; Provisional; Region: PRK10888 472759000323 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 472759000324 substrate binding pocket [chemical binding]; other site 472759000325 chain length determination region; other site 472759000326 substrate-Mg2+ binding site; other site 472759000327 catalytic residues [active] 472759000328 aspartate-rich region 1; other site 472759000329 active site lid residues [active] 472759000330 aspartate-rich region 2; other site 472759000331 EVE domain; Region: EVE; cl00728 472759000332 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 472759000333 non-specific DNA binding site [nucleotide binding]; other site 472759000334 salt bridge; other site 472759000335 sequence-specific DNA binding site [nucleotide binding]; other site 472759000336 DEAD-like helicases superfamily; Region: DEXDc; smart00487 472759000337 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 472759000338 ATP binding site [chemical binding]; other site 472759000339 putative Mg++ binding site [ion binding]; other site 472759000340 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 472759000341 nucleotide binding region [chemical binding]; other site 472759000342 ATP-binding site [chemical binding]; other site 472759000343 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 472759000344 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 472759000345 putative homodimer interface [polypeptide binding]; other site 472759000346 putative active site [active] 472759000347 catalytic site [active] 472759000348 Protein of unknown function DUF262; Region: DUF262; cl14890 472759000349 Protein of unknown function DUF262; Region: DUF262; cl14890 472759000350 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 472759000351 Active Sites [active] 472759000352 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; cl15259 472759000353 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 472759000354 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 472759000355 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 472759000356 catalytic residue [active] 472759000357 DNA phosphorothioation-associated putative methyltransferase; Region: dnd_rel_methyl; TIGR04096 472759000358 DNA phosphorothioation-associated putative methyltransferase; Region: dnd_rel_methyl; TIGR04096 472759000359 Peptidase M15; Region: Peptidase_M15_3; cl01194 472759000360 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 472759000361 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 472759000362 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 472759000363 multidrug efflux protein; Reviewed; Region: PRK09579 472759000364 Protein export membrane protein; Region: SecD_SecF; cl14618 472759000365 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 472759000366 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 472759000367 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...; Region: GltS_FMN; cd02808 472759000368 active site 472759000369 FMN binding site [chemical binding]; other site 472759000370 substrate binding site [chemical binding]; other site 472759000371 3Fe-4S cluster binding site [ion binding]; other site 472759000372 glycogen synthase; Provisional; Region: glgA; PRK00654 472759000373 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 472759000374 ADP-binding pocket [chemical binding]; other site 472759000375 homodimer interface [polypeptide binding]; other site 472759000376 Uncharacterized conserved protein [Function unknown]; Region: COG1543 472759000377 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 472759000378 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 472759000379 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 472759000380 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 472759000381 TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 472759000382 TPP-binding site [chemical binding]; other site 472759000383 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 472759000384 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 472759000385 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 472759000386 E3 interaction surface; other site 472759000387 lipoyl attachment site [posttranslational modification]; other site 472759000388 e3 binding domain; Region: E3_binding; pfam02817 472759000389 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 472759000390 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 472759000391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759000392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759000393 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 472759000394 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 472759000395 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 472759000396 putative quinone modification maturase; Region: SAM_quin_mod; TIGR03981 472759000397 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 472759000398 Domain of unknown function DUF21; Region: DUF21; pfam01595 472759000399 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 472759000400 Transporter associated domain; Region: CorC_HlyC; cl08393 472759000401 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 472759000402 Domain of unknown function DUF21; Region: DUF21; pfam01595 472759000403 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 472759000404 Transporter associated domain; Region: CorC_HlyC; cl08393 472759000405 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 472759000406 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 472759000407 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 472759000408 Beta-Casp domain; Region: Beta-Casp; cl12567 472759000409 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 472759000410 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 472759000411 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 472759000412 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 472759000413 putative NAD(P) binding site [chemical binding]; other site 472759000414 active site 472759000415 PAS domain S-box; Region: sensory_box; TIGR00229 472759000416 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 472759000417 putative active site [active] 472759000418 heme pocket [chemical binding]; other site 472759000419 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 472759000420 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 472759000421 putative active site [active] 472759000422 heme pocket [chemical binding]; other site 472759000423 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 trans-...; Region: HisKA; cd00082 472759000424 dimer interface [polypeptide binding]; other site 472759000425 phosphorylation site [posttranslational modification] 472759000426 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 472759000427 ATP binding site [chemical binding]; other site 472759000428 Mg2+ binding site [ion binding]; other site 472759000429 G-X-G motif; other site 472759000430 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 472759000431 DNA-binding site [nucleotide binding]; DNA binding site 472759000432 RNA-binding motif; other site 472759000433 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 472759000434 YcfA-like protein; Region: YcfA; cl00752 472759000435 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759000436 Phd_YefM; Region: PhdYeFM; cl09153 472759000437 Protein of unknown function (DUF3680); Region: DUF3680; cl02189 472759000438 Protein of unknown function (DUF3532); Region: DUF3532; pfam12050 472759000439 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 472759000440 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 472759000441 active site 472759000442 DNA binding site [nucleotide binding] 472759000443 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 472759000444 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 472759000445 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759000446 ABC transporter signature motif; other site 472759000447 Walker B; other site 472759000448 D-loop; other site 472759000449 H-loop/switch region; other site 472759000450 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 472759000451 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 472759000452 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 472759000453 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 472759000454 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 472759000455 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759000456 Walker A/P-loop; other site 472759000457 ATP binding site [chemical binding]; other site 472759000458 Q-loop/lid; other site 472759000459 ABC transporter signature motif; other site 472759000460 Walker B; other site 472759000461 D-loop; other site 472759000462 H-loop/switch region; other site 472759000463 Domain of unknown function (DUF427); Region: DUF427; cl00998 472759000464 Domain of unknown function (DUF427); Region: DUF427; cl00998 472759000465 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 472759000466 putative active site [active] 472759000467 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 472759000468 putative active site [active] 472759000469 conserved hypothetical protein; Region: QEGLA; TIGR02421 472759000470 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 472759000471 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 472759000472 putative NAD(P) binding site [chemical binding]; other site 472759000473 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 472759000474 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 472759000475 Di-iron ligands [ion binding]; other site 472759000476 Predicted amidohydrolase [General function prediction only]; Region: COG0388 472759000477 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 472759000478 putative active site [active] 472759000479 catalytic triad [active] 472759000480 putative dimer interface [polypeptide binding]; other site 472759000481 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 472759000482 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 472759000483 Walker A/P-loop; other site 472759000484 ATP binding site [chemical binding]; other site 472759000485 Q-loop/lid; other site 472759000486 ABC transporter signature motif; other site 472759000487 Walker B; other site 472759000488 D-loop; other site 472759000489 H-loop/switch region; other site 472759000490 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 472759000491 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 472759000492 Walker A/P-loop; other site 472759000493 ATP binding site [chemical binding]; other site 472759000494 Q-loop/lid; other site 472759000495 ABC transporter signature motif; other site 472759000496 Walker B; other site 472759000497 D-loop; other site 472759000498 H-loop/switch region; other site 472759000499 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 472759000500 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 472759000501 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...; Region: TM_PBP2; cd06261 472759000502 dimer interface [polypeptide binding]; other site 472759000503 conserved gate region; other site 472759000504 putative PBP binding loops; other site 472759000505 ABC-ATPase subunit interface; other site 472759000506 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...; Region: TM_PBP2; cl00427 472759000507 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...; Region: TM_PBP2; cd06261 472759000508 ABC-ATPase subunit interface; other site 472759000509 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 472759000510 peptide binding site [polypeptide binding]; other site 472759000511 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 472759000512 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 472759000513 RNA/DNA binding site [nucleotide binding]; other site 472759000514 RRM dimerization site [polypeptide binding]; other site 472759000515 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759000516 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 472759000517 Domain of unknown function DUF29; Region: DUF29; pfam01724 472759000518 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 472759000519 Domain of unknown function DUF29; Region: DUF29; pfam01724 472759000520 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 472759000521 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...; Region: cpn10; cd00320 472759000522 oligomerisation interface [polypeptide binding]; other site 472759000523 mobile loop; other site 472759000524 roof hairpin; other site 472759000525 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 472759000526 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 472759000527 ring oligomerisation interface [polypeptide binding]; other site 472759000528 ATP/Mg binding site [chemical binding]; other site 472759000529 stacking interactions; other site 472759000530 hinge regions; other site 472759000531 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 472759000532 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 472759000533 DNA binding residues [nucleotide binding] 472759000534 dimer interface [polypeptide binding]; other site 472759000535 copper binding site [ion binding]; other site 472759000536 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 472759000537 metal-binding site [ion binding] 472759000538 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 472759000539 metal-binding site [ion binding] 472759000540 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 472759000541 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 472759000542 metal-binding site [ion binding] 472759000543 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 472759000544 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; cl11391 472759000545 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 472759000546 oligomeric interface; other site 472759000547 putative active site [active] 472759000548 homodimer interface [polypeptide binding]; other site 472759000549 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 472759000550 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 472759000551 metal binding triad; other site 472759000552 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 472759000553 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 472759000554 metal binding triad; other site 472759000555 branched-chain amino acid aminotransferase; Provisional; Region: PRK12479 472759000556 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 alpha-...; Region: BCAT_beta_family; cd01557 472759000557 homodimer interface [polypeptide binding]; other site 472759000558 substrate-cofactor binding pocket; other site 472759000559 catalytic residue [active] 472759000560 Domain of unknown function DUF28; Region: DUF28; cl00361 472759000561 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 472759000562 active site 472759000563 putative DNA-binding cleft [nucleotide binding]; other site 472759000564 dimer interface [polypeptide binding]; other site 472759000565 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 472759000566 RuvA N terminal domain; Region: RuvA_N; pfam01330 472759000567 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 472759000568 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 472759000569 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...; Region: AAA; cd00009 472759000570 Walker A motif; other site 472759000571 ATP binding site [chemical binding]; other site 472759000572 Walker B motif; other site 472759000573 arginine finger; other site 472759000574 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 472759000575 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...; Region: 4HBT; cd00586 472759000576 active site 472759000577 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 472759000578 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 472759000579 Gram-negative bacterial tonB protein; Region: TonB; cl10048 472759000580 translocation protein TolB; Provisional; Region: tolB; PRK04922 472759000581 TolB amino-terminal domain; Region: TolB_N; pfam04052 472759000582 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 472759000583 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 472759000584 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 472759000585 ligand binding site [chemical binding]; other site 472759000586 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 472759000587 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 472759000588 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 472759000589 FeS/SAM binding site; other site 472759000590 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 472759000591 Ligand Binding Site [chemical binding]; other site 472759000592 M28 Zn-Peptidases; Region: M28_like_1; cd05640 472759000593 metal binding site [ion binding]; metal-binding site 472759000594 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 472759000595 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 472759000596 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 472759000597 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 472759000598 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 472759000599 CHRD domain; Region: CHRD; cl06473 472759000600 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 472759000601 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 472759000602 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 472759000603 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 472759000604 non-specific DNA binding site [nucleotide binding]; other site 472759000605 salt bridge; other site 472759000606 sequence-specific DNA binding site [nucleotide binding]; other site 472759000607 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 472759000608 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 472759000609 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 472759000610 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 472759000611 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 472759000612 FAD binding pocket [chemical binding]; other site 472759000613 FAD binding motif [chemical binding]; other site 472759000614 phosphate binding motif [ion binding]; other site 472759000615 beta-alpha-beta structure motif; other site 472759000616 NAD binding pocket [chemical binding]; other site 472759000617 Iron coordination center [ion binding]; other site 472759000618 dihydroorotase; Provisional; Region: PRK07627 472759000619 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...; Region: metallo-dependent_hydrolases; cl00281 472759000620 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 472759000621 active site 472759000622 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 472759000623 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 472759000624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759000625 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 472759000626 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 472759000627 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 472759000628 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 472759000629 Gram-negative bacterial tonB protein; Region: TonB; cl10048 472759000630 glutathione synthetase; Provisional; Region: PRK05246 472759000631 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 472759000632 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759000633 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 472759000634 Surface antigen; Region: Bac_surface_Ag; cl03097 472759000635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 472759000636 Family of unknown function (DUF490); Region: DUF490; pfam04357 472759000637 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 472759000638 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 472759000639 dimer interface [polypeptide binding]; other site 472759000640 motif 1; other site 472759000641 active site 472759000642 motif 2; other site 472759000643 motif 3; other site 472759000644 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 472759000645 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 472759000646 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 472759000647 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 472759000648 active site 472759000649 motif I; other site 472759000650 motif II; other site 472759000651 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 472759000652 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 472759000653 putative acyl-acceptor binding pocket; other site 472759000654 PAS domain S-box; Region: sensory_box; TIGR00229 472759000655 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 472759000656 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759000657 metal binding site [ion binding]; metal-binding site 472759000658 active site 472759000659 I-site; other site 472759000660 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 472759000661 Peptidase family M48; Region: Peptidase_M48; cl12018 472759000662 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 472759000663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 472759000664 Predicted kinase [General function prediction only]; Region: COG0645 472759000665 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 472759000666 ATP-binding site [chemical binding]; other site 472759000667 Gluconate-6-phosphate binding site [chemical binding]; other site 472759000668 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 472759000669 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 472759000670 active site 472759000671 NTP binding site [chemical binding]; other site 472759000672 metal binding triad [ion binding]; metal-binding site 472759000673 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 472759000674 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 472759000675 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 472759000676 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 472759000677 putative NAD(P) binding site [chemical binding]; other site 472759000678 active site 472759000679 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 472759000680 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 472759000681 NAD(P) binding site [chemical binding]; other site 472759000682 catalytic residues [active] 472759000683 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759000684 Response regulator receiver domain; Region: Response_reg; pfam00072 472759000685 active site 472759000686 phosphorylation site [posttranslational modification] 472759000687 intermolecular recognition site; other site 472759000688 dimerization interface [polypeptide binding]; other site 472759000689 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 472759000690 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 472759000691 S-adenosylmethionine binding site [chemical binding]; other site 472759000692 Protein of unknown function (DUF523); Region: DUF523; cl00733 472759000693 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 472759000694 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 472759000695 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 472759000696 RES domain; Region: RES; cl02411 472759000697 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 472759000698 Sel1 repeat; Region: Sel1; cl02723 472759000699 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759000700 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 472759000701 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 472759000702 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 472759000703 conserved cys residue [active] 472759000704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 472759000705 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 472759000706 P-loop; other site 472759000707 Transposase IS200 like; Region: Y1_Tnp; cl00848 472759000708 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 472759000709 DNA photolyase; Region: DNA_photolyase; pfam00875 472759000710 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 472759000711 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 472759000712 classical (c) SDRs; Region: SDR_c; cd05233 472759000713 NAD(P) binding site [chemical binding]; other site 472759000714 active site 472759000715 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759000716 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 472759000717 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759000718 transcriptional regulator MirA; Provisional; Region: PRK15043 472759000719 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 472759000720 DNA binding residues [nucleotide binding] 472759000721 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 472759000722 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 472759000723 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...; Region: ThiF_MoeB_HesA_family; cd00757 472759000724 ATP binding site [chemical binding]; other site 472759000725 substrate interface [chemical binding]; other site 472759000726 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 472759000727 MPN+ (JAMM) motif; other site 472759000728 Zinc-binding site [ion binding]; other site 472759000729 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 472759000730 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 472759000731 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 472759000732 putative metal binding site [ion binding]; other site 472759000733 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 472759000734 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 472759000735 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 472759000736 Cl- selectivity filter; other site 472759000737 Cl- binding residues [ion binding]; other site 472759000738 pore gating glutamate residue; other site 472759000739 dimer interface [polypeptide binding]; other site 472759000740 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 472759000741 PemK-like protein; Region: PemK; cl00995 472759000742 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 472759000743 HemK family putative methylases; Region: hemK_fam; TIGR00536 472759000744 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 472759000745 S-adenosylmethionine binding site [chemical binding]; other site 472759000746 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 472759000747 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 472759000748 substrate binding site [chemical binding]; other site 472759000749 ligand binding site [chemical binding]; other site 472759000750 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 472759000751 Protein export membrane protein; Region: SecD_SecF; cl14618 472759000752 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 472759000753 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 472759000754 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 472759000755 Tetramer interface [polypeptide binding]; other site 472759000756 Active site [active] 472759000757 FMN-binding site [chemical binding]; other site 472759000758 CHRD domain; Region: CHRD; cl06473 472759000759 Spondin_N; Region: Spond_N; pfam06468 472759000760 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 472759000761 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759000762 Predicted deacetylase [General function prediction only]; Region: COG3233 472759000763 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 472759000764 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 472759000765 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 472759000766 putative DNA binding site [nucleotide binding]; other site 472759000767 Low molecular weight phosphatase family; Region: LMWPc; cd00115 472759000768 Active site [active] 472759000769 Domain of unknown function (DUF697); Region: DUF697; cl12064 472759000770 Haemolysin-III related; Region: HlyIII; cl03831 472759000771 Predicted flavoproteins [General function prediction only]; Region: COG2081 472759000772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759000773 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 472759000774 Zn binding site [ion binding]; other site 472759000775 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 472759000776 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 472759000777 S-adenosylmethionine binding site [chemical binding]; other site 472759000778 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 472759000779 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 472759000780 Di-iron ligands [ion binding]; other site 472759000781 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 472759000782 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759000783 Protein of unknown function (DUF1365); Region: DUF1365; cl01388 472759000784 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 472759000785 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 472759000786 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 472759000787 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 472759000788 S-adenosylmethionine binding site [chemical binding]; other site 472759000789 Transposase, Mutator family; Region: Transposase_mut; pfam00872 472759000790 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759000791 Predicted transcriptional regulator [Transcription]; Region: COG3905 472759000792 PemK-like protein; Region: PemK; cl00995 472759000793 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 472759000794 MFS_1 like family; Region: MFS_1_like; pfam12832 472759000795 malate dehydrogenase; Reviewed; Region: PRK06223 472759000796 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 472759000797 NAD(P) binding site [chemical binding]; other site 472759000798 dimer interface [polypeptide binding]; other site 472759000799 tetramer (dimer of dimers) interface [polypeptide binding]; other site 472759000800 substrate binding site [chemical binding]; other site 472759000801 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 472759000802 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 472759000803 MgtE intracellular N domain; Region: MgtE_N; cl15244 472759000804 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 472759000805 Divalent cation transporter; Region: MgtE; cl00786 472759000806 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 472759000807 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 472759000808 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 472759000809 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 472759000810 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 472759000811 dimerization domain swap beta strand [polypeptide binding]; other site 472759000812 regulatory protein interface [polypeptide binding]; other site 472759000813 active site 472759000814 regulatory phosphorylation site [posttranslational modification]; other site 472759000815 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_man; cd00006 472759000816 active pocket/dimerization site; other site 472759000817 active site 472759000818 phosphorylation site [posttranslational modification] 472759000819 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759000820 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-...; Region: HprK_C; cd01918 472759000821 Hpr binding site; other site 472759000822 active site 472759000823 homohexamer subunit interaction site [polypeptide binding]; other site 472759000824 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 472759000825 active site 472759000826 phosphorylation site [posttranslational modification] 472759000827 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 472759000828 30S subunit binding site; other site 472759000829 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 472759000830 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 472759000831 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 472759000832 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 472759000833 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 472759000834 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 472759000835 Walker A/P-loop; other site 472759000836 ATP binding site [chemical binding]; other site 472759000837 Q-loop/lid; other site 472759000838 ABC transporter signature motif; other site 472759000839 Walker B; other site 472759000840 D-loop; other site 472759000841 H-loop/switch region; other site 472759000842 OstA-like protein; Region: OstA; cl00844 472759000843 Bacterial SH3 domain; Region: SH3_3; cl02551 472759000844 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 472759000845 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 472759000846 active site 472759000847 motif I; other site 472759000848 motif II; other site 472759000849 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 472759000850 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 5-...; Region: SIS_Kpsf; cd05014 472759000851 putative active site [active] 472759000852 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 472759000853 VacJ like lipoprotein; Region: VacJ; cl01073 472759000854 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 472759000855 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 472759000856 Walker A/P-loop; other site 472759000857 ATP binding site [chemical binding]; other site 472759000858 Q-loop/lid; other site 472759000859 ABC transporter signature motif; other site 472759000860 Walker B; other site 472759000861 D-loop; other site 472759000862 H-loop/switch region; other site 472759000863 Domain of unknown function DUF140; Region: DUF140; cl00510 472759000864 mce related protein; Region: MCE; pfam02470 472759000865 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 472759000866 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 472759000867 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 472759000868 anti sigma factor interaction site; other site 472759000869 regulatory phosphorylation site [posttranslational modification]; other site 472759000870 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 472759000871 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 472759000872 BolA-like protein; Region: BolA; cl00386 472759000873 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 472759000874 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 472759000875 hinge; other site 472759000876 active site 472759000877 ATP phosphoribosyltransferase; Region: HisG; cl15266 472759000878 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 472759000879 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 472759000880 NAD binding site [chemical binding]; other site 472759000881 dimerization interface [polypeptide binding]; other site 472759000882 product binding site; other site 472759000883 substrate binding site [chemical binding]; other site 472759000884 zinc binding site [ion binding]; other site 472759000885 catalytic residues [active] 472759000886 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 472759000887 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 472759000888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759000889 homodimer interface [polypeptide binding]; other site 472759000890 catalytic residue [active] 472759000891 Uncharacterized conserved protein [Function unknown]; Region: COG0327 472759000892 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 472759000893 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 472759000894 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 472759000895 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 472759000896 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 472759000897 NAD(P) binding site [chemical binding]; other site 472759000898 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759000899 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759000900 Probable transposase; Region: OrfB_IS605; pfam01385 472759000901 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759000902 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 472759000903 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...; Region: DUS_like_FMN; cd02801 472759000904 FMN binding site [chemical binding]; other site 472759000905 active site 472759000906 catalytic residues [active] 472759000907 substrate binding site [chemical binding]; other site 472759000908 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 472759000909 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 472759000910 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...; Region: AAA; cd00009 472759000911 Walker A motif; other site 472759000912 ATP binding site [chemical binding]; other site 472759000913 Walker B motif; other site 472759000914 arginine finger; other site 472759000915 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...; Region: metallo-dependent_hydrolases; cl00281 472759000916 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 472759000917 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 472759000918 N-acetyl-D-glucosamine binding site [chemical binding]; other site 472759000919 catalytic residue [active] 472759000920 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 472759000921 putative peptidoglycan binding site; other site 472759000922 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 472759000923 putative peptidoglycan binding site; other site 472759000924 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 472759000925 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_10; cd08865 472759000926 putative hydrophobic ligand binding site [chemical binding]; other site 472759000927 PAS domain S-box; Region: sensory_box; TIGR00229 472759000928 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 472759000929 putative active site [active] 472759000930 heme pocket [chemical binding]; other site 472759000931 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 472759000932 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 472759000933 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 472759000934 catalytic residue [active] 472759000935 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 472759000936 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759000937 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759000938 Probable transposase; Region: OrfB_IS605; pfam01385 472759000939 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759000940 Myo-inositol-1-phosphate synthase; Region: Inos-1-P_synth; cl00554 472759000941 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 472759000942 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 472759000943 Membrane bound L-sorbosone dehydrogenase; Region: SNDH; pfam12303 472759000944 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 472759000945 PAS domain S-box; Region: sensory_box; TIGR00229 472759000946 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 472759000947 putative active site [active] 472759000948 heme pocket [chemical binding]; other site 472759000949 PAS domain S-box; Region: sensory_box; TIGR00229 472759000950 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 472759000951 putative active site [active] 472759000952 heme pocket [chemical binding]; other site 472759000953 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 472759000954 putative active site [active] 472759000955 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 472759000956 heme pocket [chemical binding]; other site 472759000957 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 472759000958 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 472759000959 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...; Region: HNHc; cd00085 472759000960 CRISPR-associated protein Cas9/Csn1, subtype II/NMEMI; Region: cas_Csn1; TIGR01865 472759000961 active site 472759000962 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 472759000963 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 472759000964 Ligand binding site [chemical binding]; other site 472759000965 Putative Catalytic site [active] 472759000966 DXD motif; other site 472759000967 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759000968 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core (; Region: GT1_wlbH_like; cd03798 472759000969 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 472759000970 S-adenosylmethionine binding site [chemical binding]; other site 472759000971 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 472759000972 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 472759000973 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 472759000974 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; cl12011 472759000975 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 472759000976 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 472759000977 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759000978 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 472759000979 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; cl12011 472759000980 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 472759000981 binding surface 472759000982 TPR motif; other site 472759000983 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 472759000984 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 472759000985 NAD(P) binding site [chemical binding]; other site 472759000986 homodimer interface [polypeptide binding]; other site 472759000987 substrate binding site [chemical binding]; other site 472759000988 active site 472759000989 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; cl12011 472759000990 Trm112p-like protein; Region: Trm112p; cl01066 472759000991 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 472759000992 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 472759000993 inhibitor-cofactor binding pocket; inhibition site 472759000994 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759000995 catalytic residue [active] 472759000996 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 472759000997 ligand binding site [chemical binding]; other site 472759000998 tetramer interface [polypeptide binding]; other site 472759000999 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 472759001000 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 472759001001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 472759001002 pseudaminic acid synthase; Region: PseI; TIGR03586 472759001003 NeuB family; Region: NeuB; cl00496 472759001004 Transposase, Mutator family; Region: Transposase_mut; pfam00872 472759001005 MULE transposase domain; Region: MULE; pfam10551 472759001006 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 472759001007 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 472759001008 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 472759001009 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 472759001010 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 472759001011 anti sigma factor interaction site; other site 472759001012 regulatory phosphorylation site [posttranslational modification]; other site 472759001013 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 472759001014 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...; Region: AAA; cd00009 472759001015 Walker A motif; other site 472759001016 ATP binding site [chemical binding]; other site 472759001017 Walker B motif; other site 472759001018 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 472759001019 R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-...; Region: R3H; cl00297 472759001020 RxxxH motif; other site 472759001021 DoxX; Region: DoxX; cl00976 472759001022 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 472759001023 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-...; Region: GH31; cl11402 472759001024 active site 472759001025 catalytic site [active] 472759001026 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 472759001027 starch-binding site 2 [chemical binding]; other site 472759001028 starch-binding site 1 [chemical binding]; other site 472759001029 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 472759001030 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 472759001031 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 472759001032 FAD binding domain; Region: FAD_binding_4; pfam01565 472759001033 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; cl03075 472759001034 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 472759001035 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 472759001036 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 472759001037 Predicted nucleotidyltransferase [General function prediction only]; Region: COG1665 472759001038 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759001039 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...; Region: Heme_Cu_Oxidase_I; cl00275 472759001040 D-pathway; other site 472759001041 Low-spin heme binding site [chemical binding]; other site 472759001042 Putative water exit pathway; other site 472759001043 Binuclear center (active site) [active] 472759001044 K-pathway; other site 472759001045 Putative proton exit pathway; other site 472759001046 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 472759001047 Cu(I) binding site [ion binding]; other site 472759001048 Predicted transcriptional regulator [Transcription]; Region: COG1959 472759001049 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759001050 5-oxoprolinase; Region: PLN02666 472759001051 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 472759001052 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 472759001053 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759001054 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759001055 Probable transposase; Region: OrfB_IS605; pfam01385 472759001056 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759001057 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 higher-...; Region: HU_IHF; cd00591 472759001058 IHF dimer interface [polypeptide binding]; other site 472759001059 IHF - DNA interface [nucleotide binding]; other site 472759001060 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759001061 metal binding site [ion binding]; metal-binding site 472759001062 active site 472759001063 I-site; other site 472759001064 Transposase, Mutator family; Region: Transposase_mut; pfam00872 472759001065 MULE transposase domain; Region: MULE; pfam10551 472759001066 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 472759001067 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 472759001068 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 472759001069 DNA binding residues [nucleotide binding] 472759001070 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 472759001071 catalytic residues [active] 472759001072 catalytic nucleophile [active] 472759001073 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759001074 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759001075 Probable transposase; Region: OrfB_IS605; pfam01385 472759001076 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759001077 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 472759001078 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 472759001079 S-adenosylmethionine binding site [chemical binding]; other site 472759001080 ribonuclease R; Region: RNase_R; TIGR02063 472759001081 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 472759001082 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 472759001083 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 472759001084 RNB domain; Region: RNB; pfam00773 472759001085 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...; Region: S1_RNase_R; cd04471 472759001086 RNA binding site [nucleotide binding]; other site 472759001087 multicopper oxidase; Provisional; Region: PRK10965 472759001088 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759001089 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759001090 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 472759001091 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 472759001092 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 472759001093 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 472759001094 Walker A motif; other site 472759001095 ATP binding site [chemical binding]; other site 472759001096 Walker B motif; other site 472759001097 general secretion pathway protein F; Region: GspF; TIGR02120 472759001098 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 472759001099 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 472759001100 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 472759001101 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 472759001102 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 472759001103 Type II transport protein GspH; Region: GspH; pfam12019 472759001104 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 472759001105 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759001106 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...; Region: GT1_like_4; cd03795 472759001107 putative ADP-binding pocket [chemical binding]; other site 472759001108 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_10; cd08865 472759001109 putative hydrophobic ligand binding site [chemical binding]; other site 472759001110 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 472759001111 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 472759001112 PAS domain S-box; Region: sensory_box; TIGR00229 472759001113 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 472759001114 putative active site [active] 472759001115 heme pocket [chemical binding]; other site 472759001116 PAS domain S-box; Region: sensory_box; TIGR00229 472759001117 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 472759001118 putative active site [active] 472759001119 heme pocket [chemical binding]; other site 472759001120 PAS domain S-box; Region: sensory_box; TIGR00229 472759001121 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 472759001122 putative active site [active] 472759001123 heme pocket [chemical binding]; other site 472759001124 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 472759001125 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 472759001126 oligopeptidase A; Provisional; Region: PRK10911 472759001127 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 472759001128 active site 472759001129 Zn binding site [ion binding]; other site 472759001130 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 472759001131 putative phosphate binding site [ion binding]; other site 472759001132 putative catalytic site [active] 472759001133 active site 472759001134 metal binding site A [ion binding]; metal-binding site 472759001135 DNA binding site [nucleotide binding] 472759001136 putative AP binding site [nucleotide binding]; other site 472759001137 putative metal binding site B [ion binding]; other site 472759001138 peptide synthase; Validated; Region: PRK05691 472759001139 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 472759001140 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 472759001141 binding surface 472759001142 TPR motif; other site 472759001143 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 472759001144 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 472759001145 PilZ domain; Region: PilZ; cl01260 472759001146 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 472759001147 HAD-superfamily subfamily IIA hydrolase, TIGR01458; Region: HAD-SF-IIA-hyp3 472759001148 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 472759001149 active site 472759001150 motif I; other site 472759001151 motif II; other site 472759001152 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 472759001153 Protein of unknown function (DUF330); Region: DUF330; cl01135 472759001154 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 472759001155 mce related protein; Region: MCE; pfam02470 472759001156 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 472759001157 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759001158 Walker A/P-loop; other site 472759001159 ATP binding site [chemical binding]; other site 472759001160 Q-loop/lid; other site 472759001161 ABC transporter signature motif; other site 472759001162 Walker B; other site 472759001163 D-loop; other site 472759001164 H-loop/switch region; other site 472759001165 Domain of unknown function DUF140; Region: DUF140; cl00510 472759001166 FAD binding domain; Region: FAD_binding_4; pfam01565 472759001167 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 472759001168 outer membrane lipoprotein; Provisional; Region: PRK11023 472759001169 BON domain; Region: BON; cl02771 472759001170 BON domain; Region: BON; cl02771 472759001171 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 472759001172 dimer interface [polypeptide binding]; other site 472759001173 active site 472759001174 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 472759001175 LppC putative lipoprotein; Region: LppC; pfam04348 472759001176 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 472759001177 putative ligand binding site [chemical binding]; other site 472759001178 Predicted methyltransferases [General function prediction only]; Region: COG0313 472759001179 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 472759001180 sensor protein PhoQ; Provisional; Region: PRK10815 472759001181 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 472759001182 ATP binding site [chemical binding]; other site 472759001183 G-X-G motif; other site 472759001184 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 472759001185 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759001186 active site 472759001187 phosphorylation site [posttranslational modification] 472759001188 intermolecular recognition site; other site 472759001189 dimerization interface [polypeptide binding]; other site 472759001190 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...; Region: trans_reg_C; cd00383 472759001191 DNA binding site [nucleotide binding] 472759001192 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 472759001193 Cation efflux family; Region: Cation_efflux; cl00316 472759001194 cell division protein MraZ; Reviewed; Region: PRK00326 472759001195 MraZ protein; Region: MraZ; pfam02381 472759001196 MraZ protein; Region: MraZ; pfam02381 472759001197 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; cl12011 472759001198 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 472759001199 Septum formation initiator; Region: DivIC; cl11433 472759001200 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 472759001201 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 472759001202 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 472759001203 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 472759001204 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 472759001205 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 472759001206 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 472759001207 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 472759001208 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 472759001209 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 472759001210 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 472759001211 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 472759001212 Mg++ binding site [ion binding]; other site 472759001213 putative catalytic motif [active] 472759001214 putative substrate binding site [chemical binding]; other site 472759001215 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 472759001216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759001217 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 472759001218 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 472759001219 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 472759001220 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 472759001221 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...; Region: GT1_MurG; cd03785 472759001222 active site 472759001223 homodimer interface [polypeptide binding]; other site 472759001224 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 472759001225 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 472759001226 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 472759001227 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 472759001228 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 472759001229 FAD binding domain; Region: FAD_binding_4; pfam01565 472759001230 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 472759001231 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 472759001232 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 472759001233 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759001234 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 472759001235 Cell division protein FtsQ; Region: FtsQ; pfam03799 472759001236 cell division protein FtsA; Region: ftsA; TIGR01174 472759001237 Cell division protein FtsA; Region: FtsA; cl11496 472759001238 Cell division protein FtsA; Region: FtsA; cl11496 472759001239 cell division protein FtsZ; Validated; Region: PRK09330 472759001240 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...; Region: FtsZ_type1; cd02201 472759001241 nucleotide binding site [chemical binding]; other site 472759001242 SulA interaction site; other site 472759001243 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 472759001244 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 472759001245 Protein of unknown function (DUF721); Region: DUF721; cl02324 472759001246 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 472759001247 Peptidase family M23; Region: Peptidase_M23; pfam01551 472759001248 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 472759001249 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 472759001250 SEC-C motif; Region: SEC-C; cl12132 472759001251 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...; Region: OAT; cd02152 472759001252 heterotetramer interface [polypeptide binding]; other site 472759001253 active site pocket [active] 472759001254 cleavage site 472759001255 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)...; Region: Rieske; cd03467 472759001256 iron-sulfur cluster [ion binding]; other site 472759001257 [2Fe-2S] cluster binding site [ion binding]; other site 472759001258 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 472759001259 Ketohexokinase (fructokinase, KHK) catalyzes the phosphorylation of fructose to fructose-1-phosphate (F1P), the first step in the metabolism of dietary fructose. KHK can also phosphorylate several other furanose sugars. It is found in higher...; Region: Ketohexokinase; cd01939 472759001260 substrate binding site [chemical binding]; other site 472759001261 ATP binding site [chemical binding]; other site 472759001262 adenylate kinase; Reviewed; Region: adk; PRK00279 472759001263 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 472759001264 AMP-binding site [chemical binding]; other site 472759001265 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 472759001266 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 472759001267 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 472759001268 active site 472759001269 ADP/pyrophosphate binding site [chemical binding]; other site 472759001270 dimerization interface [polypeptide binding]; other site 472759001271 allosteric effector site; other site 472759001272 fructose-1,6-bisphosphate binding site; other site 472759001273 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 472759001274 tandem repeat interface [polypeptide binding]; other site 472759001275 oligomer interface [polypeptide binding]; other site 472759001276 active site residues [active] 472759001277 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 472759001278 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 472759001279 RNA binding surface [nucleotide binding]; other site 472759001280 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...; Region: PseudoU_synth_RluCD_like; cd02869 472759001281 active site 472759001282 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 472759001283 dimerization interface [polypeptide binding]; other site 472759001284 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 472759001285 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 472759001286 Walker A/P-loop; other site 472759001287 ATP binding site [chemical binding]; other site 472759001288 Q-loop/lid; other site 472759001289 ABC transporter signature motif; other site 472759001290 Walker B; other site 472759001291 D-loop; other site 472759001292 H-loop/switch region; other site 472759001293 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...; Region: TM_PBP2; cd06261 472759001294 dimer interface [polypeptide binding]; other site 472759001295 conserved gate region; other site 472759001296 putative PBP binding loops; other site 472759001297 ABC-ATPase subunit interface; other site 472759001298 FlgN protein; Region: FlgN; cl09176 472759001299 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 472759001300 SAF domain; Region: SAF; cl00555 472759001301 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 472759001302 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...; Region: MoaC_PE; cd01420 472759001303 trimer interface [polypeptide binding]; other site 472759001304 dimer interface [polypeptide binding]; other site 472759001305 putative active site [active] 472759001306 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 472759001307 MoaE interaction surface [polypeptide binding]; other site 472759001308 MoeB interaction surface [polypeptide binding]; other site 472759001309 thiocarboxylated glycine; other site 472759001310 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 472759001311 MoaE homodimer interface [polypeptide binding]; other site 472759001312 MoaD interaction [polypeptide binding]; other site 472759001313 active site residues [active] 472759001314 GAF domain; Region: GAF; cl00853 472759001315 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 472759001316 PAS fold; Region: PAS_4; pfam08448 472759001317 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759001318 metal binding site [ion binding]; metal-binding site 472759001319 active site 472759001320 I-site; other site 472759001321 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 472759001322 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 472759001323 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...; Region: MTHFR; cd00537 472759001324 FAD binding site [chemical binding]; other site 472759001325 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 472759001326 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...; Region: AdoHcyase; cd00401 472759001327 oligomerization interface [polypeptide binding]; other site 472759001328 active site 472759001329 NAD+ binding site [chemical binding]; other site 472759001330 S-adenosylmethionine synthetase; Validated; Region: PRK05250 472759001331 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 472759001332 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 472759001333 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 472759001334 Trm112p-like protein; Region: Trm112p; cl01066 472759001335 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 472759001336 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 472759001337 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 472759001338 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 472759001339 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 472759001340 Walker A/P-loop; other site 472759001341 ATP binding site [chemical binding]; other site 472759001342 Q-loop/lid; other site 472759001343 ABC transporter signature motif; other site 472759001344 Walker B; other site 472759001345 D-loop; other site 472759001346 H-loop/switch region; other site 472759001347 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 472759001348 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 472759001349 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 472759001350 ComEC family competence protein; Provisional; Region: PRK11539 472759001351 Competence protein; Region: Competence; cl00471 472759001352 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 472759001353 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 472759001354 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 472759001355 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 472759001356 Walker A/P-loop; other site 472759001357 ATP binding site [chemical binding]; other site 472759001358 Q-loop/lid; other site 472759001359 ABC transporter signature motif; other site 472759001360 Walker B; other site 472759001361 D-loop; other site 472759001362 H-loop/switch region; other site 472759001363 LolC/E family; Region: lolCE; TIGR02212 472759001364 FtsX-like permease family; Region: FtsX; pfam02687 472759001365 PilZ domain; Region: PilZ; cl01260 472759001366 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 472759001367 tetramer (dimer of dimers) interface [polypeptide binding]; other site 472759001368 active site 472759001369 dimer interface [polypeptide binding]; other site 472759001370 threonine dehydratase; Reviewed; Region: PRK09224 472759001371 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 472759001372 tetramer interface [polypeptide binding]; other site 472759001373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759001374 catalytic residue [active] 472759001375 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 472759001376 putative Ile/Val binding site [chemical binding]; other site 472759001377 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 472759001378 putative Ile/Val binding site [chemical binding]; other site 472759001379 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 472759001380 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 472759001381 HIGH motif; other site 472759001382 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 472759001383 active site 472759001384 KMSKS motif; other site 472759001385 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 472759001386 tRNA binding surface [nucleotide binding]; other site 472759001387 Lipopolysaccharide-assembly; Region: LptE; cl01125 472759001388 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 472759001389 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 472759001390 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 472759001391 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 472759001392 putative catalytic cysteine [active] 472759001393 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 472759001394 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 472759001395 active site 472759001396 (T/H)XGH motif; other site 472759001397 Domain of unknown function DUF143; Region: DUF143; cl00519 472759001398 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 472759001399 Maf-like protein; Region: Maf; pfam02545 472759001400 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 472759001401 active site 472759001402 dimer interface [polypeptide binding]; other site 472759001403 ribonuclease G; Provisional; Region: PRK11712 472759001404 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 472759001405 homodimer interface [polypeptide binding]; other site 472759001406 oligonucleotide binding site [chemical binding]; other site 472759001407 Predicted membrane protein [Function unknown]; Region: COG3164 472759001408 Predicted amidohydrolase [General function prediction only]; Region: COG0388 472759001409 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 472759001410 putative active site [active] 472759001411 catalytic triad [active] 472759001412 dimer interface [polypeptide binding]; other site 472759001413 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 472759001414 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 472759001415 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 472759001416 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 472759001417 Ligand Binding Site [chemical binding]; other site 472759001418 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 two-...; Region: SirA_YedF_YeeD; cd00291 472759001419 CPxP motif; other site 472759001420 glutamine synthetase; Provisional; Region: glnA; PRK09469 472759001421 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 472759001422 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 472759001423 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 472759001424 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 472759001425 DNA binding site [nucleotide binding] 472759001426 catalytic residue [active] 472759001427 H2TH interface [polypeptide binding]; other site 472759001428 putative catalytic residues [active] 472759001429 turnover-facilitating residue; other site 472759001430 intercalation triad [nucleotide binding]; other site 472759001431 8OG recognition residue [nucleotide binding]; other site 472759001432 putative reading head residues; other site 472759001433 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 472759001434 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 472759001435 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 472759001436 ABC-2 type transporter; Region: ABC2_membrane; cl11417 472759001437 ABC-2 type transporter; Region: ABC2_membrane; cl11417 472759001438 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 472759001439 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759001440 Walker A/P-loop; other site 472759001441 ATP binding site [chemical binding]; other site 472759001442 Q-loop/lid; other site 472759001443 ABC transporter signature motif; other site 472759001444 Walker B; other site 472759001445 D-loop; other site 472759001446 H-loop/switch region; other site 472759001447 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...; Region: Nudix_Hydrolase; cl00447 472759001448 nudix motif; other site 472759001449 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 472759001450 putative di-iron ligands [ion binding]; other site 472759001451 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 472759001452 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 472759001453 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 472759001454 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 472759001455 putative catalytic site [active] 472759001456 putative metal binding site [ion binding]; other site 472759001457 putative phosphate binding site [ion binding]; other site 472759001458 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 472759001459 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 472759001460 putative NAD(P) binding site [chemical binding]; other site 472759001461 active site 472759001462 putative substrate binding site [chemical binding]; other site 472759001463 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 472759001464 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 472759001465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759001466 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 472759001467 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 472759001468 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 472759001469 rod shape-determining protein MreB; Provisional; Region: PRK13927 472759001470 Cell division protein FtsA; Region: FtsA; cl11496 472759001471 rod shape-determining protein MreC; Provisional; Region: PRK13922 472759001472 rod shape-determining protein MreC; Region: MreC; pfam04085 472759001473 rod shape-determining protein MreD; Region: MreD; cl01087 472759001474 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 472759001475 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 472759001476 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 472759001477 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 472759001478 lytic murein transglycosylase; Region: MltB_2; TIGR02283 472759001479 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 472759001480 N-acetyl-D-glucosamine binding site [chemical binding]; other site 472759001481 catalytic residue [active] 472759001482 rare lipoprotein A; Region: rlpA; TIGR00413 472759001483 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 472759001484 Sporulation related domain; Region: SPOR; cl10051 472759001485 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 472759001486 Beta-lactamase; Region: Beta-lactamase; cl01009 472759001487 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 472759001488 branched-chain amino acid aminotransferase; Provisional; Region: PRK12479 472759001489 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and D-...; Region: D-AAT_like; cd01558 472759001490 homodimer interface [polypeptide binding]; other site 472759001491 substrate-cofactor binding pocket; other site 472759001492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759001493 catalytic residue [active] 472759001494 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 472759001495 lipoyl synthase; Provisional; Region: PRK05481 472759001496 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; cl15259 472759001497 citrate synthase; Provisional; Region: PRK14036 472759001498 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the...; Region: citrate_synt_like_1_1; cd06112 472759001499 dimer interface [polypeptide binding]; other site 472759001500 active site 472759001501 citrylCoA binding site [chemical binding]; other site 472759001502 oxalacetate/citrate binding site [chemical binding]; other site 472759001503 coenzyme A binding site [chemical binding]; other site 472759001504 catalytic triad [active] 472759001505 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 472759001506 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 472759001507 FeS/SAM binding site; other site 472759001508 elongation factor P; Validated; Region: PRK00529 472759001509 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 472759001510 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 472759001511 RNA binding site [nucleotide binding]; other site 472759001512 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 472759001513 RNA binding site [nucleotide binding]; other site 472759001514 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 472759001515 poxB regulator PoxA; Provisional; Region: PRK09350 472759001516 motif 1; other site 472759001517 dimer interface [polypeptide binding]; other site 472759001518 active site 472759001519 motif 2; other site 472759001520 motif 3; other site 472759001521 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; cl09110 472759001522 DctM-like transporters; Region: DctM; pfam06808 472759001523 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 472759001524 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but...; Region: Dtyr_deacylase; cd00563 472759001525 putative active site [active] 472759001526 dimerization interface [polypeptide binding]; other site 472759001527 putative tRNAtyr binding site [nucleotide binding]; other site 472759001528 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 472759001529 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 472759001530 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759001531 CoA-ligase; Region: Ligase_CoA; pfam00549 472759001532 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 472759001533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759001534 CoA-ligase; Region: Ligase_CoA; pfam00549 472759001535 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 472759001536 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 472759001537 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 472759001538 putative peptidoglycan binding site; other site 472759001539 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 472759001540 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 472759001541 active site 472759001542 dimerization interface [polypeptide binding]; other site 472759001543 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 472759001544 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 472759001545 G1 box; other site 472759001546 putative GEF interaction site [polypeptide binding]; other site 472759001547 GTP/Mg2+ binding site [chemical binding]; other site 472759001548 Switch I region; other site 472759001549 G2 box; other site 472759001550 G3 box; other site 472759001551 Switch II region; other site 472759001552 G4 box; other site 472759001553 G5 box; other site 472759001554 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 472759001555 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...; Region: BipA_TypA_C; cd03710 472759001556 sensory histidine kinase AtoS; Provisional; Region: PRK11360 472759001557 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 trans-...; Region: HisKA; cd00082 472759001558 dimer interface [polypeptide binding]; other site 472759001559 phosphorylation site [posttranslational modification] 472759001560 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 472759001561 ATP binding site [chemical binding]; other site 472759001562 Mg2+ binding site [ion binding]; other site 472759001563 G-X-G motif; other site 472759001564 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 472759001565 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759001566 active site 472759001567 phosphorylation site [posttranslational modification] 472759001568 intermolecular recognition site; other site 472759001569 dimerization interface [polypeptide binding]; other site 472759001570 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...; Region: AAA; cd00009 472759001571 Walker A motif; other site 472759001572 ATP binding site [chemical binding]; other site 472759001573 Walker B motif; other site 472759001574 arginine finger; other site 472759001575 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 472759001576 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 472759001577 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759001578 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 472759001579 putative active site [active] 472759001580 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 472759001581 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 472759001582 non-specific DNA binding site [nucleotide binding]; other site 472759001583 salt bridge; other site 472759001584 sequence-specific DNA binding site [nucleotide binding]; other site 472759001585 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759001586 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 472759001587 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 472759001588 Pilin (bacterial filament); Region: Pilin; pfam00114 472759001589 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 472759001590 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 472759001591 Ligand binding site [chemical binding]; other site 472759001592 Putative Catalytic site [active] 472759001593 DXD motif; other site 472759001594 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759001595 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 472759001596 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759001597 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 472759001598 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 472759001599 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759001600 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 472759001601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759001602 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 472759001603 active site 472759001604 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 472759001605 active site 472759001606 MatE; Region: MatE; cl10513 472759001607 MatE; Region: MatE; cl10513 472759001608 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 472759001609 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 472759001610 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 472759001611 YcfA-like protein; Region: YcfA; cl00752 472759001612 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 472759001613 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 472759001614 active site 472759001615 NTP binding site [chemical binding]; other site 472759001616 metal binding triad [ion binding]; metal-binding site 472759001617 antibiotic binding site [chemical binding]; other site 472759001618 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 472759001619 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 472759001620 DNA binding residues [nucleotide binding] 472759001621 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 472759001622 catalytic residues [active] 472759001623 catalytic nucleophile [active] 472759001624 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759001625 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759001626 Probable transposase; Region: OrfB_IS605; pfam01385 472759001627 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759001628 Transposase, Mutator family; Region: Transposase_mut; pfam00872 472759001629 MULE transposase domain; Region: MULE; pfam10551 472759001630 Uncharacterised protein family (UPF0156); Region: RHH_2; cl01448 472759001631 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759001632 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 472759001633 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 472759001634 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 472759001635 MatE; Region: MatE; cl10513 472759001636 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 472759001637 ligand binding site [chemical binding]; other site 472759001638 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 472759001639 N-acetyl-D-glucosamine binding site [chemical binding]; other site 472759001640 catalytic residue [active] 472759001641 putative exosortase-affiliated protein, TIGR04073 family; Region: exo_TIGR04073 472759001642 MT-A70; Region: MT-A70; cl01947 472759001643 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 472759001644 dimer interface [polypeptide binding]; other site 472759001645 putative radical transfer pathway; other site 472759001646 diiron center [ion binding]; other site 472759001647 tyrosyl radical; other site 472759001648 ATP cone domain; Region: ATP-cone; pfam03477 472759001649 ATP cone domain; Region: ATP-cone; pfam03477 472759001650 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 472759001651 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...; Region: Hint; cl12032 472759001652 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 472759001653 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 472759001654 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 472759001655 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...; Region: Hint; cd00081 472759001656 thioester formation/cholesterol transfer; other site 472759001657 protein-splicing catalytic site; other site 472759001658 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 472759001659 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...; Region: PRX_BCP; cd03017 472759001660 catalytic triad [active] 472759001661 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 472759001662 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 472759001663 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 472759001664 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 472759001665 dihydrodipicolinate synthase; Region: dapA; TIGR00674 472759001666 dimer interface [polypeptide binding]; other site 472759001667 active site 472759001668 catalytic residue [active] 472759001669 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 472759001670 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 472759001671 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 472759001672 ATP binding site [chemical binding]; other site 472759001673 active site 472759001674 substrate binding site [chemical binding]; other site 472759001675 Dihydroorotase [Nucleotide transport and metabolism]; Region: PyrC; COG0418 472759001676 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 472759001677 active site 472759001678 substrate binding pocket [chemical binding]; other site 472759001679 dimer interface [polypeptide binding]; other site 472759001680 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 472759001681 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 472759001682 PYR/PP interface [polypeptide binding]; other site 472759001683 dimer interface [polypeptide binding]; other site 472759001684 TPP binding site [chemical binding]; other site 472759001685 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 472759001686 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 472759001687 TPP-binding site [chemical binding]; other site 472759001688 dimer interface [polypeptide binding]; other site 472759001689 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 472759001690 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 472759001691 putative valine binding site [chemical binding]; other site 472759001692 dimer interface [polypeptide binding]; other site 472759001693 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 472759001694 ketol-acid reductoisomerase; Provisional; Region: PRK05479 472759001695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759001696 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 472759001697 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 472759001698 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 472759001699 2-isopropylmalate synthase; Validated; Region: PRK00915 472759001700 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 472759001701 active site 472759001702 catalytic residues [active] 472759001703 metal binding site [ion binding]; metal-binding site 472759001704 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 472759001705 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 472759001706 Fe-S cluster binding site [ion binding]; other site 472759001707 active site 472759001708 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 472759001709 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 472759001710 Coenzyme A binding pocket [chemical binding]; other site 472759001711 Predicted membrane protein [Function unknown]; Region: COG3174 472759001712 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as...; Region: ADPRase_NUDT5; cd03424 472759001713 dimer interface [polypeptide binding]; other site 472759001714 ADP-ribose binding site [chemical binding]; other site 472759001715 active site 472759001716 nudix motif; other site 472759001717 metal binding site [ion binding]; metal-binding site 472759001718 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 472759001719 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759001720 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...; Region: GT1_like_2; cd03814 472759001721 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 472759001722 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759001723 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 472759001724 Protein of unknown function (DUF444); Region: DUF444; pfam04285 472759001725 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 472759001726 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 472759001727 SpoVR like protein; Region: SpoVR; pfam04293 472759001728 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759001729 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759001730 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759001731 FOG: CBS domain [General function prediction only]; Region: COG0517 472759001732 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-...; Region: CBS_pair_9; cd04622 472759001733 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 472759001734 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 472759001735 motif II; other site 472759001736 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; cl04829 472759001737 Ammonia monooxygenase; Region: AMO; cl03602 472759001738 Monooxygenase subunit B protein; Region: Monooxygenase_B; cl04718 472759001739 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 472759001740 active site 472759001741 ribulose/triose binding site [chemical binding]; other site 472759001742 phosphate binding site [ion binding]; other site 472759001743 substrate (anthranilate) binding pocket [chemical binding]; other site 472759001744 product (indole) binding pocket [chemical binding]; other site 472759001745 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 472759001746 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 472759001747 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 472759001748 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 472759001749 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 472759001750 glutamine binding [chemical binding]; other site 472759001751 catalytic triad [active] 472759001752 anthranilate synthase component I; Provisional; Region: PRK13565 472759001753 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 472759001754 chorismate binding enzyme; Region: Chorismate_bind; cl10555 472759001755 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 472759001756 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 472759001757 motif II; other site 472759001758 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...; Region: RPE; cd00429 472759001759 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 472759001760 substrate binding site [chemical binding]; other site 472759001761 hexamer interface [polypeptide binding]; other site 472759001762 metal binding site [ion binding]; metal-binding site 472759001763 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 472759001764 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759001765 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 472759001766 putative ABC transporter; Region: ycf24; CHL00085 472759001767 FeS assembly ATPase SufC; Region: sufC; TIGR01978 472759001768 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 472759001769 Walker A/P-loop; other site 472759001770 ATP binding site [chemical binding]; other site 472759001771 Q-loop/lid; other site 472759001772 ABC transporter signature motif; other site 472759001773 Walker B; other site 472759001774 D-loop; other site 472759001775 H-loop/switch region; other site 472759001776 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 472759001777 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 472759001778 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 472759001779 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 472759001780 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 472759001781 catalytic residue [active] 472759001782 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 472759001783 trimerization site [polypeptide binding]; other site 472759001784 active site 472759001785 Domain of unknown function DUF59; Region: DUF59; cl00941 472759001786 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 472759001787 transcriptional activator RfaH; Region: RfaH; TIGR01955 472759001788 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 472759001789 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 472759001790 Cupin domain; Region: Cupin_2; cl09118 472759001791 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...; Region: APSK; cd02027 472759001792 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 472759001793 ligand-binding site [chemical binding]; other site 472759001794 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 472759001795 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 472759001796 Beta-Casp domain; Region: Beta-Casp; cl12567 472759001797 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 472759001798 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 472759001799 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759001800 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 472759001801 putative ADP-binding pocket [chemical binding]; other site 472759001802 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 472759001803 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 472759001804 putative ADP-binding pocket [chemical binding]; other site 472759001805 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 472759001806 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 472759001807 active site 472759001808 dimer interface [polypeptide binding]; other site 472759001809 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 472759001810 Ligand Binding Site [chemical binding]; other site 472759001811 Molecular Tunnel; other site 472759001812 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 472759001813 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759001814 putative ADP-binding pocket [chemical binding]; other site 472759001815 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 472759001816 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine...; Region: GT_WbpL_WbcO_like; cd06854 472759001817 Mg++ binding site [ion binding]; other site 472759001818 putative catalytic motif [active] 472759001819 putative substrate binding site [chemical binding]; other site 472759001820 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 higher-...; Region: HU_IHF; cd00591 472759001821 IHF - DNA interface [nucleotide binding]; other site 472759001822 IHF dimer interface [polypeptide binding]; other site 472759001823 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 472759001824 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 472759001825 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 472759001826 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 472759001827 Iron-sulfur protein interface; other site 472759001828 proximal quinone binding site [chemical binding]; other site 472759001829 SdhD (CybS) interface [polypeptide binding]; other site 472759001830 proximal heme binding site [chemical binding]; other site 472759001831 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 472759001832 SdhC subunit interface [polypeptide binding]; other site 472759001833 proximal heme binding site [chemical binding]; other site 472759001834 cardiolipin binding site; other site 472759001835 Iron-sulfur protein interface; other site 472759001836 proximal quinone binding site [chemical binding]; other site 472759001837 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 472759001838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759001839 domain; Region: Succ_DH_flav_C; pfam02910 472759001840 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 472759001841 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 472759001842 L-aspartate oxidase; Provisional; Region: PRK09077 472759001843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759001844 domain; Region: Succ_DH_flav_C; pfam02910 472759001845 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 472759001846 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 472759001847 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...; Region: Sigma70_r4; cd06171 472759001848 DNA binding residues [nucleotide binding] 472759001849 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 472759001850 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 472759001851 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 472759001852 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 472759001853 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...; Region: Tryp_SPc; cl00149 472759001854 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 C-...; Region: PDZ_serine_protease; cd00987 472759001855 protein binding site [polypeptide binding]; other site 472759001856 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 C-...; Region: PDZ_serine_protease; cd00987 472759001857 protein binding site [polypeptide binding]; other site 472759001858 GTP-binding protein LepA; Provisional; Region: PRK05433 472759001859 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 472759001860 G1 box; other site 472759001861 putative GEF interaction site [polypeptide binding]; other site 472759001862 GTP/Mg2+ binding site [chemical binding]; other site 472759001863 Switch I region; other site 472759001864 G2 box; other site 472759001865 G3 box; other site 472759001866 Switch II region; other site 472759001867 G4 box; other site 472759001868 G5 box; other site 472759001869 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-...; Region: lepA_II; cd03699 472759001870 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 472759001871 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 472759001872 signal peptidase I; Provisional; Region: PRK10861 472759001873 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 472759001874 Catalytic site [active] 472759001875 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 472759001876 ribonuclease III; Reviewed; Region: rnc; PRK00102 472759001877 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 post-...; Region: RIBOc; cd00593 472759001878 dimerization interface [polypeptide binding]; other site 472759001879 active site 472759001880 metal binding site [ion binding]; metal-binding site 472759001881 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...; Region: DSRM; cd00048 472759001882 dsRNA binding site [nucleotide binding]; other site 472759001883 GTPase Era; Reviewed; Region: era; PRK00089 472759001884 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 472759001885 G1 box; other site 472759001886 GTP/Mg2+ binding site [chemical binding]; other site 472759001887 Switch I region; other site 472759001888 G2 box; other site 472759001889 Switch II region; other site 472759001890 G3 box; other site 472759001891 G4 box; other site 472759001892 G5 box; other site 472759001893 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...; Region: KH-I; cl00098 472759001894 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 472759001895 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 472759001896 aspartate aminotransferase; Provisional; Region: PRK07681 472759001897 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 472759001898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759001899 homodimer interface [polypeptide binding]; other site 472759001900 catalytic residue [active] 472759001901 homoserine dehydrogenase; Provisional; Region: PRK06349 472759001902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759001903 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 472759001904 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 472759001905 threonine synthase; Reviewed; Region: PRK06721 472759001906 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants...; Region: Thr-synth_1; cd01563 472759001907 homodimer interface [polypeptide binding]; other site 472759001908 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759001909 catalytic residue [active] 472759001910 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 472759001911 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759001912 active site 472759001913 phosphorylation site [posttranslational modification] 472759001914 intermolecular recognition site; other site 472759001915 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 472759001916 GAF domain; Region: GAF; cl00853 472759001917 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 trans-...; Region: HisKA; cl00080 472759001918 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 472759001919 ATP binding site [chemical binding]; other site 472759001920 Mg2+ binding site [ion binding]; other site 472759001921 G-X-G motif; other site 472759001922 Response regulator receiver domain; Region: Response_reg; pfam00072 472759001923 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759001924 active site 472759001925 phosphorylation site [posttranslational modification] 472759001926 intermolecular recognition site; other site 472759001927 dimerization interface [polypeptide binding]; other site 472759001928 Nitrate and nitrite sensing; Region: NIT; pfam08376 472759001929 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 472759001930 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 connected by an extended linker. The...; Region: HAMP; cl01054 472759001931 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 trans-...; Region: HisKA; cl00080 472759001932 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 472759001933 ATP binding site [chemical binding]; other site 472759001934 Mg2+ binding site [ion binding]; other site 472759001935 G-X-G motif; other site 472759001936 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 472759001937 N-carbamolyputrescine amidase; Region: PLN02747 472759001938 putative active site; other site 472759001939 catalytic triad [active] 472759001940 putative dimer interface [polypeptide binding]; other site 472759001941 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 472759001942 agmatine deiminase; Region: agmatine_aguA; TIGR03380 472759001943 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 472759001944 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; cl09110 472759001945 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; cl09110 472759001946 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 472759001947 putative active site [active] 472759001948 putative metal binding site [ion binding]; other site 472759001949 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 472759001950 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 472759001951 putative active site [active] 472759001952 heme pocket [chemical binding]; other site 472759001953 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 trans-...; Region: HisKA; cl00080 472759001954 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 472759001955 ATP binding site [chemical binding]; other site 472759001956 Mg2+ binding site [ion binding]; other site 472759001957 G-X-G motif; other site 472759001958 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 472759001959 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759001960 active site 472759001961 phosphorylation site [posttranslational modification] 472759001962 intermolecular recognition site; other site 472759001963 dimerization interface [polypeptide binding]; other site 472759001964 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 472759001965 DNA binding residues [nucleotide binding] 472759001966 dimerization interface [polypeptide binding]; other site 472759001967 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759001968 Probable transposase; Region: OrfB_IS605; pfam01385 472759001969 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759001970 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 472759001971 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 472759001972 FeS/SAM binding site; other site 472759001973 HemN C-terminal region; Region: HemN_C; pfam06969 472759001974 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 Ham1-...; Region: HAM1; cd00515 472759001975 active site 472759001976 dimerization interface [polypeptide binding]; other site 472759001977 ribonuclease PH; Reviewed; Region: rph; PRK00173 472759001978 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 472759001979 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 472759001980 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 472759001981 intersubunit interface [polypeptide binding]; other site 472759001982 active site 472759001983 Zn2+ binding site [ion binding]; other site 472759001984 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 472759001985 Cupin domain; Region: Cupin_2; cl09118 472759001986 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 472759001987 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 472759001988 motif I; other site 472759001989 motif II; other site 472759001990 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 472759001991 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 472759001992 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759001993 Active site [active] 472759001994 putative phosphoketolase; Provisional; Region: PRK05261 472759001995 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 472759001996 TPP-binding site; other site 472759001997 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 472759001998 XFP C-terminal domain; Region: XFP_C; pfam09363 472759001999 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759002000 Probable transposase; Region: OrfB_IS605; pfam01385 472759002001 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759002002 hypothetical protein; Provisional; Region: PRK11820 472759002003 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 472759002004 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 472759002005 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 472759002006 non-specific DNA binding site [nucleotide binding]; other site 472759002007 salt bridge; other site 472759002008 sequence-specific DNA binding site [nucleotide binding]; other site 472759002009 Domain of unknown function (DUF955); Region: DUF955; cl01076 472759002010 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 472759002011 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 472759002012 HsdM N-terminal domain; Region: HsdM_N; pfam12161 472759002013 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; cl12011 472759002014 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 472759002015 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 472759002016 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 472759002017 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 472759002018 Divergent AAA domain; Region: AAA_4; pfam04326 472759002019 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 472759002020 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 472759002021 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 472759002022 ATP binding site [chemical binding]; other site 472759002023 putative Mg++ binding site [ion binding]; other site 472759002024 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...; Region: GMPK; cd00071 472759002025 catalytic site [active] 472759002026 G-X2-G-X-G-K; other site 472759002027 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...; Region: HNHc; cd00085 472759002028 active site 472759002029 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 472759002030 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 472759002031 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 472759002032 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 472759002033 synthetase active site [active] 472759002034 NTP binding site [chemical binding]; other site 472759002035 metal binding site [ion binding]; metal-binding site 472759002036 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...; Region: TGS_RelA_SpoT; cd01668 472759002037 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 472759002038 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 472759002039 homotrimer interaction site [polypeptide binding]; other site 472759002040 putative active site [active] 472759002041 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 472759002042 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 four-...; Region: RecG_wedge_OBF; cd04488 472759002043 ssDNA binding site; other site 472759002044 generic binding surface II; other site 472759002045 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 472759002046 ATP binding site [chemical binding]; other site 472759002047 putative Mg++ binding site [ion binding]; other site 472759002048 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 472759002049 nucleotide binding region [chemical binding]; other site 472759002050 ATP-binding site [chemical binding]; other site 472759002051 UbiA prenyltransferase family; Region: UbiA; cl00337 472759002052 Staphylococcal nuclease homologues; Region: SNc; smart00318 472759002053 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 472759002054 Catalytic site; other site 472759002055 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 472759002056 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 472759002057 biotin synthase; Provisional; Region: PRK15108 472759002058 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 472759002059 FeS/SAM binding site; other site 472759002060 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 472759002061 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 472759002062 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 472759002063 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 472759002064 catalytic residue [active] 472759002065 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 472759002066 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 472759002067 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 472759002068 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 472759002069 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 472759002070 S-adenosylmethionine binding site [chemical binding]; other site 472759002071 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 472759002072 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 472759002073 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 472759002074 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 472759002075 NAD synthetase; Reviewed; Region: nadE; PRK02628 472759002076 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 472759002077 multimer interface [polypeptide binding]; other site 472759002078 active site 472759002079 catalytic triad [active] 472759002080 protein interface 1 [polypeptide binding]; other site 472759002081 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...; Region: NAD_synthase; cd00553 472759002082 homodimer interface [polypeptide binding]; other site 472759002083 NAD binding pocket [chemical binding]; other site 472759002084 ATP binding pocket [chemical binding]; other site 472759002085 Mg binding site [ion binding]; other site 472759002086 active-site loop [active] 472759002087 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759002088 Protein of unknown function, DUF488; Region: DUF488; cl01246 472759002089 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 472759002090 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 472759002091 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 472759002092 ATP synthase (C/AC39) subunit; Region: vATP-synt_AC39; cl00660 472759002093 V-type ATP synthase subunit I; Validated; Region: PRK05771 472759002094 ATP synthase subunit C; Region: ATP-synt_C; cl00466 472759002095 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 472759002096 V-type ATP synthase subunit A; Provisional; Region: PRK04192 472759002097 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 472759002098 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 472759002099 Walker A motif/ATP binding site; other site 472759002100 Walker B motif; other site 472759002101 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 472759002102 V-type ATP synthase subunit B; Provisional; Region: PRK04196 472759002103 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the...; Region: V_A-ATPase_B; cd01135 472759002104 Walker A motif homologous position; other site 472759002105 Walker B motif; other site 472759002106 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 472759002107 ATP synthase subunit D; Region: ATP-synt_D; cl00613 472759002108 Uncharacterized conserved protein [Function unknown]; Region: COG5464 472759002109 Restriction endonuclease; Region: Mrr_cat; cl00747 472759002110 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 472759002111 BON domain; Region: BON; cl02771 472759002112 BON domain; Region: BON; cl02771 472759002113 BON domain; Region: BON; cl02771 472759002114 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 higher-...; Region: HU_IHF; cd00591 472759002115 IHF dimer interface [polypeptide binding]; other site 472759002116 IHF - DNA interface [nucleotide binding]; other site 472759002117 periplasmic folding chaperone; Provisional; Region: PRK10788 472759002118 PPIC-type PPIASE domain; Region: Rotamase; cl08278 472759002119 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 472759002120 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 472759002121 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 472759002122 NAD binding site [chemical binding]; other site 472759002123 homotetramer interface [polypeptide binding]; other site 472759002124 homodimer interface [polypeptide binding]; other site 472759002125 substrate binding site [chemical binding]; other site 472759002126 active site 472759002127 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_18; cd08505 472759002128 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 472759002129 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 472759002130 dimer interface [polypeptide binding]; other site 472759002131 putative tRNA-binding site [nucleotide binding]; other site 472759002132 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 472759002133 putative active site [active] 472759002134 homotetrameric interface [polypeptide binding]; other site 472759002135 metal binding site [ion binding]; metal-binding site 472759002136 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 472759002137 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 472759002138 B1 nucleotide binding pocket [chemical binding]; other site 472759002139 B2 nucleotide binding pocket [chemical binding]; other site 472759002140 CAS motifs; other site 472759002141 Active site [active] 472759002142 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 472759002143 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 472759002144 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...; Region: ABCF_EF-3; cd03221 472759002145 ABC transporter; Region: ABC_tran_2; pfam12848 472759002146 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...; Region: ABCF_EF-3; cd03221 472759002147 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 472759002148 diiron binding motif [ion binding]; other site 472759002149 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 472759002150 active site flap/lid [active] 472759002151 nucleophilic elbow; other site 472759002152 catalytic triad [active] 472759002153 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 472759002154 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 472759002155 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 472759002156 Outer membrane efflux protein; Region: OEP; pfam02321 472759002157 Outer membrane efflux protein; Region: OEP; pfam02321 472759002158 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 472759002159 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 472759002160 metal ion-dependent adhesion site (MIDAS); other site 472759002161 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 472759002162 phosphopeptide binding site; other site 472759002163 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 472759002164 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 472759002165 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 472759002166 active site 472759002167 ATP binding site [chemical binding]; other site 472759002168 substrate binding site [chemical binding]; other site 472759002169 activation loop (A-loop); other site 472759002170 Sel1 repeat; Region: Sel1; cl02723 472759002171 Sel1 repeat; Region: Sel1; cl02723 472759002172 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 472759002173 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 472759002174 Autotransporter beta-domain; Region: Autotransporter; cl02365 472759002175 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 472759002176 Protein phosphatase 2C; Region: PP2C; pfam00481 472759002177 Active site [active] 472759002178 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 472759002179 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...; Region: AAA; cd00009 472759002180 Walker A motif; other site 472759002181 ATP binding site [chemical binding]; other site 472759002182 Walker B motif; other site 472759002183 arginine finger; other site 472759002184 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 472759002185 ligand binding site [chemical binding]; other site 472759002186 flexible hinge region; other site 472759002187 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 472759002188 ligand binding site [chemical binding]; other site 472759002189 flexible hinge region; other site 472759002190 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 472759002191 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 472759002192 putative active site [active] 472759002193 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 472759002194 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759002195 Walker A/P-loop; other site 472759002196 ATP binding site [chemical binding]; other site 472759002197 Q-loop/lid; other site 472759002198 ABC transporter signature motif; other site 472759002199 Walker B; other site 472759002200 D-loop; other site 472759002201 H-loop/switch region; other site 472759002202 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 472759002203 PPIC-type PPIASE domain; Region: Rotamase; cl08278 472759002204 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 472759002205 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 472759002206 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 472759002207 phosphopeptide binding site; other site 472759002208 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 472759002209 phosphopeptide binding site; other site 472759002210 NodT family; Region: outer_NodT; TIGR01845 472759002211 Outer membrane efflux protein; Region: OEP; pfam02321 472759002212 Outer membrane efflux protein; Region: OEP; pfam02321 472759002213 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 472759002214 phosphopeptide binding site; other site 472759002215 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...; Region: AAA; cd00009 472759002216 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 472759002217 Walker A motif; other site 472759002218 ATP binding site [chemical binding]; other site 472759002219 Walker B motif; other site 472759002220 arginine finger; other site 472759002221 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 472759002222 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 472759002223 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...; Region: TM_PBP2; cd06261 472759002224 dimer interface [polypeptide binding]; other site 472759002225 conserved gate region; other site 472759002226 putative PBP binding loops; other site 472759002227 ABC-ATPase subunit interface; other site 472759002228 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 472759002229 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...; Region: TM_PBP2; cd06261 472759002230 dimer interface [polypeptide binding]; other site 472759002231 conserved gate region; other site 472759002232 putative PBP binding loops; other site 472759002233 ABC-ATPase subunit interface; other site 472759002234 Ion transport protein; Region: Ion_trans; pfam00520 472759002235 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 472759002236 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 472759002237 Walker A/P-loop; other site 472759002238 ATP binding site [chemical binding]; other site 472759002239 Q-loop/lid; other site 472759002240 ABC transporter signature motif; other site 472759002241 Walker B; other site 472759002242 D-loop; other site 472759002243 H-loop/switch region; other site 472759002244 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 472759002245 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 472759002246 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 472759002247 Walker A/P-loop; other site 472759002248 ATP binding site [chemical binding]; other site 472759002249 Q-loop/lid; other site 472759002250 ABC transporter signature motif; other site 472759002251 Walker B; other site 472759002252 D-loop; other site 472759002253 H-loop/switch region; other site 472759002254 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 472759002255 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 472759002256 S-adenosylmethionine binding site [chemical binding]; other site 472759002257 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 alpha-; Region: HCP_like; cl14655 472759002258 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 472759002259 Cysteine-rich domain; Region: CCG; pfam02754 472759002260 Cysteine-rich domain; Region: CCG; pfam02754 472759002261 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 472759002262 diiron binding motif [ion binding]; other site 472759002263 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 472759002264 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 472759002265 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 472759002266 binding surface 472759002267 TPR motif; other site 472759002268 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 472759002269 Cytochrome C biogenesis protein; Region: CcmH; cl01179 472759002270 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 472759002271 catalytic residues [active] 472759002272 central insert; other site 472759002273 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 472759002274 CcmE; Region: CcmE; cl00994 472759002275 Heme exporter protein D (CcmD); Region: CcmD; cl11475 472759002276 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 472759002277 CcmB protein; Region: CcmB; cl01016 472759002278 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 472759002279 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759002280 Walker A/P-loop; other site 472759002281 ATP binding site [chemical binding]; other site 472759002282 Q-loop/lid; other site 472759002283 ABC transporter signature motif; other site 472759002284 Walker B; other site 472759002285 D-loop; other site 472759002286 H-loop/switch region; other site 472759002287 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 472759002288 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 472759002289 G1 box; other site 472759002290 GTP/Mg2+ binding site [chemical binding]; other site 472759002291 Switch I region; other site 472759002292 G2 box; other site 472759002293 Switch II region; other site 472759002294 G3 box; other site 472759002295 G4 box; other site 472759002296 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 472759002297 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 472759002298 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 472759002299 active site 472759002300 metal binding site [ion binding]; metal-binding site 472759002301 OsmC-like protein; Region: OsmC; cl00767 472759002302 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 472759002303 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 472759002304 ligand binding site [chemical binding]; other site 472759002305 flexible hinge region; other site 472759002306 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 472759002307 putative switch regulator; other site 472759002308 non-specific DNA interactions [nucleotide binding]; other site 472759002309 DNA binding site [nucleotide binding] 472759002310 sequence specific DNA binding site [nucleotide binding]; other site 472759002311 putative cAMP binding site [chemical binding]; other site 472759002312 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; cl09110 472759002313 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 472759002314 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; cl09110 472759002315 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; cl09110 472759002316 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 472759002317 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 472759002318 Probable Catalytic site [active] 472759002319 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 472759002320 Preprotein translocase subunit; Region: YajC; cl00806 472759002321 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 472759002322 trimer interface [polypeptide binding]; other site 472759002323 active site 472759002324 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 472759002325 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 472759002326 active site 472759002327 substrate binding site [chemical binding]; other site 472759002328 cosubstrate binding site; other site 472759002329 catalytic site [active] 472759002330 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 472759002331 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...; Region: PurM; cd02196 472759002332 dimerization interface [polypeptide binding]; other site 472759002333 putative ATP binding site [chemical binding]; other site 472759002334 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; cl01278 472759002335 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 472759002336 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759002337 Sulfatase; Region: Sulfatase; cl10460 472759002338 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 472759002339 DHH family; Region: DHH; pfam01368 472759002340 DHHA1 domain; Region: DHHA1; pfam02272 472759002341 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 472759002342 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 472759002343 recombination and repair protein; Provisional; Region: PRK10869 472759002344 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...; Region: ABC_RecN; cd03241 472759002345 Walker A/P-loop; other site 472759002346 ATP binding site [chemical binding]; other site 472759002347 Q-loop/lid; other site 472759002348 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...; Region: ABC_RecN; cd03241 472759002349 ABC transporter signature motif; other site 472759002350 Walker B; other site 472759002351 D-loop; other site 472759002352 H-loop/switch region; other site 472759002353 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 472759002354 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 472759002355 metal binding site 2 [ion binding]; metal-binding site 472759002356 putative DNA binding helix; other site 472759002357 metal binding site 1 [ion binding]; metal-binding site 472759002358 dimer interface [polypeptide binding]; other site 472759002359 structural Zn2+ binding site [ion binding]; other site 472759002360 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 472759002361 Uncharacterised protein family (UPF0125); Region: UPF0125; cl01096 472759002362 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 472759002363 putative coenzyme Q binding site [chemical binding]; other site 472759002364 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 472759002365 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 472759002366 SmpB-tmRNA interface; other site 472759002367 Protein of unknown function DUF86; Region: DUF86; cl01031 472759002368 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 472759002369 active site 472759002370 NTP binding site [chemical binding]; other site 472759002371 metal binding triad [ion binding]; metal-binding site 472759002372 antibiotic binding site [chemical binding]; other site 472759002373 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 472759002374 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 472759002375 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 472759002376 ATP binding site [chemical binding]; other site 472759002377 putative Mg++ binding site [ion binding]; other site 472759002378 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 472759002379 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 472759002380 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 472759002381 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 472759002382 GIY-YIG motif/motif A; other site 472759002383 putative active site [active] 472759002384 putative metal binding site [ion binding]; other site 472759002385 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 472759002386 HsdM N-terminal domain; Region: HsdM_N; pfam12161 472759002387 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 472759002388 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; cl12011 472759002389 Sugar fermentation stimulation protein; Region: SfsA; cl00647 472759002390 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 472759002391 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 472759002392 active site 472759002393 HIGH motif; other site 472759002394 nucleotide binding site [chemical binding]; other site 472759002395 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 472759002396 active site 472759002397 KMSKS motif; other site 472759002398 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 472759002399 tRNA binding surface [nucleotide binding]; other site 472759002400 anticodon binding site; other site 472759002401 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 472759002402 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 472759002403 putative active site [active] 472759002404 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 472759002405 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 472759002406 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 472759002407 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 472759002408 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 472759002409 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 472759002410 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 472759002411 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 472759002412 Type II transport protein GspH; Region: GspH; pfam12019 472759002413 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...; Region: HNHc; cd00085 472759002414 active site 472759002415 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 472759002416 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 472759002417 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 472759002418 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 472759002419 adenine DNA glycosylase; Provisional; Region: PRK10880 472759002420 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 472759002421 minor groove reading motif; other site 472759002422 helix-hairpin-helix signature motif; other site 472759002423 substrate binding pocket [chemical binding]; other site 472759002424 active site 472759002425 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 472759002426 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 472759002427 DNA binding and oxoG recognition site [nucleotide binding] 472759002428 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 472759002429 AsmA family; Region: AsmA; pfam05170 472759002430 putative assembly protein; Provisional; Region: PRK10833 472759002431 hypothetical protein; Provisional; Region: PRK11573 472759002432 Domain of unknown function DUF21; Region: DUF21; pfam01595 472759002433 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 472759002434 Transporter associated domain; Region: CorC_HlyC; cl08393 472759002435 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 472759002436 signal recognition particle protein; Provisional; Region: PRK10867 472759002437 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 472759002438 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 472759002439 P loop; other site 472759002440 GTP binding site [chemical binding]; other site 472759002441 Signal peptide binding domain; Region: SRP_SPB; pfam02978 472759002442 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 472759002443 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 472759002444 RimM N-terminal domain; Region: RimM; pfam01782 472759002445 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...; Region: PRCH; cl09959 472759002446 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 472759002447 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 472759002448 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 472759002449 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 472759002450 DNA binding site [nucleotide binding] 472759002451 active site 472759002452 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 472759002453 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 472759002454 DNA binding site [nucleotide binding] 472759002455 Int/Topo IB signature motif; other site 472759002456 active site 472759002457 Protein of unknown function (DUF520); Region: DUF520; cl00723 472759002458 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 472759002459 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide...; Region: DsbA_DsbC_DsbG; cd03020 472759002460 dimerization domain [polypeptide binding]; other site 472759002461 dimer interface [polypeptide binding]; other site 472759002462 catalytic residues [active] 472759002463 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 472759002464 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 472759002465 putative active site [active] 472759002466 putative metal binding site [ion binding]; other site 472759002467 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 472759002468 substrate binding site [chemical binding]; other site 472759002469 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 472759002470 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 472759002471 HIGH motif; other site 472759002472 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 472759002473 active site 472759002474 KMSKS motif; other site 472759002475 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 472759002476 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 472759002477 active site 472759002478 HIGH motif; other site 472759002479 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 472759002480 KMSKS motif; other site 472759002481 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 472759002482 tRNA binding surface [nucleotide binding]; other site 472759002483 anticodon binding site; other site 472759002484 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 472759002485 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 472759002486 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 472759002487 homodimer interface [polypeptide binding]; other site 472759002488 NADP binding site [chemical binding]; other site 472759002489 substrate binding site [chemical binding]; other site 472759002490 Transposase, Mutator family; Region: Transposase_mut; pfam00872 472759002491 MULE transposase domain; Region: MULE; pfam10551 472759002492 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 472759002493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 472759002494 HicB family; Region: HicB; pfam05534 472759002495 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 472759002496 non-specific DNA binding site [nucleotide binding]; other site 472759002497 salt bridge; other site 472759002498 sequence-specific DNA binding site [nucleotide binding]; other site 472759002499 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 472759002500 non-specific DNA binding site [nucleotide binding]; other site 472759002501 salt bridge; other site 472759002502 sequence-specific DNA binding site [nucleotide binding]; other site 472759002503 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759002504 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759002505 KilA-N domain; Region: KilA-N; pfam04383 472759002506 Transposase, Mutator family; Region: Transposase_mut; pfam00872 472759002507 MULE transposase domain; Region: MULE; pfam10551 472759002508 integrase; Provisional; Region: int; PHA02601 472759002509 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 472759002510 Phage integrase family; Region: Phage_integrase; pfam00589 472759002511 DNA binding site [nucleotide binding] 472759002512 Int/Topo IB signature motif; other site 472759002513 active site 472759002514 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 472759002515 C-terminal domain; Region: primase_Cterm; TIGR01613 472759002516 Protein of unknown function (DUF497); Region: DUF497; cl01108 472759002517 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 472759002518 transcriptional repressor DicA; Reviewed; Region: PRK09706 472759002519 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759002520 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759002521 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 472759002522 C-terminal domain; Region: primase_Cterm; TIGR01613 472759002523 BRO family, N-terminal domain; Region: Bro-N; cl10591 472759002524 BRO family, N-terminal domain; Region: Bro-N; cl10591 472759002525 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 472759002526 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 472759002527 Mor transcription activator family; Region: Mor; cl02360 472759002528 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 472759002529 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 472759002530 ORF6N domain; Region: ORF6N; pfam10543 472759002531 Domain of unknown function DUF29; Region: DUF29; pfam01724 472759002532 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 472759002533 catalytic residue [active] 472759002534 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 472759002535 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 472759002536 oligomer interface [polypeptide binding]; other site 472759002537 active site residues [active] 472759002538 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 472759002539 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 472759002540 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 472759002541 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 472759002542 non-specific DNA binding site [nucleotide binding]; other site 472759002543 salt bridge; other site 472759002544 sequence-specific DNA binding site [nucleotide binding]; other site 472759002545 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759002546 methylamine dehydrogenase heavy chain; Region: TTQ_MADH_Hv; TIGR02658 472759002547 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 472759002548 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 472759002549 ligand binding site [chemical binding]; other site 472759002550 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 472759002551 Prominin; Region: Prominin; pfam05478 472759002552 Protein of unknown function (DUF3223); Region: DUF3223; pfam11523 472759002553 Global regulator protein family; Region: CsrA; cl00670 472759002554 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 472759002555 YcfA-like protein; Region: YcfA; cl00752 472759002556 Uncharacterized conserved protein [Function unknown]; Region: COG3586 472759002557 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 472759002558 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 472759002559 polymerase nucleotide-binding site; other site 472759002560 DNA-binding residues [nucleotide binding]; DNA binding site 472759002561 nucleotide binding site [chemical binding]; other site 472759002562 primase nucleotide-binding site [nucleotide binding]; other site 472759002563 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 472759002564 hypothetical protein; Provisional; Region: PRK14709 472759002565 D5 N terminal like; Region: D5_N; cl07360 472759002566 C-terminal domain; Region: primase_Cterm; TIGR01613 472759002567 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 472759002568 Protein of unknown function (DUF2283); Region: DUF2283; cl02251 472759002569 integrase; Provisional; Region: PRK09692 472759002570 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 472759002571 active site 472759002572 Int/Topo IB signature motif; other site 472759002573 Domain of unknown function DUF29; Region: DUF29; pfam01724 472759002574 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 472759002575 HsdM N-terminal domain; Region: HsdM_N; pfam12161 472759002576 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; cl12011 472759002577 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 472759002578 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 472759002579 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 472759002580 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 472759002581 Protein of unknown function DUF45; Region: DUF45; cl00636 472759002582 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 472759002583 HicB family; Region: HicB; pfam05534 472759002584 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 472759002585 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 472759002586 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 472759002587 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 472759002588 catalytic core [active] 472759002589 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 472759002590 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 472759002591 N-terminal plug; other site 472759002592 ligand-binding site [chemical binding]; other site 472759002593 ferrochelatase; Reviewed; Region: hemH; PRK00035 472759002594 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 472759002595 C-terminal domain interface [polypeptide binding]; other site 472759002596 active site 472759002597 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 472759002598 active site 472759002599 N-terminal domain interface [polypeptide binding]; other site 472759002600 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 472759002601 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 472759002602 active site 472759002603 dimer interface [polypeptide binding]; other site 472759002604 catalytic nucleophile [active] 472759002605 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 472759002606 S-adenosylmethionine binding site [chemical binding]; other site 472759002607 Predicted GTPase or GTP-binding protein [General function prediction only]; Region: COG1341 472759002608 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 472759002609 Predicted GTPase or GTP-binding protein [General function prediction only]; Region: COG1341 472759002610 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 472759002611 Major Facilitator Superfamily; Region: MFS_1; pfam07690 472759002612 putative substrate translocation pore; other site 472759002613 Predicted deacylase [General function prediction only]; Region: COG3608 472759002614 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the...; Region: M14_ASTE_ASPA_like_1; cd06251 472759002615 putative active site [active] 472759002616 Zn-binding site [ion binding]; other site 472759002617 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 472759002618 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759002619 Protein of unknown function (DUF785); Region: DUF785; cl01682 472759002620 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 472759002621 GAF domain; Region: GAF; cl00853 472759002622 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 472759002623 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 472759002624 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 472759002625 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 472759002626 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 472759002627 active site 472759002628 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 472759002629 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 472759002630 Cytochrome c; Region: Cytochrom_C; cl11414 472759002631 poly(A) polymerase; Region: pcnB; TIGR01942 472759002632 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 472759002633 active site 472759002634 NTP binding site [chemical binding]; other site 472759002635 metal binding triad [ion binding]; metal-binding site 472759002636 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 472759002637 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 472759002638 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 472759002639 catalytic center binding site [active] 472759002640 ATP binding site [chemical binding]; other site 472759002641 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 472759002642 oligomerization interface [polypeptide binding]; other site 472759002643 active site 472759002644 metal binding site [ion binding]; metal-binding site 472759002645 pantoate--beta-alanine ligase; Region: panC; TIGR00018 472759002646 Pantoate-beta-alanine ligase; Region: PanC; cd00560 472759002647 active site 472759002648 ATP-binding site [chemical binding]; other site 472759002649 pantoate-binding site; other site 472759002650 HXXH motif; other site 472759002651 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 472759002652 tetramerization interface [polypeptide binding]; other site 472759002653 active site 472759002654 Acylphosphatase; Region: Acylphosphatase; cl00551 472759002655 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759002656 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759002657 Probable transposase; Region: OrfB_IS605; pfam01385 472759002658 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759002659 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759002660 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759002661 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759002662 Cytochrome c; Region: Cytochrom_C; cl11414 472759002663 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 472759002664 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759002665 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 472759002666 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 472759002667 DNA-binding site [nucleotide binding]; DNA binding site 472759002668 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 472759002669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759002670 homodimer interface [polypeptide binding]; other site 472759002671 catalytic residue [active] 472759002672 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 472759002673 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 472759002674 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 472759002675 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 472759002676 N-acetyl-D-glucosamine binding site [chemical binding]; other site 472759002677 catalytic residue [active] 472759002678 prolyl-tRNA synthetase; Provisional; Region: PRK09194 472759002679 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...; Region: ProRS_core_prok; cd00779 472759002680 dimer interface [polypeptide binding]; other site 472759002681 motif 1; other site 472759002682 active site 472759002683 motif 2; other site 472759002684 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and single-...; Region: ProRS-INS; cd04334 472759002685 putative deacylase active site [active] 472759002686 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 472759002687 active site 472759002688 motif 3; other site 472759002689 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-...; Region: ProRS_anticodon_short; cd00861 472759002690 anticodon binding site; other site 472759002691 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 472759002692 active site 472759002693 multimer interface [polypeptide binding]; other site 472759002694 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 472759002695 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; cl15259 472759002696 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 472759002697 binding surface 472759002698 TPR motif; other site 472759002699 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 472759002700 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 472759002701 binding surface 472759002702 TPR motif; other site 472759002703 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 472759002704 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 472759002705 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 472759002706 dimer interface [polypeptide binding]; other site 472759002707 motif 1; other site 472759002708 active site 472759002709 motif 2; other site 472759002710 motif 3; other site 472759002711 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 472759002712 anticodon binding site; other site 472759002713 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 472759002714 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 472759002715 active site 472759002716 dimer interface [polypeptide binding]; other site 472759002717 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 472759002718 dimer interface [polypeptide binding]; other site 472759002719 active site 472759002720 glycogen branching enzyme; Provisional; Region: PRK05402 472759002721 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 472759002722 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 472759002723 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 472759002724 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 472759002725 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 472759002726 ligand binding site [chemical binding]; other site 472759002727 oligomer interface [polypeptide binding]; other site 472759002728 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and rate-...; Region: LbH_G1P_AT_C; cd04651 472759002729 dimer interface [polypeptide binding]; other site 472759002730 N-terminal domain interface [polypeptide binding]; other site 472759002731 sulfate 1 binding site; other site 472759002732 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 472759002733 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 L-...; Region: GCS_H; cd06848 472759002734 lipoyl attachment site [posttranslational modification]; other site 472759002735 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 472759002736 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...; Region: GDC-P; cd00613 472759002737 tetramer interface [polypeptide binding]; other site 472759002738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759002739 catalytic residue [active] 472759002740 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 472759002741 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 472759002742 putative peptidase; Provisional; Region: PRK11649 472759002743 Peptidase family M23; Region: Peptidase_M23; pfam01551 472759002744 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 472759002745 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 472759002746 active site 472759002747 HIGH motif; other site 472759002748 dimer interface [polypeptide binding]; other site 472759002749 KMSKS motif; other site 472759002750 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 472759002751 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 472759002752 catalytic core [active] 472759002753 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 472759002754 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 472759002755 S-adenosylmethionine binding site [chemical binding]; other site 472759002756 Rhomboid family; Region: Rhomboid; cl11446 472759002757 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 472759002758 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 472759002759 FeS/SAM binding site; other site 472759002760 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 472759002761 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 472759002762 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 472759002763 MutS domain I; Region: MutS_I; pfam01624 472759002764 MutS domain II; Region: MutS_II; pfam05188 472759002765 MutS family domain IV; Region: MutS_IV; pfam05190 472759002766 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 472759002767 Walker A/P-loop; other site 472759002768 ATP binding site [chemical binding]; other site 472759002769 Q-loop/lid; other site 472759002770 ABC transporter signature motif; other site 472759002771 Walker B; other site 472759002772 D-loop; other site 472759002773 H-loop/switch region; other site 472759002774 Competence-damaged protein; Region: CinA; cl00666 472759002775 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 472759002776 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 472759002777 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 472759002778 recombinase A; Provisional; Region: recA; PRK09354 472759002779 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 472759002780 hexamer interface [polypeptide binding]; other site 472759002781 Walker A motif; other site 472759002782 ATP binding site [chemical binding]; other site 472759002783 Walker B motif; other site 472759002784 RecX family; Region: RecX; cl00936 472759002785 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 472759002786 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...; Region: AlaRS_core; cd00673 472759002787 motif 1; other site 472759002788 active site 472759002789 motif 2; other site 472759002790 motif 3; other site 472759002791 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 472759002792 DHHA1 domain; Region: DHHA1; pfam02272 472759002793 aspartate kinase; Reviewed; Region: PRK06635 472759002794 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 472759002795 putative nucleotide binding site [chemical binding]; other site 472759002796 putative catalytic residues [active] 472759002797 putative Mg ion binding site [ion binding]; other site 472759002798 putative aspartate binding site [chemical binding]; other site 472759002799 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 472759002800 putative allosteric regulatory site; other site 472759002801 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 472759002802 putative allosteric regulatory residue; other site 472759002803 Global regulator protein family; Region: CsrA; cl00670 472759002804 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759002805 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 472759002806 non-specific DNA binding site [nucleotide binding]; other site 472759002807 salt bridge; other site 472759002808 sequence-specific DNA binding site [nucleotide binding]; other site 472759002809 Transposase [DNA replication, recombination, and repair]; Region: COG5421 472759002810 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 472759002811 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759002812 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759002813 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 472759002814 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 472759002815 tetramer interface [polypeptide binding]; other site 472759002816 heme binding pocket [chemical binding]; other site 472759002817 NADPH binding site [chemical binding]; other site 472759002818 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 472759002819 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759002820 Transposase, Mutator family; Region: Transposase_mut; pfam00872 472759002821 MULE transposase domain; Region: MULE; pfam10551 472759002822 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 472759002823 PAS fold; Region: PAS_3; pfam08447 472759002824 putative active site [active] 472759002825 heme pocket [chemical binding]; other site 472759002826 PAS domain S-box; Region: sensory_box; TIGR00229 472759002827 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 472759002828 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759002829 metal binding site [ion binding]; metal-binding site 472759002830 active site 472759002831 I-site; other site 472759002832 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 472759002833 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759002834 active site 472759002835 phosphorylation site [posttranslational modification] 472759002836 intermolecular recognition site; other site 472759002837 dimerization interface [polypeptide binding]; other site 472759002838 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 472759002839 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 472759002840 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 472759002841 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...; Region: ACD_sHsps-like; cd06464 472759002842 putative dimer interface [polypeptide binding]; other site 472759002843 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...; Region: ACD_sHsps-like; cd06464 472759002844 putative dimer interface [polypeptide binding]; other site 472759002845 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 472759002846 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 472759002847 Walker A/P-loop; other site 472759002848 ATP binding site [chemical binding]; other site 472759002849 Q-loop/lid; other site 472759002850 ABC transporter signature motif; other site 472759002851 Walker B; other site 472759002852 D-loop; other site 472759002853 H-loop/switch region; other site 472759002854 ABC-2 type transporter; Region: ABC2_membrane; cl11417 472759002855 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 472759002856 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 472759002857 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 472759002858 Probable transposase; Region: OrfB_IS605; pfam01385 472759002859 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759002860 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 472759002861 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 472759002862 ring oligomerisation interface [polypeptide binding]; other site 472759002863 ATP/Mg binding site [chemical binding]; other site 472759002864 stacking interactions; other site 472759002865 hinge regions; other site 472759002866 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 472759002867 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...; Region: Tryp_SPc; cl00149 472759002868 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 C-...; Region: PDZ_serine_protease; cd00987 472759002869 protein binding site [polypeptide binding]; other site 472759002870 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 C-...; Region: PDZ_serine_protease; cd00987 472759002871 protein binding site [polypeptide binding]; other site 472759002872 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 472759002873 non-specific DNA binding site [nucleotide binding]; other site 472759002874 salt bridge; other site 472759002875 sequence-specific DNA binding site [nucleotide binding]; other site 472759002876 RT_Bac_retron_II: 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_II; cd03487 472759002877 putative active site [active] 472759002878 putative NTP binding site [chemical binding]; other site 472759002879 putative nucleic acid binding site [nucleotide binding]; other site 472759002880 UvrD/REP helicase; Region: UvrD-helicase; cl14126 472759002881 UvrD/REP helicase; Region: UvrD-helicase; cl14126 472759002882 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 472759002883 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 472759002884 proposed catalytic triad [active] 472759002885 conserved cys residue [active] 472759002886 Domain of unknown function DUF77; Region: DUF77; cl00307 472759002887 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 472759002888 catalytic core [active] 472759002889 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 472759002890 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 472759002891 Protein of unknown function, DUF393; Region: DUF393; cl01136 472759002892 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 472759002893 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; cl09110 472759002894 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 472759002895 active site 472759002896 Transposase IS200 like; Region: Y1_Tnp; cl00848 472759002897 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759002898 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759002899 Probable transposase; Region: OrfB_IS605; pfam01385 472759002900 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759002901 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 472759002902 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 472759002903 putative catalytic site [active] 472759002904 putative metal binding site [ion binding]; other site 472759002905 putative phosphate binding site [ion binding]; other site 472759002906 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 5,10-...; Region: DHFR; cl00161 472759002907 Uncharacterized ArCR, COG1888; Region: DUF211; cl00820 472759002908 CCC1-related family of proteins; Region: CCC1_like; cl00278 472759002909 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 472759002910 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 472759002911 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 472759002912 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; cl11391 472759002913 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; cl11391 472759002914 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 472759002915 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 472759002916 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 472759002917 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 472759002918 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 472759002919 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 472759002920 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 472759002921 nudix motif; other site 472759002922 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759002923 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 472759002924 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 472759002925 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cl12127 472759002926 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 472759002927 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cl09835 472759002928 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 472759002929 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 472759002930 FtsX-like permease family; Region: FtsX; pfam02687 472759002931 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 472759002932 FtsX-like permease family; Region: FtsX; pfam02687 472759002933 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 472759002934 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 472759002935 Walker A/P-loop; other site 472759002936 ATP binding site [chemical binding]; other site 472759002937 Q-loop/lid; other site 472759002938 ABC transporter signature motif; other site 472759002939 Walker B; other site 472759002940 D-loop; other site 472759002941 H-loop/switch region; other site 472759002942 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 472759002943 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 472759002944 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 472759002945 Ligand Binding Site [chemical binding]; other site 472759002946 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 472759002947 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 472759002948 tetramer interface [polypeptide binding]; other site 472759002949 active site 472759002950 Mg2+/Mn2+ binding site [ion binding]; other site 472759002951 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 472759002952 dimer interface [polypeptide binding]; other site 472759002953 Citrate synthase; Region: Citrate_synt; pfam00285 472759002954 active site 472759002955 citrylCoA binding site [chemical binding]; other site 472759002956 oxalacetate/citrate binding site [chemical binding]; other site 472759002957 coenzyme A binding site [chemical binding]; other site 472759002958 catalytic triad [active] 472759002959 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 472759002960 2-methylcitrate dehydratase; Region: prpD; TIGR02330 472759002961 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 472759002962 FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 472759002963 putative active site [active] 472759002964 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 472759002965 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 472759002966 E3 interaction surface; other site 472759002967 lipoyl attachment site [posttranslational modification]; other site 472759002968 e3 binding domain; Region: E3_binding; pfam02817 472759002969 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 472759002970 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 472759002971 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 472759002972 alpha subunit interface [polypeptide binding]; other site 472759002973 TPP binding site [chemical binding]; other site 472759002974 heterodimer interface [polypeptide binding]; other site 472759002975 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 472759002976 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 472759002977 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 472759002978 TPP-binding site [chemical binding]; other site 472759002979 tetramer interface [polypeptide binding]; other site 472759002980 heterodimer interface [polypeptide binding]; other site 472759002981 phosphorylation loop region [posttranslational modification] 472759002982 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 472759002983 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 472759002984 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 472759002985 NAD binding site [chemical binding]; other site 472759002986 Phe binding site; other site 472759002987 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 472759002988 kynureninase; Region: kynureninase; TIGR01814 472759002989 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 472759002990 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 472759002991 catalytic residue [active] 472759002992 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 472759002993 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 472759002994 dimer interface [polypeptide binding]; other site 472759002995 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 472759002996 active site 472759002997 Fe binding site [ion binding]; other site 472759002998 homogentisate 1,2-dioxygenase; Region: HgmA; cl10473 472759002999 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 472759003000 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens...; Region: GST_N_Zeta; cd03042 472759003001 maleylacetoacetate isomerase; Region: maiA; TIGR01262 472759003002 C-terminal domain interface [polypeptide binding]; other site 472759003003 GSH binding site (G-site) [chemical binding]; other site 472759003004 putative dimer interface [polypeptide binding]; other site 472759003005 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 472759003006 dimer interface [polypeptide binding]; other site 472759003007 N-terminal domain interface [polypeptide binding]; other site 472759003008 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 472759003009 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 472759003010 CoenzymeA binding site [chemical binding]; other site 472759003011 subunit interaction site [polypeptide binding]; other site 472759003012 PHB binding site; other site 472759003013 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 472759003014 phosphopeptide binding site; other site 472759003015 GAF domain; Region: GAF; cl00853 472759003016 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 472759003017 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 472759003018 acyl-CoA esterase; Provisional; Region: PRK10673 472759003019 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 472759003020 Response regulator receiver domain; Region: Response_reg; pfam00072 472759003021 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759003022 active site 472759003023 phosphorylation site [posttranslational modification] 472759003024 intermolecular recognition site; other site 472759003025 dimerization interface [polypeptide binding]; other site 472759003026 PAS domain S-box; Region: sensory_box; TIGR00229 472759003027 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 472759003028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759003029 metal binding site [ion binding]; metal-binding site 472759003030 active site 472759003031 I-site; other site 472759003032 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 472759003033 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 472759003034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759003035 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 472759003036 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 472759003037 inhibitor-cofactor binding pocket; inhibition site 472759003038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759003039 catalytic residue [active] 472759003040 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 472759003041 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 472759003042 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 472759003043 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...; Region: LbH_UDP-GlcNAc_AT; cd03351 472759003044 active site 472759003045 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 472759003046 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 472759003047 GcpE protein; Region: GcpE; pfam04551 472759003048 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 472759003049 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 472759003050 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 472759003051 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 472759003052 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 472759003053 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 472759003054 active site 472759003055 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 472759003056 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 472759003057 FeS/SAM binding site; other site 472759003058 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 472759003059 LytB protein; Region: LYTB; cl00507 472759003060 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 472759003061 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 472759003062 TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 472759003063 TPP-binding site; other site 472759003064 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 472759003065 PYR/PP interface [polypeptide binding]; other site 472759003066 dimer interface [polypeptide binding]; other site 472759003067 TPP binding site [chemical binding]; other site 472759003068 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 472759003069 Copper resistance protein CopC; Region: CopC; cl01012 472759003070 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 472759003071 Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor...; Region: Glycogen_debranching_enzyme_N_term; cd02856 472759003072 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 472759003073 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 472759003074 N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 472759003075 THF binding site; other site 472759003076 C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 472759003077 substrate binding site [chemical binding]; other site 472759003078 THF binding site; other site 472759003079 zinc-binding site [ion binding]; other site 472759003080 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 472759003081 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 472759003082 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 472759003083 FeS/SAM binding site; other site 472759003084 CHASE4 domain; Region: CHASE4; cl01308 472759003085 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 472759003086 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 472759003087 active site 472759003088 ATP binding site [chemical binding]; other site 472759003089 substrate binding site [chemical binding]; other site 472759003090 activation loop (A-loop); other site 472759003091 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 472759003092 MgtE intracellular N domain; Region: MgtE_N; cl15244 472759003093 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 472759003094 Divalent cation transporter; Region: MgtE; cl00786 472759003095 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1,6-; Region: IMPase_like; cd01637 472759003096 active site 472759003097 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 472759003098 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759003099 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 472759003100 putative dimerization interface [polypeptide binding]; other site 472759003101 hypothetical protein; Provisional; Region: PRK05590 472759003102 SEC-C motif; Region: SEC-C; cl12132 472759003103 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 472759003104 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 472759003105 putative NAD(P) binding site [chemical binding]; other site 472759003106 active site 472759003107 FG-GAP repeat; Region: FG-GAP; cl15299 472759003108 FG-GAP repeat; Region: FG-GAP; cl15299 472759003109 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 472759003110 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759003111 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 472759003112 non-specific DNA binding site [nucleotide binding]; other site 472759003113 salt bridge; other site 472759003114 sequence-specific DNA binding site [nucleotide binding]; other site 472759003115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 472759003116 Protein of unknown function (DUF497); Region: DUF497; cl01108 472759003117 Protein of unknown function (DUF497); Region: DUF497; cl01108 472759003118 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; cl14780 472759003119 Phd_YefM; Region: PhdYeFM; cl09153 472759003120 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759003121 Transposase IS200 like; Region: Y1_Tnp; cl00848 472759003122 integron integrase; Region: integrase_gron; TIGR02249 472759003123 DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and a secondary target called the attC (or 59-base element)...; Region: INT_IntI; cd01193 472759003124 Int/Topo IB signature motif; other site 472759003125 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 472759003126 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 472759003127 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 472759003128 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 472759003129 putative active site [active] 472759003130 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 472759003131 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 472759003132 synthetase active site [active] 472759003133 NTP binding site [chemical binding]; other site 472759003134 metal binding site [ion binding]; metal-binding site 472759003135 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...; Region: TGS_RelA_SpoT; cd01668 472759003136 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 472759003137 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 472759003138 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 472759003139 ATP binding site [chemical binding]; other site 472759003140 putative Mg++ binding site [ion binding]; other site 472759003141 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 472759003142 nucleotide binding region [chemical binding]; other site 472759003143 ATP-binding site [chemical binding]; other site 472759003144 Helicase associated domain (HA2); Region: HA2; cl04503 472759003145 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 472759003146 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 472759003147 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 472759003148 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 472759003149 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 472759003150 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin...; Region: S1_Tex; cd05685 472759003151 RNA binding site [nucleotide binding]; other site 472759003152 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 472759003153 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 472759003154 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 472759003155 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 472759003156 FAD binding pocket [chemical binding]; other site 472759003157 FAD binding motif [chemical binding]; other site 472759003158 catalytic residues [active] 472759003159 NAD binding pocket [chemical binding]; other site 472759003160 phosphate binding motif [ion binding]; other site 472759003161 beta-alpha-beta structure motif; other site 472759003162 sulfite reductase subunit beta; Provisional; Region: PRK13504 472759003163 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 472759003164 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 472759003165 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 472759003166 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 472759003167 dimer interface [polypeptide binding]; other site 472759003168 decamer (pentamer of dimers) interface [polypeptide binding]; other site 472759003169 catalytic triad [active] 472759003170 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 472759003171 Peptidase family M48; Region: Peptidase_M48; cl12018 472759003172 aminopeptidase N; Provisional; Region: pepN; PRK14015 472759003173 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 472759003174 active site 472759003175 Zn binding site [ion binding]; other site 472759003176 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 472759003177 RNA/DNA binding site [nucleotide binding]; other site 472759003178 RRM dimerization site [polypeptide binding]; other site 472759003179 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 472759003180 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 472759003181 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 472759003182 catalytic residue [active] 472759003183 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 472759003184 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 472759003185 PYR/PP interface [polypeptide binding]; other site 472759003186 dimer interface [polypeptide binding]; other site 472759003187 TPP binding site [chemical binding]; other site 472759003188 TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as bialaphos tripeptide in Streptomyces hygroscopicus...; Region: TPP_PpyrDC; cd03371 472759003189 TPP-binding site; other site 472759003190 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 472759003191 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 472759003192 tetramer interface [polypeptide binding]; other site 472759003193 active site 472759003194 Mg2+/Mn2+ binding site [ion binding]; other site 472759003195 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 472759003196 active site 472759003197 metal binding site [ion binding]; metal-binding site 472759003198 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 472759003199 active site 472759003200 metal binding site [ion binding]; metal-binding site 472759003201 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 472759003202 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 472759003203 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 472759003204 Active site cavity [active] 472759003205 catalytic acid [active] 472759003206 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 472759003207 active site lid residues [active] 472759003208 substrate binding pocket [chemical binding]; other site 472759003209 catalytic residues [active] 472759003210 substrate-Mg2+ binding site; other site 472759003211 aspartate-rich region 1; other site 472759003212 aspartate-rich region 2; other site 472759003213 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 472759003214 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759003215 active site 472759003216 phosphorylation site [posttranslational modification] 472759003217 intermolecular recognition site; other site 472759003218 dimerization interface [polypeptide binding]; other site 472759003219 ANTAR domain; Region: ANTAR; cl04297 472759003220 GAF domain; Region: GAF; cl00853 472759003221 PAS domain S-box; Region: sensory_box; TIGR00229 472759003222 hypothetical protein; Provisional; Region: PRK13560 472759003223 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 472759003224 ATP binding site [chemical binding]; other site 472759003225 Mg2+ binding site [ion binding]; other site 472759003226 G-X-G motif; other site 472759003227 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 472759003228 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 472759003229 Chain length determinant protein; Region: Wzz; cl01623 472759003230 Chain length determinant protein; Region: Wzz; cl01623 472759003231 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 472759003232 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 472759003233 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 472759003234 TPR motif; other site 472759003235 binding surface 472759003236 O-Antigen ligase; Region: Wzy_C; cl04850 472759003237 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 472759003238 active site 472759003239 dimer interface [polypeptide binding]; other site 472759003240 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 472759003241 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 472759003242 putative ribose interaction site [chemical binding]; other site 472759003243 putative ADP binding site [chemical binding]; other site 472759003244 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 472759003245 active site 472759003246 HIGH motif; other site 472759003247 nucleotide binding site [chemical binding]; other site 472759003248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759003249 MatE; Region: MatE; cl10513 472759003250 MatE; Region: MatE; cl10513 472759003251 MatE; Region: MatE; cl10513 472759003252 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 472759003253 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 472759003254 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 472759003255 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 472759003256 putative active site [active] 472759003257 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759003258 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 472759003259 putative ADP-binding pocket [chemical binding]; other site 472759003260 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 472759003261 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 472759003262 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 472759003263 NADP-binding site; other site 472759003264 homotetramer interface [polypeptide binding]; other site 472759003265 substrate binding site [chemical binding]; other site 472759003266 homodimer interface [polypeptide binding]; other site 472759003267 active site 472759003268 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 472759003269 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 472759003270 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 472759003271 NADP binding site [chemical binding]; other site 472759003272 active site 472759003273 putative substrate binding site [chemical binding]; other site 472759003274 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 472759003275 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 472759003276 SLBB domain; Region: SLBB; pfam10531 472759003277 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 472759003278 Bacterial sugar transferase; Region: Bac_transf; cl00939 472759003279 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 472759003280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759003281 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 472759003282 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 472759003283 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as...; Region: OYE_like_FMN_family; cd02803 472759003284 active site 472759003285 FMN binding site [chemical binding]; other site 472759003286 substrate binding site [chemical binding]; other site 472759003287 putative catalytic residue [active] 472759003288 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 472759003289 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 472759003290 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 472759003291 active site 472759003292 nucleophile elbow; other site 472759003293 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 472759003294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759003295 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 472759003296 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 472759003297 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 472759003298 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 472759003299 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 472759003300 putative active site; other site 472759003301 catalytic residue [active] 472759003302 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 472759003303 Acylphosphatase; Region: Acylphosphatase; cl00551 472759003304 HypF finger; Region: zf-HYPF; pfam07503 472759003305 HypF finger; Region: zf-HYPF; pfam07503 472759003306 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 472759003307 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 472759003308 Malic enzyme, N-terminal domain; Region: malic; pfam00390 472759003309 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 472759003310 putative NAD(P) binding site [chemical binding]; other site 472759003311 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 472759003312 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 472759003313 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 472759003314 active site 472759003315 nucleophile elbow; other site 472759003316 Hydrogenase expression/synthesis hypA family; Region: HypA; cl00418 472759003317 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 472759003318 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 472759003319 HupF/HypC family; Region: HupF_HypC; cl00394 472759003320 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 472759003321 dimer interface [polypeptide binding]; other site 472759003322 active site 472759003323 Hydrogenase formation hypA family; Region: HypD; cl12072 472759003324 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 472759003325 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 472759003326 dimerization interface [polypeptide binding]; other site 472759003327 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 472759003328 ATP binding site [chemical binding]; other site 472759003329 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 472759003330 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 472759003331 DNA binding residues [nucleotide binding] 472759003332 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 472759003333 catalytic residues [active] 472759003334 catalytic nucleophile [active] 472759003335 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 472759003336 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759003337 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 472759003338 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 472759003339 catalytic core [active] 472759003340 Y-family of DNA polymerases; Region: PolY; cl12025 472759003341 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 472759003342 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 472759003343 putative active site [active] 472759003344 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 472759003345 FAD/NAD binding domain (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_like; cd06192 472759003346 FAD binding pocket [chemical binding]; other site 472759003347 FAD binding motif [chemical binding]; other site 472759003348 phosphate binding motif [ion binding]; other site 472759003349 beta-alpha-beta structure motif; other site 472759003350 NAD binding pocket [chemical binding]; other site 472759003351 Iron coordination center [ion binding]; other site 472759003352 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 472759003353 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 472759003354 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 472759003355 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 472759003356 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 possess a conserved ATPase activity that...; Region: ABC_MutS_homologs; cd03243 472759003357 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 472759003358 Walker A/P-loop; other site 472759003359 ATP binding site [chemical binding]; other site 472759003360 Q-loop/lid; other site 472759003361 ABC transporter signature motif; other site 472759003362 Walker B; other site 472759003363 D-loop; other site 472759003364 H-loop/switch region; other site 472759003365 Ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal...; Region: FNR_like_1; cd06196 472759003366 FAD binding pocket [chemical binding]; other site 472759003367 FAD binding motif [chemical binding]; other site 472759003368 phosphate binding motif [ion binding]; other site 472759003369 beta-alpha-beta structure motif; other site 472759003370 NAD binding pocket [chemical binding]; other site 472759003371 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 472759003372 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 472759003373 metal binding site [ion binding]; metal-binding site 472759003374 dimer interface [polypeptide binding]; other site 472759003375 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 472759003376 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 472759003377 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 472759003378 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 472759003379 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 472759003380 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 472759003381 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 472759003382 classical (c) SDRs; Region: SDR_c; cd05233 472759003383 NAD(P) binding site [chemical binding]; other site 472759003384 active site 472759003385 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 472759003386 Found in ATP-dependent protease La (LON); Region: LON; smart00464 472759003387 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...; Region: AAA; cd00009 472759003388 Walker A motif; other site 472759003389 ATP binding site [chemical binding]; other site 472759003390 Walker B motif; other site 472759003391 arginine finger; other site 472759003392 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 472759003393 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...; Region: ACD_sHsps-like; cd06464 472759003394 putative dimer interface [polypeptide binding]; other site 472759003395 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 472759003396 putative active site [active] 472759003397 putative dimer interface [polypeptide binding]; other site 472759003398 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 472759003399 homodecamer interface [polypeptide binding]; other site 472759003400 GTP cyclohydrolase I; Provisional; Region: PLN03044 472759003401 active site 472759003402 putative catalytic site residues [active] 472759003403 zinc binding site [ion binding]; other site 472759003404 GTP-CH-I/GFRP interaction surface; other site 472759003405 transcriptional regulator PhoU; Provisional; Region: PRK11115 472759003406 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 472759003407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759003408 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...; Region: HNHc; cd00085 472759003409 active site 472759003410 S-adenosylmethionine synthetase; Validated; Region: PRK05250 472759003411 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 472759003412 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 472759003413 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 472759003414 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 472759003415 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 472759003416 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 472759003417 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; cl11391 472759003418 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 472759003419 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; cl12011 472759003420 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 472759003421 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 472759003422 dimer interface [polypeptide binding]; other site 472759003423 substrate binding site [chemical binding]; other site 472759003424 ATP binding site [chemical binding]; other site 472759003425 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 472759003426 MoaE interaction surface [polypeptide binding]; other site 472759003427 MoeB interaction surface [polypeptide binding]; other site 472759003428 thiocarboxylated glycine; other site 472759003429 molybdopterin biosynthesis protein MoeB; Validated; Region: PRK08762 472759003430 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 472759003431 active site residue [active] 472759003432 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...; Region: ThiF_MoeB_HesA_family; cd00757 472759003433 ATP binding site [chemical binding]; other site 472759003434 substrate interface [chemical binding]; other site 472759003435 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 472759003436 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 472759003437 PYR/PP interface [polypeptide binding]; other site 472759003438 dimer interface [polypeptide binding]; other site 472759003439 TPP binding site [chemical binding]; other site 472759003440 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 472759003441 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin...; Region: TPP_enzymes; cd00568 472759003442 TPP-binding site [chemical binding]; other site 472759003443 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 472759003444 active site 472759003445 oxalacetate binding site [chemical binding]; other site 472759003446 citrylCoA binding site [chemical binding]; other site 472759003447 coenzyme A binding site [chemical binding]; other site 472759003448 catalytic triad [active] 472759003449 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 472759003450 citrylCoA binding site [chemical binding]; other site 472759003451 oxalacetate binding site [chemical binding]; other site 472759003452 coenzyme A binding site [chemical binding]; other site 472759003453 catalytic triad [active] 472759003454 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 472759003455 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 472759003456 N-terminal plug; other site 472759003457 ligand-binding site [chemical binding]; other site 472759003458 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 472759003459 classical (c) SDRs; Region: SDR_c; cd05233 472759003460 NAD(P) binding site [chemical binding]; other site 472759003461 active site 472759003462 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 472759003463 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 connected by an extended linker. The...; Region: HAMP; cl01054 472759003464 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 trans-...; Region: HisKA; cd00082 472759003465 dimer interface [polypeptide binding]; other site 472759003466 phosphorylation site [posttranslational modification] 472759003467 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 472759003468 ATP binding site [chemical binding]; other site 472759003469 Mg2+ binding site [ion binding]; other site 472759003470 G-X-G motif; other site 472759003471 Response regulator receiver domain; Region: Response_reg; pfam00072 472759003472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759003473 active site 472759003474 phosphorylation site [posttranslational modification] 472759003475 intermolecular recognition site; other site 472759003476 dimerization interface [polypeptide binding]; other site 472759003477 Response regulator receiver domain; Region: Response_reg; pfam00072 472759003478 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759003479 active site 472759003480 phosphorylation site [posttranslational modification] 472759003481 intermolecular recognition site; other site 472759003482 dimerization interface [polypeptide binding]; other site 472759003483 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 472759003484 putative binding surface; other site 472759003485 active site 472759003486 Response regulator receiver domain; Region: Response_reg; pfam00072 472759003487 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759003488 active site 472759003489 phosphorylation site [posttranslational modification] 472759003490 intermolecular recognition site; other site 472759003491 dimerization interface [polypeptide binding]; other site 472759003492 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759003493 metal binding site [ion binding]; metal-binding site 472759003494 active site 472759003495 I-site; other site 472759003496 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 472759003497 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 472759003498 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 472759003499 FtsX-like permease family; Region: FtsX; pfam02687 472759003500 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 472759003501 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 472759003502 Walker A/P-loop; other site 472759003503 ATP binding site [chemical binding]; other site 472759003504 Q-loop/lid; other site 472759003505 ABC transporter signature motif; other site 472759003506 Walker B; other site 472759003507 D-loop; other site 472759003508 H-loop/switch region; other site 472759003509 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 472759003510 nucleoside/Zn binding site; other site 472759003511 dimer interface [polypeptide binding]; other site 472759003512 catalytic motif [active] 472759003513 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 472759003514 FAD binding domain; Region: FAD_binding_4; pfam01565 472759003515 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 472759003516 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 472759003517 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 472759003518 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 472759003519 TPR motif; other site 472759003520 binding surface 472759003521 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 472759003522 binding surface 472759003523 TPR motif; other site 472759003524 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759003525 active site 472759003526 phosphorylation site [posttranslational modification] 472759003527 intermolecular recognition site; other site 472759003528 dimerization interface [polypeptide binding]; other site 472759003529 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 472759003530 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 472759003531 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 472759003532 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...; Region: AAA; cd00009 472759003533 Walker A motif; other site 472759003534 ATP binding site [chemical binding]; other site 472759003535 Walker B motif; other site 472759003536 arginine finger; other site 472759003537 SAF domain; Region: SAF; cl00555 472759003538 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 472759003539 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 472759003540 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 472759003541 TadE-like protein; Region: TadE; pfam07811 472759003542 TadE-like protein; Region: TadE; pfam07811 472759003543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cl09944 472759003544 active site 472759003545 phosphorylation site [posttranslational modification] 472759003546 intermolecular recognition site; other site 472759003547 dimerization interface [polypeptide binding]; other site 472759003548 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly...; Region: CpaE_like; cd03111 472759003549 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 472759003550 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly...; Region: CpaE_like; cd03111 472759003551 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 472759003552 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial...; Region: VirB11-like_ATPase; cd01130 472759003553 ATP binding site [chemical binding]; other site 472759003554 Walker A motif; other site 472759003555 hexamer interface [polypeptide binding]; other site 472759003556 Walker B motif; other site 472759003557 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 472759003558 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 472759003559 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 472759003560 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 472759003561 inhibitor-cofactor binding pocket; inhibition site 472759003562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759003563 catalytic residue [active] 472759003564 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 472759003565 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 472759003566 tetrameric interface [polypeptide binding]; other site 472759003567 NAD binding site [chemical binding]; other site 472759003568 catalytic residues [active] 472759003569 Indoleamine 2,3-dioxygenase; Region: IDO; pfam01231 472759003570 Late embryogenesis abundant protein; Region: LEA_2; cl12118 472759003571 Protein of unknown function (DUF1458); Region: DUF1458; cl01328 472759003572 Ferritin-like domain; Region: Ferritin; pfam00210 472759003573 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 472759003574 dinuclear metal binding motif [ion binding]; other site 472759003575 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 472759003576 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 472759003577 FeS/SAM binding site; other site 472759003578 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 472759003579 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 472759003580 Proline dehydrogenase; Region: Pro_dh; cl03282 472759003581 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 472759003582 Glutamate binding site [chemical binding]; other site 472759003583 NAD binding site [chemical binding]; other site 472759003584 catalytic residues [active] 472759003585 Response regulator receiver domain; Region: Response_reg; pfam00072 472759003586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759003587 active site 472759003588 phosphorylation site [posttranslational modification] 472759003589 intermolecular recognition site; other site 472759003590 dimerization interface [polypeptide binding]; other site 472759003591 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 472759003592 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 472759003593 putative active site [active] 472759003594 heme pocket [chemical binding]; other site 472759003595 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 trans-...; Region: HisKA; cd00082 472759003596 dimer interface [polypeptide binding]; other site 472759003597 phosphorylation site [posttranslational modification] 472759003598 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 472759003599 ATP binding site [chemical binding]; other site 472759003600 Mg2+ binding site [ion binding]; other site 472759003601 G-X-G motif; other site 472759003602 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 472759003603 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 472759003604 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 472759003605 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 472759003606 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...; Region: Sigma70_r4; cd06171 472759003607 DNA binding residues [nucleotide binding] 472759003608 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 472759003609 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759003610 active site 472759003611 phosphorylation site [posttranslational modification] 472759003612 intermolecular recognition site; other site 472759003613 dimerization interface [polypeptide binding]; other site 472759003614 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 472759003615 DNA binding residues [nucleotide binding] 472759003616 dimerization interface [polypeptide binding]; other site 472759003617 Response regulator receiver domain; Region: Response_reg; pfam00072 472759003618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759003619 active site 472759003620 phosphorylation site [posttranslational modification] 472759003621 intermolecular recognition site; other site 472759003622 dimerization interface [polypeptide binding]; other site 472759003623 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 472759003624 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 472759003625 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 472759003626 putative active site [active] 472759003627 heme pocket [chemical binding]; other site 472759003628 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 trans-...; Region: HisKA; cd00082 472759003629 dimer interface [polypeptide binding]; other site 472759003630 phosphorylation site [posttranslational modification] 472759003631 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 472759003632 ATP binding site [chemical binding]; other site 472759003633 Mg2+ binding site [ion binding]; other site 472759003634 G-X-G motif; other site 472759003635 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 472759003636 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 472759003637 N- and C-terminal domain interface [polypeptide binding]; other site 472759003638 D-xylulose kinase; Region: XylB; TIGR01312 472759003639 active site 472759003640 MgATP binding site [chemical binding]; other site 472759003641 catalytic site [active] 472759003642 metal binding site [ion binding]; metal-binding site 472759003643 carbohydrate binding site [chemical binding]; other site 472759003644 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 472759003645 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 472759003646 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 472759003647 Walker A/P-loop; other site 472759003648 ATP binding site [chemical binding]; other site 472759003649 Q-loop/lid; other site 472759003650 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 472759003651 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 472759003652 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 472759003653 ABC transporter signature motif; other site 472759003654 Walker B; other site 472759003655 D-loop; other site 472759003656 H-loop/switch region; other site 472759003657 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 472759003658 FtsZ protein binding site [polypeptide binding]; other site 472759003659 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 472759003660 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 472759003661 nucleotide binding pocket [chemical binding]; other site 472759003662 K-X-D-G motif; other site 472759003663 catalytic site [active] 472759003664 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 472759003665 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 472759003666 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/...; Region: BRCT; cd00027 472759003667 Dimer interface [polypeptide binding]; other site 472759003668 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 472759003669 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 472759003670 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 472759003671 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 472759003672 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 472759003673 Protein of unknown function (DUF1134); Region: DUF1134; cl02235 472759003674 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 472759003675 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...; Region: ABCF_EF-3; cd03221 472759003676 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759003677 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...; Region: ABCF_EF-3; cd03221 472759003678 ABC transporter; Region: ABC_tran_2; pfam12848 472759003679 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...; Region: ABCF_EF-3; cd03221 472759003680 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_1; cd08581 472759003681 putative active site [active] 472759003682 catalytic site [active] 472759003683 putative metal binding site [ion binding]; other site 472759003684 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 472759003685 PAS fold; Region: PAS_4; pfam08448 472759003686 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 472759003687 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 472759003688 putative active site [active] 472759003689 heme pocket [chemical binding]; other site 472759003690 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 trans-...; Region: HisKA; cl00080 472759003691 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 472759003692 ATP binding site [chemical binding]; other site 472759003693 Mg2+ binding site [ion binding]; other site 472759003694 G-X-G motif; other site 472759003695 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 472759003696 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 472759003697 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 472759003698 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...; Region: AAA; cd00009 472759003699 Walker A motif; other site 472759003700 ATP binding site [chemical binding]; other site 472759003701 Walker B motif; other site 472759003702 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 472759003703 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759003704 Protein of unknown function (DUF2283); Region: DUF2283; cl02251 472759003705 Phd_YefM; Region: PhdYeFM; cl09153 472759003706 RF-1 domain; Region: RF-1; cl02875 472759003707 Protein of unknown function (DUF833); Region: DUF833; cl01315 472759003708 Domain of unknown function DUF87; Region: DUF87; pfam01935 472759003709 AAA-like domain; Region: AAA_10; pfam12846 472759003710 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 472759003711 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 472759003712 putative substrate binding site [chemical binding]; other site 472759003713 nucleotide binding site [chemical binding]; other site 472759003714 nucleotide binding site [chemical binding]; other site 472759003715 homodimer interface [polypeptide binding]; other site 472759003716 Predicted GTPase [General function prediction only]; Region: COG2403 472759003717 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 472759003718 aconitate hydratase; Validated; Region: PRK07229 472759003719 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 472759003720 substrate binding site [chemical binding]; other site 472759003721 ligand binding site [chemical binding]; other site 472759003722 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 472759003723 substrate binding site [chemical binding]; other site 472759003724 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 472759003725 active site flap/lid [active] 472759003726 nucleophilic elbow; other site 472759003727 catalytic triad [active] 472759003728 Flavin Reductases; Region: FlaRed; cl00801 472759003729 Phd_YefM; Region: PhdYeFM; cl09153 472759003730 Transposase, Mutator family; Region: Transposase_mut; pfam00872 472759003731 MULE transposase domain; Region: MULE; pfam10551 472759003732 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 472759003733 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 472759003734 TIR domain; Region: TIR; cl02060 472759003735 WbqC-like protein family; Region: WbqC; pfam08889 472759003736 EcsC protein family; Region: EcsC; pfam12787 472759003737 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 472759003738 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 472759003739 Putative ATPase (DUF699); Region: DUF699; pfam05127 472759003740 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 472759003741 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 472759003742 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 472759003743 ligand binding site [chemical binding]; other site 472759003744 oligomer interface [polypeptide binding]; other site 472759003745 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and rate-...; Region: LbH_G1P_AT_C; cd04651 472759003746 dimer interface [polypeptide binding]; other site 472759003747 N-terminal domain interface [polypeptide binding]; other site 472759003748 sulfate 1 binding site; other site 472759003749 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 472759003750 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 472759003751 putative active site [active] 472759003752 putative metal binding site [ion binding]; other site 472759003753 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 472759003754 Sel1 repeat; Region: Sel1; cl02723 472759003755 Sel1 repeat; Region: Sel1; cl02723 472759003756 Sel1 repeat; Region: Sel1; cl02723 472759003757 Sel1 repeat; Region: Sel1; cl02723 472759003758 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 472759003759 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 472759003760 proposed active site lysine [active] 472759003761 conserved cys residue [active] 472759003762 OsmC-like protein; Region: OsmC; cl00767 472759003763 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 472759003764 active site 472759003765 metal binding site [ion binding]; metal-binding site 472759003766 NAD-dependent deacetylase; Provisional; Region: PRK05333 472759003767 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/...; Region: SIRT4; cd01409 472759003768 NAD+ binding site [chemical binding]; other site 472759003769 substrate binding site [chemical binding]; other site 472759003770 Zn binding site [ion binding]; other site 472759003771 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 472759003772 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 472759003773 DXD motif; other site 472759003774 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 472759003775 VacJ like lipoprotein; Region: VacJ; cl01073 472759003776 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 472759003777 multicopper oxidase; Provisional; Region: PRK10965 472759003778 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759003779 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 472759003780 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...; Region: AAA; cd00009 472759003781 Walker A motif; other site 472759003782 ATP binding site [chemical binding]; other site 472759003783 Walker B motif; other site 472759003784 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 472759003785 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 472759003786 FMN binding site [chemical binding]; other site 472759003787 active site 472759003788 substrate binding site [chemical binding]; other site 472759003789 catalytic residue [active] 472759003790 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 472759003791 N-acetyl-D-glucosamine binding site [chemical binding]; other site 472759003792 catalytic residue [active] 472759003793 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 472759003794 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 472759003795 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 472759003796 YcjX-like family, DUF463; Region: DUF463; cl01193 472759003797 Domain of unknown function (DUF697); Region: DUF697; cl12064 472759003798 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 472759003799 Uncharacterised protein family (UPF0182); Region: UPF0182; pfam03699 472759003800 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 472759003801 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 472759003802 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 472759003803 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 472759003804 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 472759003805 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 472759003806 FAD binding pocket [chemical binding]; other site 472759003807 FAD binding motif [chemical binding]; other site 472759003808 phosphate binding motif [ion binding]; other site 472759003809 beta-alpha-beta structure motif; other site 472759003810 NAD binding pocket [chemical binding]; other site 472759003811 Iron coordination center [ion binding]; other site 472759003812 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 472759003813 Integrase core domain; Region: rve; cl01316 472759003814 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 472759003815 Transposase, Mutator family; Region: Transposase_mut; pfam00872 472759003816 MULE transposase domain; Region: MULE; pfam10551 472759003817 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 472759003818 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759003819 active site 472759003820 phosphorylation site [posttranslational modification] 472759003821 intermolecular recognition site; other site 472759003822 dimerization interface [polypeptide binding]; other site 472759003823 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 472759003824 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759003825 active site 472759003826 phosphorylation site [posttranslational modification] 472759003827 intermolecular recognition site; other site 472759003828 dimerization interface [polypeptide binding]; other site 472759003829 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 472759003830 DNA binding residues [nucleotide binding] 472759003831 dimerization interface [polypeptide binding]; other site 472759003832 Immunoglobulin-like domain of bacterial spore germination; Region: Gmad2; pfam10648 472759003833 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 472759003834 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 472759003835 Cytochrome c; Region: Cytochrom_C; cl11414 472759003836 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...; Region: Heme_Cu_Oxidase_I; cl00275 472759003837 D-pathway; other site 472759003838 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...; Region: Heme_Cu_Oxidase_I; cl00275 472759003839 Binuclear center (active site) [active] 472759003840 K-pathway; other site 472759003841 Putative proton exit pathway; other site 472759003842 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...; Region: AAA; cd00009 472759003843 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 472759003844 Walker A motif; other site 472759003845 ATP binding site [chemical binding]; other site 472759003846 Walker B motif; other site 472759003847 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 472759003848 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 472759003849 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 472759003850 metal ion-dependent adhesion site (MIDAS); other site 472759003851 phosphoenolpyruvate synthase; Validated; Region: PRK06464 472759003852 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 472759003853 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 472759003854 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 472759003855 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 472759003856 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 472759003857 putative peptidoglycan binding site; other site 472759003858 Uncharacterized conserved protein (DUF2183); Region: DUF2183; cl02012 472759003859 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 472759003860 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 472759003861 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 472759003862 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 472759003863 Domain of unknown function DUF20; Region: UPF0118; cl00465 472759003864 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 472759003865 Sulfatase; Region: Sulfatase; cl10460 472759003866 2,3-bisphosphoglycerate-independent phosphoglycerate mutase, archaeal form; Region: apgM; TIGR00306 472759003867 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 472759003868 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 472759003869 putative substrate binding site [chemical binding]; other site 472759003870 putative ATP binding site [chemical binding]; other site 472759003871 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 472759003872 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759003873 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759003874 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading...; Region: EFh; cd00051 472759003875 Ca2+ binding site [ion binding]; other site 472759003876 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 472759003877 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading...; Region: EFh; cl09501 472759003878 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 472759003879 putative active site [active] 472759003880 transaldolase; Provisional; Region: PRK03903 472759003881 catalytic residue [active] 472759003882 transketolase; Reviewed; Region: PRK05899 472759003883 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 472759003884 TPP-binding site [chemical binding]; other site 472759003885 dimer interface [polypeptide binding]; other site 472759003886 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 472759003887 PYR/PP interface [polypeptide binding]; other site 472759003888 dimer interface [polypeptide binding]; other site 472759003889 TPP binding site [chemical binding]; other site 472759003890 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 472759003891 PAP2_like_2 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_2; cd03392 472759003892 active site 472759003893 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 472759003894 catalytic triad [active] 472759003895 metal binding site [ion binding]; metal-binding site 472759003896 conserved cis-peptide bond; other site 472759003897 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...; Region: Tryp_SPc; cl00149 472759003898 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 C-...; Region: PDZ_serine_protease; cd00987 472759003899 FtsH Extracellular; Region: FtsH_ext; pfam06480 472759003900 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 472759003901 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759003902 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...; Region: AAA; cd00009 472759003903 Walker A motif; other site 472759003904 ATP binding site [chemical binding]; other site 472759003905 Walker B motif; other site 472759003906 arginine finger; other site 472759003907 Peptidase family M41; Region: Peptidase_M41; pfam01434 472759003908 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...; Region: AAA; cd00009 472759003909 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 472759003910 Walker A motif; other site 472759003911 ATP binding site [chemical binding]; other site 472759003912 Walker B motif; other site 472759003913 arginine finger; other site 472759003914 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 472759003915 CsbD-like; Region: CsbD; cl01272 472759003916 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...; Region: PRCH; cl09959 472759003917 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 472759003918 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 472759003919 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 472759003920 Probable transposase; Region: OrfB_IS605; pfam01385 472759003921 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759003922 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 472759003923 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759003924 active site 472759003925 phosphorylation site [posttranslational modification] 472759003926 intermolecular recognition site; other site 472759003927 dimerization interface [polypeptide binding]; other site 472759003928 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 472759003929 DNA binding residues [nucleotide binding] 472759003930 dimerization interface [polypeptide binding]; other site 472759003931 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 472759003932 catalytic motif [active] 472759003933 Catalytic residue [active] 472759003934 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...; Region: PRCH; cl09959 472759003935 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading...; Region: EFh; cd00051 472759003936 Ca2+ binding site [ion binding]; other site 472759003937 BON domain; Region: BON; cl02771 472759003938 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 472759003939 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 472759003940 Walker A/P-loop; other site 472759003941 ATP binding site [chemical binding]; other site 472759003942 Q-loop/lid; other site 472759003943 ABC transporter signature motif; other site 472759003944 Walker B; other site 472759003945 D-loop; other site 472759003946 H-loop/switch region; other site 472759003947 TOBE domain; Region: TOBE_2; cl01440 472759003948 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 472759003949 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...; Region: TM_PBP2; cd06261 472759003950 dimer interface [polypeptide binding]; other site 472759003951 conserved gate region; other site 472759003952 ABC-ATPase subunit interface; other site 472759003953 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 472759003954 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...; Region: TM_PBP2; cd06261 472759003955 dimer interface [polypeptide binding]; other site 472759003956 conserved gate region; other site 472759003957 putative PBP binding loops; other site 472759003958 ABC-ATPase subunit interface; other site 472759003959 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 472759003960 ATP cone domain; Region: ATP-cone; pfam03477 472759003961 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 472759003962 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...; Region: Hint; cd00081 472759003963 thioester formation/cholesterol transfer; other site 472759003964 protein-splicing catalytic site; other site 472759003965 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 472759003966 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; cl09966 472759003967 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 472759003968 LysR family transcriptional regulator; Provisional; Region: PRK14997 472759003969 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759003970 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 472759003971 putative effector binding pocket; other site 472759003972 dimerization interface [polypeptide binding]; other site 472759003973 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 472759003974 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 472759003975 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 472759003976 [4Fe-4S] binding site [ion binding]; other site 472759003977 molybdopterin cofactor binding site; other site 472759003978 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 472759003979 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 472759003980 molybdopterin cofactor binding site; other site 472759003981 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 472759003982 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 472759003983 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 alpha-; Region: HCP_like; cl14655 472759003984 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 472759003985 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 472759003986 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 472759003987 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 472759003988 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 472759003989 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-...; Region: HprK_C; cd01918 472759003990 active site 472759003991 hypothetical protein; Provisional; Region: PRK10279 472759003992 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 472759003993 nucleophile elbow; other site 472759003994 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 472759003995 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 472759003996 putative active site [active] 472759003997 putative active site [active] 472759003998 catalytic site [active] 472759003999 catalytic site [active] 472759004000 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 472759004001 putative active site [active] 472759004002 catalytic site [active] 472759004003 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 472759004004 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 472759004005 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...; Region: AAA; cd00009 472759004006 Walker A motif; other site 472759004007 ATP binding site [chemical binding]; other site 472759004008 Walker B motif; other site 472759004009 arginine finger; other site 472759004010 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 472759004011 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 472759004012 catalytic residues [active] 472759004013 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 472759004014 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 472759004015 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 472759004016 Adenylation domain of RNA circularization proteins; Region: Adenylation_RNA_ligase; cd07894 472759004017 active site 472759004018 dimer interface [polypeptide binding]; other site 472759004019 UPF0278 family; Region: UPF0278; cl00637 472759004020 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 472759004021 30S subunit binding site; other site 472759004022 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 472759004023 DNA-binding site [nucleotide binding]; DNA binding site 472759004024 RNA-binding motif; other site 472759004025 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 472759004026 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 472759004027 Protein of unknown function, DUF599; Region: DUF599; cl01575 472759004028 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 472759004029 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 472759004030 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 472759004031 Outer membrane efflux protein; Region: OEP; pfam02321 472759004032 Outer membrane efflux protein; Region: OEP; pfam02321 472759004033 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 472759004034 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 472759004035 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 472759004036 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 472759004037 Cytochrome c; Region: Cytochrom_C; cl11414 472759004038 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 472759004039 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 472759004040 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 472759004041 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 472759004042 FAD binding pocket [chemical binding]; other site 472759004043 FAD binding motif [chemical binding]; other site 472759004044 phosphate binding motif [ion binding]; other site 472759004045 beta-alpha-beta structure motif; other site 472759004046 NAD binding pocket [chemical binding]; other site 472759004047 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 472759004048 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 472759004049 DNA binding residues [nucleotide binding] 472759004050 dimer interface [polypeptide binding]; other site 472759004051 metal binding site [ion binding]; metal-binding site 472759004052 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 472759004053 NHL repeat; Region: NHL; pfam01436 472759004054 Uncharacterized conserved protein [Function unknown]; Region: COG3391 472759004055 NHL repeat; Region: NHL; pfam01436 472759004056 NHL repeat; Region: NHL; pfam01436 472759004057 NHL repeat; Region: NHL; pfam01436 472759004058 Transposase IS200 like; Region: Y1_Tnp; cl00848 472759004059 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 472759004060 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 472759004061 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 472759004062 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 472759004063 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 472759004064 Outer membrane efflux protein; Region: OEP; pfam02321 472759004065 Outer membrane efflux protein; Region: OEP; pfam02321 472759004066 putative mercuric reductase; Provisional; Region: PRK13748 472759004067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759004068 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 472759004069 Membrane transport protein MerF; Region: Transport_MerF; pfam11431 472759004070 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 472759004071 metal-binding site [ion binding] 472759004072 MerT mercuric transport protein; Region: MerT; cl03578 472759004073 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 472759004074 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 472759004075 DNA binding residues [nucleotide binding] 472759004076 dimer interface [polypeptide binding]; other site 472759004077 putative metal binding site [ion binding]; other site 472759004078 Uncharacterised BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 472759004079 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 472759004080 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 472759004081 Cation efflux family; Region: Cation_efflux; cl00316 472759004082 Outer membrane efflux protein; Region: OEP; pfam02321 472759004083 Outer membrane efflux protein; Region: OEP; pfam02321 472759004084 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 472759004085 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 472759004086 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 472759004087 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759004088 hypothetical protein; Provisional; Region: PRK09272 472759004089 MBOAT family; Region: MBOAT; cl00738 472759004090 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 472759004091 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 472759004092 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; cl11391 472759004093 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 472759004094 putative peptidoglycan binding site; other site 472759004095 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759004096 Trehalose phosphorylase (TP) reversibly catalyzes trehalose synthesis and degradation from alpha-glucose-1-phosphate (alpha-Glc-1-P) and glucose. The catalyzing activity includes the phosphorolysis of trehalose, which produce alpha-Glc-1-P and glucose...; Region: GT1_Trehalose_phosphorylase; cd03792 472759004097 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 472759004098 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 472759004099 Predicted membrane protein (DUF2078); Region: DUF2078; cl01373 472759004100 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; cl15259 472759004101 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 472759004102 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 472759004103 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 472759004104 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 trans-...; Region: HisKA; cl00080 472759004105 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 472759004106 ATP binding site [chemical binding]; other site 472759004107 G-X-G motif; other site 472759004108 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...; Region: HNHc; cd00085 472759004109 active site 472759004110 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 472759004111 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 472759004112 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 472759004113 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; cl11391 472759004114 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 472759004115 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 472759004116 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 472759004117 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 472759004118 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 472759004119 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 472759004120 Domain of unknown function DUF20; Region: UPF0118; cl00465 472759004121 CHASE2 domain; Region: CHASE2; cl01732 472759004122 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 472759004123 cyclase homology domain; Region: CHD; cd07302 472759004124 nucleotidyl binding site; other site 472759004125 metal binding site [ion binding]; metal-binding site 472759004126 dimer interface [polypeptide binding]; other site 472759004127 Domain of Unknown Function (DUF928); Region: DUF928; pfam06051 472759004128 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 472759004129 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 472759004130 ligand binding site [chemical binding]; other site 472759004131 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 472759004132 Sel1 repeat; Region: Sel1; cl02723 472759004133 Sel1 repeat; Region: Sel1; cl02723 472759004134 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 472759004135 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 472759004136 Phosphate-starvation-inducible E; Region: PsiE; cl01264 472759004137 Hemin uptake protein hemP; Region: hemP; cl10043 472759004138 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 472759004139 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 472759004140 N-terminal plug; other site 472759004141 ligand-binding site [chemical binding]; other site 472759004142 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 472759004143 Lysozyme family protein [General function prediction only]; Region: COG5526 472759004144 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759004145 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 472759004146 Walker A/P-loop; other site 472759004147 ATP binding site [chemical binding]; other site 472759004148 Q-loop/lid; other site 472759004149 ABC transporter signature motif; other site 472759004150 Walker B; other site 472759004151 D-loop; other site 472759004152 H-loop/switch region; other site 472759004153 Uncharacterised protein family (UPF0014); Region: UPF0014; cl00424 472759004154 Protein of unknown function (DUF433); Region: DUF433; cl01030 472759004155 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 472759004156 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 472759004157 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 472759004158 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 472759004159 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759004160 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 472759004161 Peptidase family M48; Region: Peptidase_M48; cl12018 472759004162 Peptidase family M48; Region: Peptidase_M48; cl12018 472759004163 Outer membrane efflux protein; Region: OEP; pfam02321 472759004164 Outer membrane efflux protein; Region: OEP; pfam02321 472759004165 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 472759004166 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 472759004167 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 472759004168 hydrophobic ligand binding site; other site 472759004169 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 472759004170 O-methyltransferase; Region: Methyltransf_2; pfam00891 472759004171 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 472759004172 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 472759004173 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 472759004174 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 472759004175 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 472759004176 putative active site [active] 472759004177 catalytic site [active] 472759004178 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 472759004179 putative active site [active] 472759004180 catalytic site [active] 472759004181 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 472759004182 FAD binding domain; Region: FAD_binding_4; pfam01565 472759004183 Cytochrome c; Region: Cytochrom_C; cl11414 472759004184 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 472759004185 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 472759004186 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 472759004187 NAD(P) binding site [chemical binding]; other site 472759004188 catalytic residues [active] 472759004189 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 472759004190 putative active site [active] 472759004191 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 472759004192 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 472759004193 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 472759004194 putative active site [active] 472759004195 metal binding site [ion binding]; metal-binding site 472759004196 DoxX; Region: DoxX; cl00976 472759004197 Transcriptional regulator [Transcription]; Region: LysR; COG0583 472759004198 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759004199 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 472759004200 dimerization interface [polypeptide binding]; other site 472759004201 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 472759004202 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 472759004203 ChuX-like family; Region: DUF1008; cl01509 472759004204 ChuX-like family; Region: DUF1008; cl01509 472759004205 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 472759004206 S-adenosylmethionine binding site [chemical binding]; other site 472759004207 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 472759004208 Bacterial membrane flanked domain; Region: DUF304; cl01348 472759004209 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 472759004210 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 472759004211 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 472759004212 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 472759004213 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]; Region: COG3357 472759004214 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 472759004215 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; cl15259 472759004216 high affinity sulphate transporter 1; Region: sulP; TIGR00815 472759004217 Sulfate transporter family; Region: Sulfate_transp; cl00967 472759004218 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 472759004219 Cytochrome c; Region: Cytochrom_C; cl11414 472759004220 Iron permease FTR1 family; Region: FTR1; cl00475 472759004221 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 472759004222 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 472759004223 Walker A/P-loop; other site 472759004224 ATP binding site [chemical binding]; other site 472759004225 Q-loop/lid; other site 472759004226 ABC transporter signature motif; other site 472759004227 Walker B; other site 472759004228 D-loop; other site 472759004229 H-loop/switch region; other site 472759004230 MbtH-like protein; Region: MbtH; cl01279 472759004231 peptide synthase; Provisional; Region: PRK12467 472759004232 Condensation domain; Region: Condensation; cl09290 472759004233 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 472759004234 Phosphopantetheine attachment site; Region: PP-binding; cl09936 472759004235 Condensation domain; Region: Condensation; cl09290 472759004236 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 472759004237 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 472759004238 Condensation domain; Region: Condensation; cl09290 472759004239 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 472759004240 Phosphopantetheine attachment site; Region: PP-binding; cl09936 472759004241 Condensation domain; Region: Condensation; cl09290 472759004242 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 472759004243 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 472759004244 Phosphopantetheine attachment site; Region: PP-binding; cl09936 472759004245 peptide synthase; Provisional; Region: PRK12316 472759004246 Condensation domain; Region: Condensation; cl09290 472759004247 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 472759004248 Phosphopantetheine attachment site; Region: PP-binding; cl09936 472759004249 Condensation domain; Region: Condensation; cl09290 472759004250 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 472759004251 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 472759004252 Siderophore biosynthesis protein domain; Region: AlcB; cl11000 472759004253 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 472759004254 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 472759004255 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 472759004256 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 472759004257 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 472759004258 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 472759004259 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 472759004260 Secretin and TonB N terminus short domain; Region: STN; cl06624 472759004261 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 472759004262 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 472759004263 N-terminal plug; other site 472759004264 ligand-binding site [chemical binding]; other site 472759004265 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 472759004266 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 472759004267 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 472759004268 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 472759004269 Gram-negative bacterial tonB protein; Region: TonB; cl10048 472759004270 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 472759004271 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 472759004272 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 472759004273 Walker A/P-loop; other site 472759004274 ATP binding site [chemical binding]; other site 472759004275 Q-loop/lid; other site 472759004276 ABC transporter signature motif; other site 472759004277 Walker B; other site 472759004278 D-loop; other site 472759004279 H-loop/switch region; other site 472759004280 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 472759004281 ligand-binding site [chemical binding]; other site 472759004282 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...; Region: HNHc; cd00085 472759004283 active site 472759004284 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 472759004285 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 472759004286 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 472759004287 N-terminal plug; other site 472759004288 ligand-binding site [chemical binding]; other site 472759004289 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 472759004290 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 472759004291 N-terminal plug; other site 472759004292 ligand-binding site [chemical binding]; other site 472759004293 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 472759004294 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 472759004295 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; cl11391 472759004296 Cytochrome c [Energy production and conversion]; Region: COG3258 472759004297 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 472759004298 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 472759004299 active site 472759004300 metal binding site [ion binding]; metal-binding site 472759004301 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 472759004302 Domain of unknown function DUF29; Region: DUF29; pfam01724 472759004303 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 472759004304 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 472759004305 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 472759004306 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 472759004307 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 472759004308 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 472759004309 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 472759004310 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 472759004311 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 472759004312 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 472759004313 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 472759004314 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 472759004315 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 472759004316 Ligand Binding Site [chemical binding]; other site 472759004317 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 472759004318 Ligand Binding Site [chemical binding]; other site 472759004319 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...; Region: HNHc; cd00085 472759004320 active site 472759004321 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 472759004322 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 472759004323 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 472759004324 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 472759004325 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; cl11391 472759004326 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 472759004327 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 472759004328 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 472759004329 Domain of unknown function DUF20; Region: UPF0118; cl00465 472759004330 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 472759004331 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 472759004332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759004333 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 472759004334 Ligand Binding Site [chemical binding]; other site 472759004335 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 472759004336 Ligand Binding Site [chemical binding]; other site 472759004337 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 472759004338 Ligand Binding Site [chemical binding]; other site 472759004339 NnrS protein; Region: NnrS; cl01258 472759004340 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 472759004341 Ferritin-like domain; Region: Ferritin; pfam00210 472759004342 heme binding site [chemical binding]; other site 472759004343 ferroxidase pore; other site 472759004344 ferroxidase diiron center [ion binding]; other site 472759004345 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 472759004346 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 472759004347 putative substrate translocation pore; other site 472759004348 Domain of unknown function DUF20; Region: UPF0118; cl00465 472759004349 Integrase core domain; Region: rve; cl01316 472759004350 MbtH-like protein; Region: MbtH; cl01279 472759004351 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 472759004352 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 472759004353 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 472759004354 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 472759004355 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; cl11391 472759004356 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 472759004357 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 472759004358 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 472759004359 Domain of unknown function DUF20; Region: UPF0118; cl00465 472759004360 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 472759004361 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 472759004362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759004363 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 472759004364 Ligand Binding Site [chemical binding]; other site 472759004365 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 472759004366 Ligand Binding Site [chemical binding]; other site 472759004367 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 472759004368 Ligand Binding Site [chemical binding]; other site 472759004369 NnrS protein; Region: NnrS; cl01258 472759004370 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 472759004371 Ferritin-like domain; Region: Ferritin; pfam00210 472759004372 heme binding site [chemical binding]; other site 472759004373 ferroxidase pore; other site 472759004374 ferroxidase diiron center [ion binding]; other site 472759004375 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 472759004376 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 472759004377 putative substrate translocation pore; other site 472759004378 Domain of unknown function DUF20; Region: UPF0118; cl00465 472759004379 Integrase core domain; Region: rve; cl01316 472759004380 MbtH-like protein; Region: MbtH; cl01279 472759004381 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 472759004382 putative active site [active] 472759004383 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 472759004384 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 472759004385 putative active site [active] 472759004386 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 472759004387 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 472759004388 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 472759004389 MutS domain I; Region: MutS_I; pfam01624 472759004390 MutS domain II; Region: MutS_II; pfam05188 472759004391 MutS family domain IV; Region: MutS_IV; pfam05190 472759004392 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759004393 Walker A/P-loop; other site 472759004394 ATP binding site [chemical binding]; other site 472759004395 Q-loop/lid; other site 472759004396 ABC transporter signature motif; other site 472759004397 Walker B; other site 472759004398 D-loop; other site 472759004399 H-loop/switch region; other site 472759004400 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 472759004401 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 472759004402 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 472759004403 ATP binding site [chemical binding]; other site 472759004404 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 472759004405 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 472759004406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759004407 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 472759004408 active site 472759004409 metal binding site [ion binding]; metal-binding site 472759004410 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 472759004411 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 472759004412 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 472759004413 Peptidase M16C associated; Region: M16C_assoc; pfam08367 472759004414 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 472759004415 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 472759004416 motif II; other site 472759004417 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 472759004418 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 472759004419 dimerization interface [polypeptide binding]; other site 472759004420 domain crossover interface; other site 472759004421 redox-dependent activation switch; other site 472759004422 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 472759004423 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 472759004424 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 472759004425 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 472759004426 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759004427 Archease protein family (DUF101/UPF0211); Region: Archease; cl00606 472759004428 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...; Region: Hint; cl12032 472759004429 hypothetical protein; Reviewed; Region: PRK09588 472759004430 FOG: CBS domain [General function prediction only]; Region: COG0517 472759004431 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-...; Region: CBS_pair_9; cd04622 472759004432 Putative cyclase; Region: Cyclase; cl00814 472759004433 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the...; Region: mcbC-like_oxidoreductase; cd02142 472759004434 putative FMN binding site [chemical binding]; other site 472759004435 NADPH bind site [chemical binding]; other site 472759004436 CheB methylesterase; Region: CheB_methylest; pfam01339 472759004437 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 472759004438 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 472759004439 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; cl12011 472759004440 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 472759004441 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 472759004442 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 472759004443 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 trans-...; Region: HisKA; cl00080 472759004444 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 472759004445 ATP binding site [chemical binding]; other site 472759004446 Mg2+ binding site [ion binding]; other site 472759004447 G-X-G motif; other site 472759004448 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759004449 Response regulator receiver domain; Region: Response_reg; pfam00072 472759004450 active site 472759004451 phosphorylation site [posttranslational modification] 472759004452 intermolecular recognition site; other site 472759004453 dimerization interface [polypeptide binding]; other site 472759004454 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 472759004455 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759004456 active site 472759004457 phosphorylation site [posttranslational modification] 472759004458 intermolecular recognition site; other site 472759004459 dimerization interface [polypeptide binding]; other site 472759004460 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 472759004461 DNA binding residues [nucleotide binding] 472759004462 dimerization interface [polypeptide binding]; other site 472759004463 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 472759004464 anti sigma factor interaction site; other site 472759004465 regulatory phosphorylation site [posttranslational modification]; other site 472759004466 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 472759004467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759004468 oligomerization interface [polypeptide binding]; other site 472759004469 active site 472759004470 NAD+ binding site [chemical binding]; other site 472759004471 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 472759004472 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 472759004473 NHL repeat; Region: NHL; pfam01436 472759004474 NHL repeat; Region: NHL; pfam01436 472759004475 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 472759004476 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 472759004477 Transposase IS200 like; Region: Y1_Tnp; cl00848 472759004478 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 472759004479 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons...; Region: RT_like; cl02808 472759004480 Transposase, Mutator family; Region: Transposase_mut; pfam00872 472759004481 MULE transposase domain; Region: MULE; pfam10551 472759004482 ATP synthase; Region: ATP-synt; cl00365 472759004483 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 472759004484 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 472759004485 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759004486 Walker A motif; other site 472759004487 ATP binding site [chemical binding]; other site 472759004488 Walker B motif; other site 472759004489 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 472759004490 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 472759004491 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 472759004492 ATP synthase subunit C; Region: ATP-synt_C; cl00466 472759004493 ATP synthase A chain; Region: ATP-synt_A; cl00413 472759004494 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...; Region: Tryp_SPc; cl00149 472759004495 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 C-...; Region: PDZ_serine_protease; cd00987 472759004496 protein binding site [polypeptide binding]; other site 472759004497 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 472759004498 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759004499 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 472759004500 Walker A/P-loop; other site 472759004501 ATP binding site [chemical binding]; other site 472759004502 Q-loop/lid; other site 472759004503 ABC transporter signature motif; other site 472759004504 Walker B; other site 472759004505 D-loop; other site 472759004506 H-loop/switch region; other site 472759004507 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 472759004508 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 472759004509 putative active site [active] 472759004510 catalytic site [active] 472759004511 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 472759004512 putative active site [active] 472759004513 catalytic site [active] 472759004514 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 472759004515 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 472759004516 NAD(P) binding site [chemical binding]; other site 472759004517 catalytic residues [active] 472759004518 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 472759004519 YcfA-like protein; Region: YcfA; cl00752 472759004520 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 472759004521 HicB family; Region: HicB; pfam05534 472759004522 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading...; Region: EFh; cl09501 472759004523 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 472759004524 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 472759004525 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 472759004526 DNA binding site [nucleotide binding] 472759004527 Int/Topo IB signature motif; other site 472759004528 active site 472759004529 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759004530 Walker A motif; other site 472759004531 ATP binding site [chemical binding]; other site 472759004532 Walker B motif; other site 472759004533 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759004534 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 472759004535 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 472759004536 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 472759004537 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 472759004538 serine O-acetyltransferase; Region: cysE; TIGR01172 472759004539 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 L-...; Region: LbH_SAT; cd03354 472759004540 trimer interface [polypeptide binding]; other site 472759004541 active site 472759004542 substrate binding site [chemical binding]; other site 472759004543 CoA binding site [chemical binding]; other site 472759004544 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759004545 Rrf2 family protein; Region: rrf2_super; TIGR00738 472759004546 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 472759004547 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 472759004548 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 472759004549 catalytic residue [active] 472759004550 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 472759004551 YccA-like proteins; Region: YccA_like; cd10433 472759004552 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 472759004553 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 472759004554 DNA polymerase IV; Validated; Region: PRK01810 472759004555 Integrase core domain; Region: rve; cl01316 472759004556 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 472759004557 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 472759004558 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 472759004559 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 472759004560 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759004561 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 472759004562 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 472759004563 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 472759004564 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 472759004565 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 472759004566 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 472759004567 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 472759004568 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 472759004569 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 472759004570 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 472759004571 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 472759004572 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 472759004573 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 472759004574 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 472759004575 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 472759004576 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 472759004577 alpha subunit interaction interface [polypeptide binding]; other site 472759004578 Walker A motif; other site 472759004579 ATP binding site [chemical binding]; other site 472759004580 Walker B motif; other site 472759004581 inhibitor binding site; inhibition site 472759004582 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 472759004583 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 472759004584 nickel binding site [ion binding]; other site 472759004585 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 472759004586 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 472759004587 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 472759004588 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 472759004589 active site 472759004590 putative substrate binding region [chemical binding]; other site 472759004591 FOG: CBS domain [General function prediction only]; Region: COG0517 472759004592 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the metalloprotease peptidase M50. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a...; Region: CBS_pair_M50_like; cd04801 472759004593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 472759004594 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 472759004595 DNA binding site [nucleotide binding] 472759004596 catalytic residue [active] 472759004597 H2TH interface [polypeptide binding]; other site 472759004598 putative catalytic residues [active] 472759004599 hypothetical protein; Provisional; Region: PRK08609 472759004600 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 472759004601 active site 472759004602 primer binding site [nucleotide binding]; other site 472759004603 NTP binding site [chemical binding]; other site 472759004604 metal binding triad [ion binding]; metal-binding site 472759004605 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 472759004606 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 3-...; Region: IPMI_Swivel; cd01577 472759004607 substrate binding site [chemical binding]; other site 472759004608 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 472759004609 isocitrate dehydrogenase; Validated; Region: PRK06451 472759004610 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 472759004611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759004612 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 472759004613 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 472759004614 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 472759004615 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 472759004616 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 472759004617 PAP2_like_2 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_2; cd03392 472759004618 active site 472759004619 Probable transposase; Region: OrfB_IS605; pfam01385 472759004620 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759004621 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 472759004622 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 472759004623 dimerization interface 3.5A [polypeptide binding]; other site 472759004624 active site 472759004625 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 472759004626 active site 472759004627 tryptophan synthase, beta chain; Region: PLN02618 472759004628 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 472759004629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759004630 catalytic residue [active] 472759004631 tryptophan synthase; Region: PLN02591 472759004632 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...; Region: Tryptophan_synthase_alpha; cd04724 472759004633 substrate binding site [chemical binding]; other site 472759004634 active site 472759004635 catalytic residues [active] 472759004636 heterodimer interface [polypeptide binding]; other site 472759004637 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 472759004638 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 472759004639 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 472759004640 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 472759004641 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; cl12011 472759004642 Transcriptional regulators [Transcription]; Region: MarR; COG1846 472759004643 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759004644 Cupin domain; Region: Cupin_2; cl09118 472759004645 aspartate kinase; Validated; Region: PRK09181 472759004646 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 472759004647 putative catalytic residues [active] 472759004648 putative nucleotide binding site [chemical binding]; other site 472759004649 putative aspartate binding site [chemical binding]; other site 472759004650 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 472759004651 allosteric regulatory residue; other site 472759004652 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-...; Region: CBS_pair; cl09141 472759004653 PAS fold; Region: PAS_3; pfam08447 472759004654 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 472759004655 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 472759004656 PAS fold; Region: PAS_4; pfam08448 472759004657 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 472759004658 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 472759004659 putative active site [active] 472759004660 heme pocket [chemical binding]; other site 472759004661 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 trans-...; Region: HisKA; cd00082 472759004662 dimer interface [polypeptide binding]; other site 472759004663 phosphorylation site [posttranslational modification] 472759004664 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 472759004665 ATP binding site [chemical binding]; other site 472759004666 Mg2+ binding site [ion binding]; other site 472759004667 G-X-G motif; other site 472759004668 Response regulator receiver domain; Region: Response_reg; pfam00072 472759004669 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759004670 active site 472759004671 phosphorylation site [posttranslational modification] 472759004672 intermolecular recognition site; other site 472759004673 dimerization interface [polypeptide binding]; other site 472759004674 exonuclease subunit SbcD; Provisional; Region: PRK10966 472759004675 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 472759004676 active site 472759004677 metal binding site [ion binding]; metal-binding site 472759004678 DNA binding site [nucleotide binding] 472759004679 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 472759004680 exonuclease subunit SbcC; Provisional; Region: PRK10246 472759004681 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759004682 Walker A/P-loop; other site 472759004683 ATP binding site [chemical binding]; other site 472759004684 Q-loop/lid; other site 472759004685 exonuclease subunit SbcC; Provisional; Region: PRK10246 472759004686 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759004687 ABC transporter signature motif; other site 472759004688 Walker B; other site 472759004689 D-loop; other site 472759004690 H-loop/switch region; other site 472759004691 HsdM N-terminal domain; Region: HsdM_N; pfam12161 472759004692 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 472759004693 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; cl12011 472759004694 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 472759004695 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 472759004696 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 472759004697 Fic family protein [Function unknown]; Region: COG3177 472759004698 Fic/DOC family; Region: Fic; cl00960 472759004699 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 472759004700 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 472759004701 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 472759004702 putative active site [active] 472759004703 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759004704 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 472759004705 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 472759004706 Transposase; Region: DEDD_Tnp_IS110; pfam01548 472759004707 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 472759004708 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 472759004709 Transposase IS200 like; Region: Y1_Tnp; cl00848 472759004710 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759004711 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759004712 Probable transposase; Region: OrfB_IS605; pfam01385 472759004713 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759004714 Integrase core domain; Region: rve; cl01316 472759004715 Rdx family; Region: Rdx; cl01407 472759004716 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 472759004717 Protein of unknown function (DUF819); Region: DUF819; cl02317 472759004718 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 472759004719 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 472759004720 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 472759004721 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 472759004722 Protein of unknown function, DUF399; Region: DUF399; cl01139 472759004723 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 C-...; Region: PDZ_serine_protease; cd00987 472759004724 protein binding site [polypeptide binding]; other site 472759004725 Peptidase family M48; Region: Peptidase_M48; cl12018 472759004726 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 472759004727 TPR motif; other site 472759004728 binding surface 472759004729 Flagellin N-methylase; Region: FliB; cl00497 472759004730 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 472759004731 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759004732 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 472759004733 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 472759004734 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 higher-...; Region: HU_IHF; cl00257 472759004735 IHF dimer interface [polypeptide binding]; other site 472759004736 IHF - DNA interface [nucleotide binding]; other site 472759004737 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 472759004738 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 472759004739 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759004740 Walker A motif; other site 472759004741 ATP binding site [chemical binding]; other site 472759004742 Walker B motif; other site 472759004743 Membrane transport protein; Region: Mem_trans; cl09117 472759004744 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 472759004745 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 472759004746 putative MPT binding site; other site 472759004747 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 472759004748 DEAD_2; Region: DEAD_2; cl14887 472759004749 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759004750 Membrane transport protein; Region: Mem_trans; cl09117 472759004751 bile acid transporter; Region: bass; TIGR00841 472759004752 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 472759004753 putative active site [active] 472759004754 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 472759004755 SNF2 Helicase protein; Region: DUF3670; pfam12419 472759004756 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 472759004757 ATP binding site [chemical binding]; other site 472759004758 putative Mg++ binding site [ion binding]; other site 472759004759 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 472759004760 nucleotide binding region [chemical binding]; other site 472759004761 ATP-binding site [chemical binding]; other site 472759004762 Uncharacterized conserved protein [Function unknown]; Region: COG4279 472759004763 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 472759004764 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the...; Region: mcbC-like_oxidoreductase; cd02142 472759004765 NADPH bind site [chemical binding]; other site 472759004766 putative FMN binding site [chemical binding]; other site 472759004767 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the...; Region: mcbC-like_oxidoreductase; cd02142 472759004768 putative FMN binding site [chemical binding]; other site 472759004769 Protein of unknown function (DUF989); Region: DUF989; pfam06181 472759004770 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 472759004771 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 472759004772 PAS fold; Region: PAS_4; pfam08448 472759004773 hypothetical protein; Provisional; Region: PRK13560 472759004774 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 472759004775 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 472759004776 putative active site [active] 472759004777 heme pocket [chemical binding]; other site 472759004778 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 trans-...; Region: HisKA; cd00082 472759004779 dimer interface [polypeptide binding]; other site 472759004780 phosphorylation site [posttranslational modification] 472759004781 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 472759004782 ATP binding site [chemical binding]; other site 472759004783 Mg2+ binding site [ion binding]; other site 472759004784 G-X-G motif; other site 472759004785 Response regulator receiver domain; Region: Response_reg; pfam00072 472759004786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759004787 active site 472759004788 phosphorylation site [posttranslational modification] 472759004789 intermolecular recognition site; other site 472759004790 dimerization interface [polypeptide binding]; other site 472759004791 Ycf46; Provisional; Region: ycf46; CHL00195 472759004792 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...; Region: AAA; cd00009 472759004793 Walker A motif; other site 472759004794 ATP binding site [chemical binding]; other site 472759004795 Walker B motif; other site 472759004796 arginine finger; other site 472759004797 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 472759004798 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 472759004799 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...; Region: TlpA_like_family; cd02966 472759004800 catalytic residues [active] 472759004801 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 472759004802 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 472759004803 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 472759004804 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_10; cd08865 472759004805 putative hydrophobic ligand binding site [chemical binding]; other site 472759004806 Domain of unknown function (DUF336); Region: DUF336; cl01249 472759004807 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 472759004808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 472759004809 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...; Region: DnaJ; cd06257 472759004810 HSP70 interaction site [polypeptide binding]; other site 472759004811 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 472759004812 metal ion-dependent adhesion site (MIDAS); other site 472759004813 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 472759004814 YcfA-like protein; Region: YcfA; cl00752 472759004815 Transposase IS200 like; Region: Y1_Tnp; cl00848 472759004816 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759004817 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 472759004818 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 472759004819 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 472759004820 putative NAD(P) binding site [chemical binding]; other site 472759004821 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 5,10-...; Region: DHFR; cl00161 472759004822 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 472759004823 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 472759004824 Protein of unknown function (DUF785); Region: DUF785; cl01682 472759004825 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759004826 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 472759004827 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 472759004828 active site 472759004829 Fe-S cluster binding site [ion binding]; other site 472759004830 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 472759004831 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 472759004832 M28, and M42; Region: Zinc_peptidase_like; cl14876 472759004833 metal binding site [ion binding]; metal-binding site 472759004834 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 472759004835 ferroxidase diiron center [ion binding]; other site 472759004836 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759004837 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 472759004838 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759004839 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 472759004840 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 472759004841 HIGH motif; other site 472759004842 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 472759004843 active site 472759004844 KMSKS motif; other site 472759004845 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 472759004846 tRNA binding surface [nucleotide binding]; other site 472759004847 anticodon binding site; other site 472759004848 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 472759004849 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 472759004850 putative acyl-acceptor binding pocket; other site 472759004851 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 472759004852 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 472759004853 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 472759004854 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 472759004855 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 472759004856 active site 472759004857 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 472759004858 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 472759004859 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 472759004860 dimer interface [polypeptide binding]; other site 472759004861 active site 472759004862 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 472759004863 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 472759004864 substrate binding site [chemical binding]; other site 472759004865 oxyanion hole (OAH) forming residues; other site 472759004866 trimer interface [polypeptide binding]; other site 472759004867 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 472759004868 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 472759004869 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 472759004870 Protein of unknown function (DUF3611); Region: DUF3611; pfam12263 472759004871 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759004872 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759004873 Probable transposase; Region: OrfB_IS605; pfam01385 472759004874 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759004875 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 472759004876 OstA-like protein; Region: OstA; cl00844 472759004877 Organic solvent tolerance protein; Region: OstA_C; pfam04453 472759004878 SurA N-terminal domain; Region: SurA_N; pfam09312 472759004879 PPIC-type PPIASE domain; Region: Rotamase; cl08278 472759004880 PPIC-type PPIASE domain; Region: Rotamase; cl08278 472759004881 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 472759004882 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 472759004883 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; cl12011 472759004884 Maf-like protein; Region: Maf; pfam02545 472759004885 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 472759004886 active site 472759004887 dimer interface [polypeptide binding]; other site 472759004888 pyruvate carboxylase subunit B; Validated; Region: PRK09282 472759004889 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 472759004890 active site 472759004891 catalytic residues [active] 472759004892 metal binding site [ion binding]; metal-binding site 472759004893 homodimer binding site [polypeptide binding]; other site 472759004894 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 472759004895 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 472759004896 carboxyltransferase (CT) interaction site; other site 472759004897 biotinylation site [posttranslational modification]; other site 472759004898 pyruvate carboxylase subunit A; Validated; Region: PRK07178 472759004899 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 472759004900 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759004901 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 472759004902 phosphoglucomutase; Region: PLN02307 472759004903 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one...; Region: PGM1; cd03085 472759004904 substrate binding site [chemical binding]; other site 472759004905 dimer interface [polypeptide binding]; other site 472759004906 active site 472759004907 metal binding site [ion binding]; metal-binding site 472759004908 heat shock protein 90; Provisional; Region: PRK05218 472759004909 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 472759004910 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 472759004911 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759004912 active site 472759004913 phosphorylation site [posttranslational modification] 472759004914 intermolecular recognition site; other site 472759004915 dimerization interface [polypeptide binding]; other site 472759004916 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 472759004917 DNA binding residues [nucleotide binding] 472759004918 dimerization interface [polypeptide binding]; other site 472759004919 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 472759004920 anti sigma factor interaction site; other site 472759004921 regulatory phosphorylation site [posttranslational modification]; other site 472759004922 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759004923 Rrf2 family protein; Region: rrf2_super; TIGR00738 472759004924 FemAB family; Region: FemAB; cl11444 472759004925 Protein of unknown function, DUF482; Region: DUF482; pfam04339 472759004926 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 472759004927 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 472759004928 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 472759004929 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 472759004930 putative active site [active] 472759004931 putative metal binding site [ion binding]; other site 472759004932 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 472759004933 Protein of unknown function, DUF393; Region: DUF393; cl01136 472759004934 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 472759004935 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 472759004936 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 472759004937 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 472759004938 Protein of unknown function (DUF454); Region: DUF454; cl01063 472759004939 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 472759004940 putative active site [active] 472759004941 catalytic site [active] 472759004942 putative metal binding site [ion binding]; other site 472759004943 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 472759004944 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...; Region: ACD_sHsps-like; cd06464 472759004945 putative dimer interface [polypeptide binding]; other site 472759004946 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 472759004947 glycerol kinase; Provisional; Region: glpK; PRK00047 472759004948 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 472759004949 N- and C-terminal domain interface [polypeptide binding]; other site 472759004950 active site 472759004951 MgATP binding site [chemical binding]; other site 472759004952 catalytic site [active] 472759004953 metal binding site [ion binding]; metal-binding site 472759004954 glycerol binding site [chemical binding]; other site 472759004955 homotetramer interface [polypeptide binding]; other site 472759004956 homodimer interface [polypeptide binding]; other site 472759004957 FBP binding site [chemical binding]; other site 472759004958 protein IIAGlc interface [polypeptide binding]; other site 472759004959 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 472759004960 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 472759004961 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 472759004962 Probable Catalytic site [active] 472759004963 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 472759004964 trimer interface [polypeptide binding]; other site 472759004965 active site 472759004966 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 472759004967 catalytic site [active] 472759004968 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 472759004969 PAS fold; Region: PAS_3; pfam08447 472759004970 putative active site [active] 472759004971 heme pocket [chemical binding]; other site 472759004972 PAS domain S-box; Region: sensory_box; TIGR00229 472759004973 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 472759004974 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759004975 metal binding site [ion binding]; metal-binding site 472759004976 active site 472759004977 I-site; other site 472759004978 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 472759004979 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 472759004980 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 472759004981 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 472759004982 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 472759004983 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 472759004984 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 472759004985 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 472759004986 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 472759004987 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 472759004988 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 472759004989 4Fe-4S binding domain; Region: Fer4; cl02805 472759004990 4Fe-4S binding domain; Region: Fer4; cl02805 472759004991 NADH dehydrogenase; Region: NADHdh; cl00469 472759004992 NADH dehydrogenase subunit G; Validated; Region: PRK08166 472759004993 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 472759004994 catalytic loop [active] 472759004995 iron binding site [ion binding]; other site 472759004996 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 472759004997 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 472759004998 [4Fe-4S] binding site [ion binding]; other site 472759004999 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 472759005000 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 472759005001 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 472759005002 SLBB domain; Region: SLBB; pfam10531 472759005003 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 472759005004 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 472759005005 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of...; Region: TRX_Fd_NuoE; cd03064 472759005006 putative dimer interface [polypeptide binding]; other site 472759005007 [2Fe-2S] cluster binding site [ion binding]; other site 472759005008 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 472759005009 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 472759005010 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 472759005011 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 472759005012 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 472759005013 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...; Region: PRCH; cl09959 472759005014 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 472759005015 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 472759005016 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 472759005017 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 472759005018 RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine residue is found in...; Region: RNA_Cyclase_Class_II; cd00874 472759005019 putative active site [active] 472759005020 adenylation catalytic residue [active] 472759005021 Protein of unknown function (DUF504); Region: DUF504; cl00661 472759005022 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 472759005023 RNA/DNA hybrid binding site [nucleotide binding]; other site 472759005024 active site 472759005025 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; cl12011 472759005026 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 472759005027 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 472759005028 tetramer interface [polypeptide binding]; other site 472759005029 TPP-binding site [chemical binding]; other site 472759005030 heterodimer interface [polypeptide binding]; other site 472759005031 phosphorylation loop region [posttranslational modification] 472759005032 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 472759005033 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 472759005034 alpha subunit interface [polypeptide binding]; other site 472759005035 TPP binding site [chemical binding]; other site 472759005036 heterodimer interface [polypeptide binding]; other site 472759005037 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 472759005038 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 472759005039 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 472759005040 E3 interaction surface; other site 472759005041 lipoyl attachment site [posttranslational modification]; other site 472759005042 e3 binding domain; Region: E3_binding; pfam02817 472759005043 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 472759005044 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 472759005045 active site 472759005046 zinc binding site [ion binding]; other site 472759005047 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 472759005048 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 472759005049 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; cl11391 472759005050 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 472759005051 dimer interface [polypeptide binding]; other site 472759005052 substrate binding site [chemical binding]; other site 472759005053 metal binding sites [ion binding]; metal-binding site 472759005054 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 472759005055 hydrolase, ortholog 1, exosortase system type 1 associated; Region: hydr1_PEP; TIGR03100 472759005056 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 472759005057 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 472759005058 pyridoxal-dependent decarboxylase, exosortase system type 1 associated; Region: dCO2ase_PEP1; TIGR03099 472759005059 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 472759005060 dimer interface [polypeptide binding]; other site 472759005061 active site 472759005062 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 472759005063 catalytic residues [active] 472759005064 substrate binding site [chemical binding]; other site 472759005065 acyl-CoA ligase (AMP-forming), exosortase system type 1 associated; Region: ligase_PEP_1; TIGR03098 472759005066 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 472759005067 O-Antigen ligase; Region: Wzy_C; cl04850 472759005068 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 472759005069 FAD binding domain; Region: FAD_binding_4; pfam01565 472759005070 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 472759005071 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 472759005072 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759005073 NAD(P) binding site [chemical binding]; other site 472759005074 active site 472759005075 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; cl11391 472759005076 UbiA prenyltransferase family; Region: UbiA; cl00337 472759005077 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 472759005078 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 472759005079 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 472759005080 Ligand Binding Site [chemical binding]; other site 472759005081 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 472759005082 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 472759005083 Integrase core domain; Region: rve; cl01316 472759005084 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 472759005085 Ligand Binding Site [chemical binding]; other site 472759005086 MatE; Region: MatE; cl10513 472759005087 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759005088 VanZ like family; Region: VanZ; cl01971 472759005089 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...; Region: Tryp_SPc; cl00149 472759005090 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 472759005091 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 472759005092 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...; Region: Sigma70_r4; cd06171 472759005093 DNA binding residues [nucleotide binding] 472759005094 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 472759005095 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 472759005096 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 472759005097 P loop; other site 472759005098 GTP binding site [chemical binding]; other site 472759005099 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 472759005100 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 472759005101 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 472759005102 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 472759005103 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 472759005104 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 472759005105 S-adenosylmethionine binding site [chemical binding]; other site 472759005106 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 472759005107 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 472759005108 active site 472759005109 (T/H)XGH motif; other site 472759005110 ferredoxin; Validated; Region: PRK07118 472759005111 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...; Region: Aldo_ket_red; cd06660 472759005112 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 472759005113 active site 472759005114 catalytic tetrad [active] 472759005115 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 472759005116 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 472759005117 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: GCD2; COG1184 472759005118 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 472759005119 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_7; cd04664 472759005120 nudix motif; other site 472759005121 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 472759005122 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 472759005123 glycogen synthase; Provisional; Region: glgA; PRK00654 472759005124 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 472759005125 ADP-binding pocket [chemical binding]; other site 472759005126 homodimer interface [polypeptide binding]; other site 472759005127 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 472759005128 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 472759005129 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 472759005130 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 472759005131 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 472759005132 NAD binding site [chemical binding]; other site 472759005133 substrate binding site [chemical binding]; other site 472759005134 homodimer interface [polypeptide binding]; other site 472759005135 active site 472759005136 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 472759005137 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 472759005138 substrate binding site [chemical binding]; other site 472759005139 tetramer interface [polypeptide binding]; other site 472759005140 Cupin domain; Region: Cupin_2; cl09118 472759005141 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 472759005142 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 472759005143 NADP binding site [chemical binding]; other site 472759005144 active site 472759005145 putative substrate binding site [chemical binding]; other site 472759005146 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 472759005147 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 472759005148 active site 472759005149 dimer interface [polypeptide binding]; other site 472759005150 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 472759005151 Ligand Binding Site [chemical binding]; other site 472759005152 Molecular Tunnel; other site 472759005153 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 472759005154 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 472759005155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759005156 Sodium:solute symporter family; Region: SSF; cl00456 472759005157 Isochorismatase family; Region: Isochorismatase; pfam00857 472759005158 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 472759005159 catalytic triad [active] 472759005160 conserved cis-peptide bond; other site 472759005161 allantoate amidohydrolase; Reviewed; Region: PRK09290 472759005162 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 472759005163 active site 472759005164 metal binding site [ion binding]; metal-binding site 472759005165 dimer interface [polypeptide binding]; other site 472759005166 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 472759005167 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 connected by an extended linker. The...; Region: HAMP; cl01054 472759005168 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 trans-...; Region: HisKA; cd00082 472759005169 dimer interface [polypeptide binding]; other site 472759005170 phosphorylation site [posttranslational modification] 472759005171 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 472759005172 ATP binding site [chemical binding]; other site 472759005173 Mg2+ binding site [ion binding]; other site 472759005174 G-X-G motif; other site 472759005175 response regulator GlrR; Provisional; Region: PRK15115 472759005176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759005177 active site 472759005178 phosphorylation site [posttranslational modification] 472759005179 intermolecular recognition site; other site 472759005180 dimerization interface [polypeptide binding]; other site 472759005181 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...; Region: AAA; cd00009 472759005182 Walker A motif; other site 472759005183 ATP binding site [chemical binding]; other site 472759005184 Walker B motif; other site 472759005185 arginine finger; other site 472759005186 N-ATPase, AtpR subunit; Region: AtpR; cl11871 472759005187 Transposase IS200 like; Region: Y1_Tnp; cl00848 472759005188 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 472759005189 active site 472759005190 catalytic triad [active] 472759005191 ATP synthase; Region: ATP-synt; cl00365 472759005192 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 472759005193 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 472759005194 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759005195 Walker A motif; other site 472759005196 ATP binding site [chemical binding]; other site 472759005197 Walker B motif; other site 472759005198 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 472759005199 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 472759005200 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 472759005201 ATP synthase subunit C; Region: ATP-synt_C; cl00466 472759005202 ATP synthase A chain; Region: ATP-synt_A; cl00413 472759005203 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 472759005204 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 472759005205 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 472759005206 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 472759005207 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 472759005208 alpha subunit interaction interface [polypeptide binding]; other site 472759005209 Walker A motif; other site 472759005210 ATP binding site [chemical binding]; other site 472759005211 Walker B motif; other site 472759005212 inhibitor binding site; inhibition site 472759005213 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 472759005214 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 472759005215 30S subunit binding site; other site 472759005216 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 472759005217 DNA-binding site [nucleotide binding]; DNA binding site 472759005218 RNA-binding motif; other site 472759005219 Domain of unknown function DUF37; Region: DUF37; cl00506 472759005220 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 472759005221 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 472759005222 DNA binding residues [nucleotide binding] 472759005223 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 472759005224 catalytic residues [active] 472759005225 catalytic nucleophile [active] 472759005226 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759005227 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 472759005228 Peptidase family M23; Region: Peptidase_M23; pfam01551 472759005229 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 472759005230 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 472759005231 Walker A/P-loop; other site 472759005232 ATP binding site [chemical binding]; other site 472759005233 Q-loop/lid; other site 472759005234 ABC transporter signature motif; other site 472759005235 Walker B; other site 472759005236 D-loop; other site 472759005237 H-loop/switch region; other site 472759005238 macrolide transporter subunit MacA; Provisional; Region: PRK11578 472759005239 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 472759005240 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 472759005241 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 472759005242 YcfA-like protein; Region: YcfA; cl00752 472759005243 Phosphotransferase enzyme family; Region: APH; pfam01636 472759005244 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 472759005245 active site 472759005246 ATP binding site [chemical binding]; other site 472759005247 substrate binding site [chemical binding]; other site 472759005248 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 472759005249 Substrate binding site [chemical binding]; other site 472759005250 metal binding site [ion binding]; metal-binding site 472759005251 ornithine carbamoyltransferase; Provisional; Region: PRK00779 472759005252 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 472759005253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759005254 acetylornithine aminotransferase; Provisional; Region: PRK02627 472759005255 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 472759005256 inhibitor-cofactor binding pocket; inhibition site 472759005257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759005258 catalytic residue [active] 472759005259 superoxide dismutase; Provisional; Region: PRK10543 472759005260 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 472759005261 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 472759005262 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 472759005263 putative GSH binding site [chemical binding]; other site 472759005264 catalytic residues [active] 472759005265 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 472759005266 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 472759005267 Clp amino terminal domain; Region: Clp_N; pfam02861 472759005268 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...; Region: AAA; cd00009 472759005269 Walker A motif; other site 472759005270 ATP binding site [chemical binding]; other site 472759005271 Walker B motif; other site 472759005272 arginine finger; other site 472759005273 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...; Region: AAA; cd00009 472759005274 Walker A motif; other site 472759005275 ATP binding site [chemical binding]; other site 472759005276 Walker B motif; other site 472759005277 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 472759005278 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 472759005279 metal binding site 2 [ion binding]; metal-binding site 472759005280 putative DNA binding helix; other site 472759005281 metal binding site 1 [ion binding]; metal-binding site 472759005282 dimer interface [polypeptide binding]; other site 472759005283 structural Zn2+ binding site [ion binding]; other site 472759005284 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 472759005285 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 472759005286 putative metal binding residues [ion binding]; other site 472759005287 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 472759005288 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 iron-...; Region: ABC_Metallic_Cations; cd03235 472759005289 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...; Region: TM_ABC_iron-siderophores_like; cd06550 472759005290 ABC-ATPase subunit interface; other site 472759005291 dimer interface [polypeptide binding]; other site 472759005292 Domain of unknown function DUF29; Region: DUF29; pfam01724 472759005293 ERCC4 domain; Region: ERCC4; cl10594 472759005294 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 472759005295 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 472759005296 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 472759005297 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as...; Region: ADPRase_NUDT5; cd03424 472759005298 dimer interface [polypeptide binding]; other site 472759005299 ADP-ribose binding site [chemical binding]; other site 472759005300 active site 472759005301 nudix motif; other site 472759005302 metal binding site [ion binding]; metal-binding site 472759005303 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 472759005304 active site 472759005305 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 472759005306 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 472759005307 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 472759005308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759005309 active site 472759005310 phosphorylation site [posttranslational modification] 472759005311 intermolecular recognition site; other site 472759005312 dimerization interface [polypeptide binding]; other site 472759005313 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...; Region: trans_reg_C; cd00383 472759005314 DNA binding site [nucleotide binding] 472759005315 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 472759005316 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 472759005317 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 472759005318 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 trans-...; Region: HisKA; cd00082 472759005319 dimer interface [polypeptide binding]; other site 472759005320 phosphorylation site [posttranslational modification] 472759005321 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 472759005322 ATP binding site [chemical binding]; other site 472759005323 Mg2+ binding site [ion binding]; other site 472759005324 G-X-G motif; other site 472759005325 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 472759005326 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 472759005327 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...; Region: TM_PBP2; cd06261 472759005328 conserved gate region; other site 472759005329 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...; Region: TM_PBP2; cd06261 472759005330 dimer interface [polypeptide binding]; other site 472759005331 conserved gate region; other site 472759005332 putative PBP binding loops; other site 472759005333 ABC-ATPase subunit interface; other site 472759005334 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...; Region: TM_PBP2; cl00427 472759005335 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 472759005336 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...; Region: TM_PBP2; cd06261 472759005337 dimer interface [polypeptide binding]; other site 472759005338 conserved gate region; other site 472759005339 putative PBP binding loops; other site 472759005340 ABC-ATPase subunit interface; other site 472759005341 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 472759005342 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 472759005343 Walker A/P-loop; other site 472759005344 ATP binding site [chemical binding]; other site 472759005345 Q-loop/lid; other site 472759005346 ABC transporter signature motif; other site 472759005347 Walker B; other site 472759005348 D-loop; other site 472759005349 H-loop/switch region; other site 472759005350 transcriptional regulator PhoU; Provisional; Region: PRK11115 472759005351 PhoU domain; Region: PhoU; pfam01895 472759005352 PhoU domain; Region: PhoU; pfam01895 472759005353 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 472759005354 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 472759005355 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 472759005356 putative active site [active] 472759005357 putative metal binding residues [ion binding]; other site 472759005358 signature motif; other site 472759005359 putative triphosphate binding site [ion binding]; other site 472759005360 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 472759005361 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; cl11391 472759005362 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 472759005363 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 472759005364 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 472759005365 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 472759005366 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 472759005367 S-adenosylmethionine binding site [chemical binding]; other site 472759005368 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759005369 polyphosphate kinase; Provisional; Region: PRK05443 472759005370 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 472759005371 putative domain interface [polypeptide binding]; other site 472759005372 putative active site [active] 472759005373 catalytic site [active] 472759005374 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 472759005375 putative domain interface [polypeptide binding]; other site 472759005376 putative active site [active] 472759005377 catalytic site [active] 472759005378 BolA-like protein; Region: BolA; cl00386 472759005379 YCII-related domain; Region: YCII; cl00999 472759005380 Intracellular septation protein A; Region: IspA; cl01098 472759005381 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 472759005382 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 472759005383 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 472759005384 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 472759005385 putative acyl-acceptor binding pocket; other site 472759005386 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 472759005387 Clp amino terminal domain; Region: Clp_N; pfam02861 472759005388 Clp amino terminal domain; Region: Clp_N; pfam02861 472759005389 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...; Region: AAA; cd00009 472759005390 Walker A motif; other site 472759005391 ATP binding site [chemical binding]; other site 472759005392 Walker B motif; other site 472759005393 arginine finger; other site 472759005394 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...; Region: AAA; cd00009 472759005395 Walker A motif; other site 472759005396 ATP binding site [chemical binding]; other site 472759005397 Walker B motif; other site 472759005398 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 472759005399 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 472759005400 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_cladeD; cd03379 472759005401 active site clefts [active] 472759005402 zinc binding site [ion binding]; other site 472759005403 dimer interface [polypeptide binding]; other site 472759005404 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 472759005405 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 472759005406 putative acyl-acceptor binding pocket; other site 472759005407 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 472759005408 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 472759005409 short chain dehydrogenase; Provisional; Region: PRK05693 472759005410 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 472759005411 NADP binding site [chemical binding]; other site 472759005412 active site 472759005413 steroid binding site; other site 472759005414 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 472759005415 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 472759005416 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 472759005417 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 472759005418 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 472759005419 Flagellar hook capping protein; Region: FlgD; cl04347 472759005420 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 472759005421 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 472759005422 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 472759005423 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 472759005424 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 472759005425 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 472759005426 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 472759005427 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 472759005428 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 472759005429 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 472759005430 Flagellar L-ring protein; Region: FlgH; cl00905 472759005431 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 472759005432 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 472759005433 Rod binding protein; Region: Rod-binding; cl01626 472759005434 flagellar rod assembly protein/muramidase FlgJ; Region: flagell_FlgJ; TIGR02541 472759005435 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 472759005436 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 472759005437 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 472759005438 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 472759005439 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 472759005440 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 472759005441 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 472759005442 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 472759005443 flagellin; Provisional; Region: PRK12806 472759005444 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 472759005445 FlaG protein; Region: FlaG; cl00591 472759005446 flagellar capping protein; Validated; Region: fliD; PRK08724 472759005447 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 472759005448 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 472759005449 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 472759005450 Flagellar protein FliS; Region: FliS; cl00654 472759005451 Flagellar protein FliT; Region: FliT; cl05125 472759005452 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 472759005453 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cl09944 472759005454 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...; Region: AAA; cd00009 472759005455 Walker A motif; other site 472759005456 ATP binding site [chemical binding]; other site 472759005457 Walker B motif; other site 472759005458 arginine finger; other site 472759005459 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 472759005460 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 472759005461 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...; Region: AAA; cd00009 472759005462 Walker A motif; other site 472759005463 ATP binding site [chemical binding]; other site 472759005464 Walker B motif; other site 472759005465 arginine finger; other site 472759005466 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 472759005467 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 472759005468 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 472759005469 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 472759005470 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 472759005471 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 472759005472 FliG C-terminal domain; Region: FliG_C; pfam01706 472759005473 flagellar assembly protein H; Validated; Region: fliH; PRK05687 472759005474 Flagellar assembly protein FliH; Region: FliH; pfam02108 472759005475 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 472759005476 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 472759005477 Walker A motif/ATP binding site; other site 472759005478 Walker B motif; other site 472759005479 Flagellar FliJ protein; Region: FliJ; cl09161 472759005480 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 472759005481 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 472759005482 active site 472759005483 dimer interface [polypeptide binding]; other site 472759005484 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759005485 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 472759005486 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 472759005487 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 472759005488 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 472759005489 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 472759005490 active site 472759005491 NTP binding site [chemical binding]; other site 472759005492 metal binding triad [ion binding]; metal-binding site 472759005493 antibiotic binding site [chemical binding]; other site 472759005494 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 472759005495 Preprotein translocase subunit; Region: YajC; cl00806 472759005496 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 472759005497 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 472759005498 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 472759005499 Protein export membrane protein; Region: SecD_SecF; cl14618 472759005500 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 472759005501 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 472759005502 Protein export membrane protein; Region: SecD_SecF; cl14618 472759005503 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 472759005504 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 472759005505 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 472759005506 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 472759005507 aromatic acid decarboxylase; Validated; Region: PRK05920 472759005508 Flavoprotein; Region: Flavoprotein; cl08021 472759005509 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 472759005510 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 472759005511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 472759005512 SCP-2 sterol transfer family; Region: SCP2; cl01225 472759005513 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 472759005514 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 472759005515 S-adenosylmethionine binding site [chemical binding]; other site 472759005516 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; cl12011 472759005517 Protein of unknown function (DUF971); Region: DUF971; cl01414 472759005518 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 472759005519 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...; Region: AAA; cd00009 472759005520 Walker A motif; other site 472759005521 ATP binding site [chemical binding]; other site 472759005522 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759005523 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 472759005524 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 472759005525 active site 472759005526 HslU subunit interaction site [polypeptide binding]; other site 472759005527 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 472759005528 UDP-glucose-4-epimerase; Region: galE; TIGR01179 472759005529 NAD binding site [chemical binding]; other site 472759005530 homodimer interface [polypeptide binding]; other site 472759005531 active site 472759005532 substrate binding site [chemical binding]; other site 472759005533 elongation factor Tu; Reviewed; Region: PRK00049 472759005534 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 472759005535 G1 box; other site 472759005536 GEF interaction site [polypeptide binding]; other site 472759005537 GTP/Mg2+ binding site [chemical binding]; other site 472759005538 Switch I region; other site 472759005539 G2 box; other site 472759005540 G3 box; other site 472759005541 Switch II region; other site 472759005542 G4 box; other site 472759005543 G5 box; other site 472759005544 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 472759005545 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 472759005546 Antibiotic Binding Site [chemical binding]; other site 472759005547 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 472759005548 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 472759005549 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 472759005550 putative homodimer interface [polypeptide binding]; other site 472759005551 KOW motif; Region: KOW; cl00354 472759005552 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 472759005553 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 472759005554 23S rRNA interface [nucleotide binding]; other site 472759005555 L7/L12 interface [polypeptide binding]; other site 472759005556 putative thiostrepton binding site; other site 472759005557 L25 interface [polypeptide binding]; other site 472759005558 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...; Region: Ribosomal_L1; cd00403 472759005559 mRNA/rRNA interface [nucleotide binding]; other site 472759005560 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...; Region: Ribosomal_L10; cd05797 472759005561 23S rRNA interface [nucleotide binding]; other site 472759005562 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 472759005563 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 472759005564 peripheral dimer interface [polypeptide binding]; other site 472759005565 core dimer interface [polypeptide binding]; other site 472759005566 L10 interface [polypeptide binding]; other site 472759005567 L11 interface [polypeptide binding]; other site 472759005568 putative EF-Tu interaction site [polypeptide binding]; other site 472759005569 putative EF-G interaction site [polypeptide binding]; other site 472759005570 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 472759005571 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 472759005572 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 472759005573 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 472759005574 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 472759005575 RPB11 interaction site [polypeptide binding]; other site 472759005576 RPB12 interaction site [polypeptide binding]; other site 472759005577 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 472759005578 RPB3 interaction site [polypeptide binding]; other site 472759005579 RPB1 interaction site [polypeptide binding]; other site 472759005580 RPB11 interaction site [polypeptide binding]; other site 472759005581 RPB10 interaction site [polypeptide binding]; other site 472759005582 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 472759005583 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 472759005584 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 472759005585 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 472759005586 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 472759005587 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 472759005588 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 472759005589 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 472759005590 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 472759005591 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 472759005592 DNA binding site [nucleotide binding] 472759005593 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 472759005594 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 472759005595 S17 interaction site [polypeptide binding]; other site 472759005596 S8 interaction site; other site 472759005597 16S rRNA interaction site [nucleotide binding]; other site 472759005598 streptomycin interaction site [chemical binding]; other site 472759005599 23S rRNA interaction site [nucleotide binding]; other site 472759005600 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 472759005601 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 472759005602 elongation factor G; Reviewed; Region: PRK00007 472759005603 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 472759005604 G1 box; other site 472759005605 putative GEF interaction site [polypeptide binding]; other site 472759005606 GTP/Mg2+ binding site [chemical binding]; other site 472759005607 Switch I region; other site 472759005608 G2 box; other site 472759005609 G3 box; other site 472759005610 Switch II region; other site 472759005611 G4 box; other site 472759005612 G5 box; other site 472759005613 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...; Region: EFG_mtEFG_II; cd04088 472759005614 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...; Region: EFG_mtEFG1_IV; cd01434 472759005615 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...; Region: EFG_mtEFG_C; cd03713 472759005616 elongation factor Tu; Reviewed; Region: PRK00049 472759005617 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 472759005618 G1 box; other site 472759005619 GEF interaction site [polypeptide binding]; other site 472759005620 GTP/Mg2+ binding site [chemical binding]; other site 472759005621 Switch I region; other site 472759005622 G2 box; other site 472759005623 G3 box; other site 472759005624 Switch II region; other site 472759005625 G4 box; other site 472759005626 G5 box; other site 472759005627 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 472759005628 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 472759005629 Antibiotic Binding Site [chemical binding]; other site 472759005630 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 472759005631 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 472759005632 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 472759005633 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 472759005634 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 472759005635 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 472759005636 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 472759005637 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 472759005638 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 472759005639 putative translocon binding site; other site 472759005640 protein-rRNA interface [nucleotide binding]; other site 472759005641 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 472759005642 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...; Region: 30S_S3_KH; cd02412 472759005643 G-X-X-G motif; other site 472759005644 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 472759005645 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 472759005646 23S rRNA interface [nucleotide binding]; other site 472759005647 5S rRNA interface [nucleotide binding]; other site 472759005648 putative antibiotic binding site [chemical binding]; other site 472759005649 L25 interface [polypeptide binding]; other site 472759005650 L27 interface [polypeptide binding]; other site 472759005651 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...; Region: Ribosomal_L29_HIP; cd00427 472759005652 23S rRNA interface [nucleotide binding]; other site 472759005653 putative translocon interaction site; other site 472759005654 signal recognition particle (SRP54) interaction site; other site 472759005655 L23 interface [polypeptide binding]; other site 472759005656 trigger factor interaction site; other site 472759005657 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 472759005658 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 472759005659 KOW motif; Region: KOW; cl00354 472759005660 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 472759005661 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 472759005662 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 472759005663 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 472759005664 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 472759005665 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 472759005666 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 472759005667 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 472759005668 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 472759005669 23S rRNA interface [nucleotide binding]; other site 472759005670 L21e interface [polypeptide binding]; other site 472759005671 5S rRNA interface [nucleotide binding]; other site 472759005672 L27 interface [polypeptide binding]; other site 472759005673 L5 interface [polypeptide binding]; other site 472759005674 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 472759005675 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 472759005676 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 472759005677 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...; Region: Ribosomal_L30; cd01658 472759005678 23S rRNA binding site [nucleotide binding]; other site 472759005679 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 472759005680 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 472759005681 SecY translocase; Region: SecY; pfam00344 472759005682 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 472759005683 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 472759005684 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 472759005685 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 472759005686 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 472759005687 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 472759005688 RNA binding surface [nucleotide binding]; other site 472759005689 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 472759005690 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 472759005691 alphaNTD homodimer interface [polypeptide binding]; other site 472759005692 alphaNTD - beta interaction site [polypeptide binding]; other site 472759005693 alphaNTD - beta' interaction site [polypeptide binding]; other site 472759005694 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 472759005695 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 472759005696 Uncharacterized conserved protein [Function unknown]; Region: COG1912 472759005697 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 472759005698 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 472759005699 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 472759005700 S-adenosylmethionine binding site [chemical binding]; other site 472759005701 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 472759005702 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 472759005703 active site 472759005704 putative substrate binding pocket [chemical binding]; other site 472759005705 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 472759005706 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 472759005707 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759005708 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 472759005709 substrate binding site [chemical binding]; other site 472759005710 dimerization interface [polypeptide binding]; other site 472759005711 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 472759005712 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 472759005713 Active Sites [active] 472759005714 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 472759005715 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 472759005716 Active Sites [active] 472759005717 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 472759005718 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 472759005719 CysD dimerization site [polypeptide binding]; other site 472759005720 G1 box; other site 472759005721 putative GEF interaction site [polypeptide binding]; other site 472759005722 GTP/Mg2+ binding site [chemical binding]; other site 472759005723 Switch I region; other site 472759005724 G2 box; other site 472759005725 G3 box; other site 472759005726 Switch II region; other site 472759005727 G4 box; other site 472759005728 G5 box; other site 472759005729 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of...; Region: CysN_NodQ_II; cd03695 472759005730 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of...; Region: CysN_NoDQ_III; cd04095 472759005731 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the...; Region: M14_ASTE_ASPA_like_6; cd06256 472759005732 putative active site [active] 472759005733 Zn-binding site [ion binding]; other site 472759005734 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 472759005735 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 472759005736 CrcB-like protein; Region: CRCB; cl09114 472759005737 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 472759005738 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 472759005739 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 472759005740 ATP binding site [chemical binding]; other site 472759005741 Mg2+ binding site [ion binding]; other site 472759005742 G-X-G motif; other site 472759005743 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 472759005744 anchoring element; other site 472759005745 dimer interface [polypeptide binding]; other site 472759005746 ATP binding site [chemical binding]; other site 472759005747 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 472759005748 active site 472759005749 metal binding site [ion binding]; metal-binding site 472759005750 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 472759005751 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 472759005752 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...; Region: TOP4c; cd00187 472759005753 CAP-like domain; other site 472759005754 Active site [active] 472759005755 primary dimer interface [polypeptide binding]; other site 472759005756 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 472759005757 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 472759005758 NAD(P) binding site [chemical binding]; other site 472759005759 homodimer interface [polypeptide binding]; other site 472759005760 substrate binding site [chemical binding]; other site 472759005761 active site 472759005762 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 472759005763 active site 472759005764 tetramer interface [polypeptide binding]; other site 472759005765 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 472759005766 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 472759005767 putative dimer interface [polypeptide binding]; other site 472759005768 [2Fe-2S] cluster binding site [ion binding]; other site 472759005769 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 472759005770 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 472759005771 SLBB domain; Region: SLBB; pfam10531 472759005772 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 472759005773 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 472759005774 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 472759005775 catalytic loop [active] 472759005776 iron binding site [ion binding]; other site 472759005777 4Fe-4S binding domain; Region: Fer4; cl02805 472759005778 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H)...; Region: MopB_Formate-Dh-H; cd02753 472759005779 [4Fe-4S] binding site [ion binding]; other site 472759005780 molybdopterin cofactor binding site; other site 472759005781 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H)...; Region: MopB_CT_Formate-Dh_H; cd02790 472759005782 molybdopterin cofactor binding site; other site 472759005783 Survival protein SurE; Region: SurE; cl00448 472759005784 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 472759005785 S-adenosylmethionine binding site [chemical binding]; other site 472759005786 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 472759005787 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 472759005788 putative peptidoglycan binding site; other site 472759005789 Peptidase family M23; Region: Peptidase_M23; pfam01551 472759005790 peptide chain release factor 2; Validated; Region: prfB; PRK00578 472759005791 RF-1 domain; Region: RF-1; cl02875 472759005792 RF-1 domain; Region: RF-1; cl02875 472759005793 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 472759005794 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-...; Region: LysRS_N; cd04322 472759005795 dimer interface [polypeptide binding]; other site 472759005796 putative anticodon binding site; other site 472759005797 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 472759005798 motif 1; other site 472759005799 active site 472759005800 motif 2; other site 472759005801 motif 3; other site 472759005802 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 472759005803 Recombination protein O N terminal; Region: RecO_N; pfam11967 472759005804 Recombination protein O C terminal; Region: RecO_C; pfam02565 472759005805 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 472759005806 active site 472759005807 hydrophilic channel; other site 472759005808 dimerization interface [polypeptide binding]; other site 472759005809 catalytic residues [active] 472759005810 active site lid [active] 472759005811 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 472759005812 cysteine synthases; Region: cysKM; TIGR01136 472759005813 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 472759005814 dimer interface [polypeptide binding]; other site 472759005815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759005816 catalytic residue [active] 472759005817 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 472759005818 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 472759005819 active site 472759005820 catalytic site [active] 472759005821 substrate binding site [chemical binding]; other site 472759005822 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 472759005823 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 472759005824 TRAM domain; Region: TRAM; cl01282 472759005825 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; cl12011 472759005826 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 472759005827 homopentamer interface [polypeptide binding]; other site 472759005828 active site 472759005829 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 rRNA-...; Region: NusB_Sun; cl00223 472759005830 putative RNA binding site [nucleotide binding]; other site 472759005831 thiamine monophosphate kinase; Provisional; Region: PRK05731 472759005832 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 472759005833 ATP binding site [chemical binding]; other site 472759005834 dimerization interface [polypeptide binding]; other site 472759005835 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 472759005836 tetramer interfaces [polypeptide binding]; other site 472759005837 binuclear metal-binding site [ion binding]; other site 472759005838 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 472759005839 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 472759005840 metal binding triad; other site 472759005841 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 472759005842 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 472759005843 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 472759005844 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 472759005845 methionine aminopeptidase; Reviewed; Region: PRK07281 472759005846 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 472759005847 active site 472759005848 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 472759005849 rRNA interaction site [nucleotide binding]; other site 472759005850 S8 interaction site; other site 472759005851 elongation factor Ts; Provisional; Region: tsf; PRK09377 472759005852 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 472759005853 Elongation factor TS; Region: EF_TS; pfam00889 472759005854 Elongation factor TS; Region: EF_TS; pfam00889 472759005855 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 472759005856 putative nucleotide binding site [chemical binding]; other site 472759005857 uridine monophosphate binding site [chemical binding]; other site 472759005858 homohexameric interface [polypeptide binding]; other site 472759005859 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 472759005860 hinge region; other site 472759005861 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 472759005862 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 472759005863 catalytic residue [active] 472759005864 putative FPP diphosphate binding site; other site 472759005865 putative FPP binding hydrophobic cleft; other site 472759005866 dimer interface [polypeptide binding]; other site 472759005867 putative IPP diphosphate binding site; other site 472759005868 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 472759005869 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 472759005870 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 472759005871 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 472759005872 zinc metallopeptidase RseP; Provisional; Region: PRK10779 472759005873 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 472759005874 active site 472759005875 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...; Region: PDZ_metalloprotease; cd00989 472759005876 protein binding site [polypeptide binding]; other site 472759005877 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...; Region: PDZ_metalloprotease; cd00989 472759005878 protein binding site [polypeptide binding]; other site 472759005879 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 472759005880 putative substrate binding region [chemical binding]; other site 472759005881 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 472759005882 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 472759005883 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 472759005884 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 472759005885 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 472759005886 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 472759005887 Surface antigen; Region: Bac_surface_Ag; cl03097 472759005888 periplasmic chaperone; Provisional; Region: PRK10780 472759005889 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 472759005890 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 472759005891 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 472759005892 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...; Region: LbH_UDP-GlcNAc_AT; cd03351 472759005893 active site 472759005894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 472759005895 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 472759005896 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 472759005897 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 472759005898 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 472759005899 Probable transposase; Region: OrfB_IS605; pfam01385 472759005900 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759005901 GTP-binding protein Der; Reviewed; Region: PRK00093 472759005902 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 472759005903 G1 box; other site 472759005904 GTP/Mg2+ binding site [chemical binding]; other site 472759005905 Switch I region; other site 472759005906 G2 box; other site 472759005907 Switch II region; other site 472759005908 G3 box; other site 472759005909 G4 box; other site 472759005910 G5 box; other site 472759005911 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 472759005912 G1 box; other site 472759005913 GTP/Mg2+ binding site [chemical binding]; other site 472759005914 Switch I region; other site 472759005915 G2 box; other site 472759005916 G3 box; other site 472759005917 Switch II region; other site 472759005918 G4 box; other site 472759005919 G5 box; other site 472759005920 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 472759005921 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 472759005922 dimer interface [polypeptide binding]; other site 472759005923 putative functional site; other site 472759005924 putative MPT binding site; other site 472759005925 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 472759005926 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 472759005927 GTP binding site [chemical binding]; other site 472759005928 Ferritin-like domain; Region: Ferritin; pfam00210 472759005929 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 472759005930 dinuclear metal binding motif [ion binding]; other site 472759005931 Uncharacterized conserved protein [Function unknown]; Region: COG3391 472759005932 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 472759005933 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 472759005934 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 472759005935 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 472759005936 ligand binding site [chemical binding]; other site 472759005937 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...; Region: BFIT_BACH; cd03442 472759005938 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 472759005939 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 472759005940 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 472759005941 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 472759005942 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 472759005943 substrate binding site [chemical binding]; other site 472759005944 oxyanion hole (OAH) forming residues; other site 472759005945 trimer interface [polypeptide binding]; other site 472759005946 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 472759005947 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 472759005948 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 472759005949 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 472759005950 dimer interface [polypeptide binding]; other site 472759005951 active site 472759005952 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 472759005953 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 472759005954 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 472759005955 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 472759005956 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 472759005957 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 472759005958 putative DNA binding site [nucleotide binding]; other site 472759005959 putative homodimer interface [polypeptide binding]; other site 472759005960 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 472759005961 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 472759005962 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 472759005963 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 472759005964 catalytic residue [active] 472759005965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 472759005966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 472759005967 glycogen branching enzyme; Provisional; Region: PRK12313 472759005968 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 472759005969 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 472759005970 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 472759005971 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 472759005972 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 472759005973 trehalose synthase; Region: treS_nterm; TIGR02456 472759005974 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 472759005975 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 472759005976 Cupin domain; Region: Cupin_2; cl09118 472759005977 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 472759005978 conserved cys residue [active] 472759005979 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...; Region: MM_CoA_mut_B12_BD; cd02071 472759005980 B12 binding site [chemical binding]; other site 472759005981 cobalt ligand [ion binding]; other site 472759005982 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 472759005983 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 472759005984 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of methylmalonyl-; Region: MM_CoA_mutase; cl00817 472759005985 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 472759005986 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 472759005987 dimer interface [polypeptide binding]; other site 472759005988 active site 472759005989 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 472759005990 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 472759005991 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 472759005992 enoyl-CoA hydratase; Provisional; Region: PRK05995 472759005993 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 472759005994 substrate binding site [chemical binding]; other site 472759005995 oxyanion hole (OAH) forming residues; other site 472759005996 trimer interface [polypeptide binding]; other site 472759005997 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 472759005998 active site 472759005999 catalytic residues [active] 472759006000 metal binding site [ion binding]; metal-binding site 472759006001 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759006002 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759006003 Probable transposase; Region: OrfB_IS605; pfam01385 472759006004 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759006005 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 472759006006 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 472759006007 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 472759006008 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 472759006009 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 472759006010 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 472759006011 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 472759006012 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 472759006013 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 472759006014 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 472759006015 NADP binding site [chemical binding]; other site 472759006016 dimer interface [polypeptide binding]; other site 472759006017 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...; Region: HNHc; cl00083 472759006018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 472759006019 SEC-C motif; Region: SEC-C; cl12132 472759006020 SEC-C motif; Region: SEC-C; cl12132 472759006021 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...; Region: DnaJ; cd06257 472759006022 HSP70 interaction site [polypeptide binding]; other site 472759006023 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; cl03075 472759006024 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 472759006025 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 472759006026 YcfA-like protein; Region: YcfA; cl00752 472759006027 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759006028 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759006029 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 472759006030 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 472759006031 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759006032 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 472759006033 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 472759006034 putative active site [active] 472759006035 PhoH-like protein; Region: PhoH; cl12134 472759006036 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 472759006037 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 472759006038 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 472759006039 substrate binding pocket [chemical binding]; other site 472759006040 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 472759006041 B12 binding site [chemical binding]; other site 472759006042 cobalt ligand [ion binding]; other site 472759006043 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 472759006044 isocitrate dehydrogenase; Validated; Region: PRK07362 472759006045 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 472759006046 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 472759006047 S-adenosylmethionine binding site [chemical binding]; other site 472759006048 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 472759006049 Uncharacterized conserved protein [Function unknown]; Region: COG5316 472759006050 C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 472759006051 substrate binding site [chemical binding]; other site 472759006052 THF binding site; other site 472759006053 zinc-binding site [ion binding]; other site 472759006054 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 472759006055 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759006056 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1,2-...; Region: GT1_UGDG_like; cd03817 472759006057 putative ADP-binding pocket [chemical binding]; other site 472759006058 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 472759006059 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...; Region: ACD_sHsps-like; cd06464 472759006060 putative dimer interface [polypeptide binding]; other site 472759006061 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 472759006062 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...; Region: ACD_sHsps-like; cd06464 472759006063 putative dimer interface [polypeptide binding]; other site 472759006064 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 472759006065 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...; Region: ABCF_EF-3; cd03221 472759006066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759006067 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...; Region: ABCF_EF-3; cd03221 472759006068 ABC transporter; Region: ABC_tran_2; pfam12848 472759006069 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...; Region: ABCF_EF-3; cd03221 472759006070 SelR domain; Region: SelR; cl00369 472759006071 ApbE family; Region: ApbE; cl00643 472759006072 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 472759006073 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 472759006074 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; cl11391 472759006075 YcgL domain; Region: YcgL; cl01189 472759006076 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...; Region: WD40; cl02567 472759006077 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 472759006078 Mechanosensitive ion channel; Region: MS_channel; pfam00924 472759006079 Protein of unknown function, DUF; Region: DUF411; cl01142 472759006080 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 472759006081 TraB family; Region: TraB; cl12050 472759006082 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 472759006083 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...; Region: AAA; cd00009 472759006084 Walker A motif; other site 472759006085 ATP binding site [chemical binding]; other site 472759006086 Walker B motif; other site 472759006087 arginine finger; other site 472759006088 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 472759006089 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 472759006090 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 472759006091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759006092 Walker A/P-loop; other site 472759006093 ATP binding site [chemical binding]; other site 472759006094 Q-loop/lid; other site 472759006095 ABC transporter signature motif; other site 472759006096 Walker B; other site 472759006097 D-loop; other site 472759006098 H-loop/switch region; other site 472759006099 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 472759006100 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 472759006101 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...; Region: TM_PBP2; cd06261 472759006102 dimer interface [polypeptide binding]; other site 472759006103 conserved gate region; other site 472759006104 ABC-ATPase subunit interface; other site 472759006105 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 472759006106 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 472759006107 N-terminal plug; other site 472759006108 ligand-binding site [chemical binding]; other site 472759006109 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759006110 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1,2-...; Region: GT1_UGDG_like; cd03817 472759006111 putative ADP-binding pocket [chemical binding]; other site 472759006112 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 472759006113 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 472759006114 metal binding site [ion binding]; metal-binding site 472759006115 putative dimer interface [polypeptide binding]; other site 472759006116 Peptidase family M48; Region: Peptidase_M48; cl12018 472759006117 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 472759006118 TPR motif; other site 472759006119 binding surface 472759006120 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 472759006121 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 472759006122 putative active site [active] 472759006123 putative metal binding site [ion binding]; other site 472759006124 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 472759006125 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 472759006126 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759006127 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 472759006128 FtsX-like permease family; Region: FtsX; pfam02687 472759006129 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 472759006130 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 472759006131 Walker A/P-loop; other site 472759006132 ATP binding site [chemical binding]; other site 472759006133 Q-loop/lid; other site 472759006134 ABC transporter signature motif; other site 472759006135 Walker B; other site 472759006136 D-loop; other site 472759006137 H-loop/switch region; other site 472759006138 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 472759006139 active site 472759006140 catalytic triad [active] 472759006141 oxyanion hole [active] 472759006142 switch loop; other site 472759006143 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 472759006144 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 472759006145 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 472759006146 Protein of unknown function DUF99; Region: DUF99; cl00704 472759006147 hypothetical protein; Provisional; Region: PRK00766 472759006148 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 472759006149 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...; Region: TlpA_like_family; cd02966 472759006150 catalytic residues [active] 472759006151 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 472759006152 ApbE family; Region: ApbE; cl00643 472759006153 ABC-2 type transporter; Region: ABC2_membrane; cl11417 472759006154 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 472759006155 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 472759006156 Walker A/P-loop; other site 472759006157 ATP binding site [chemical binding]; other site 472759006158 Q-loop/lid; other site 472759006159 ABC transporter signature motif; other site 472759006160 Walker B; other site 472759006161 D-loop; other site 472759006162 H-loop/switch region; other site 472759006163 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 472759006164 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 472759006165 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 472759006166 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 472759006167 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 472759006168 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 472759006169 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 472759006170 metal binding site [ion binding]; metal-binding site 472759006171 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; cl12011 472759006172 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 472759006173 metal binding site [ion binding]; metal-binding site 472759006174 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 472759006175 metal binding site [ion binding]; metal-binding site 472759006176 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759006177 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...; Region: GT1_like_4; cd03795 472759006178 putative ADP-binding pocket [chemical binding]; other site 472759006179 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 472759006180 heme-binding residues [chemical binding]; other site 472759006181 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 472759006182 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 472759006183 molybdopterin cofactor binding site; other site 472759006184 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 472759006185 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 472759006186 4Fe-4S binding domain; Region: Fer4; cl02805 472759006187 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl01295 472759006188 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 472759006189 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 472759006190 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional; Region: PRK14486 472759006191 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 472759006192 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759006193 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 472759006194 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...; Region: Heme_Cu_Oxidase_I; cl00275 472759006195 D-pathway; other site 472759006196 Low-spin heme binding site [chemical binding]; other site 472759006197 Putative water exit pathway; other site 472759006198 Binuclear center (active site) [active] 472759006199 K-pathway; other site 472759006200 Putative proton exit pathway; other site 472759006201 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits...; Region: NorE_like; cd02862 472759006202 Subunit I/III interface [polypeptide binding]; other site 472759006203 caa(3)-type oxidase, subunit IV; Region: caa3_sub_IV; TIGR02229 472759006204 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 472759006205 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 472759006206 N-terminal plug; other site 472759006207 ligand-binding site [chemical binding]; other site 472759006208 NeuB family; Region: NeuB; cl00496 472759006209 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 472759006210 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; cl09110 472759006211 transmembrane helices; other site 472759006212 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 472759006213 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 472759006214 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated...; Region: PDZ; cl00117 472759006215 protein binding site [polypeptide binding]; other site 472759006216 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 472759006217 Transcriptional regulators [Transcription]; Region: MarR; COG1846 472759006218 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759006219 PemK-like protein; Region: PemK; cl00995 472759006220 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 472759006221 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 472759006222 DNA gyrase subunit A; Validated; Region: PRK05560 472759006223 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...; Region: TOP4c; cd00187 472759006224 CAP-like domain; other site 472759006225 Active site [active] 472759006226 primary dimer interface [polypeptide binding]; other site 472759006227 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 472759006228 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 472759006229 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 472759006230 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 472759006231 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 472759006232 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active...; Region: PSAT_like; cd00611 472759006233 homodimer interface [polypeptide binding]; other site 472759006234 substrate-cofactor binding pocket; other site 472759006235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759006236 catalytic residue [active] 472759006237 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 472759006238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759006239 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 472759006240 L-serine binding site [chemical binding]; other site 472759006241 ACT domain interface; other site 472759006242 Chorismate mutase type II; Region: CM_2; cl00693 472759006243 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 472759006244 Prephenate dehydratase; Region: PDT; pfam00800 472759006245 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 472759006246 putative L-Phe binding site [chemical binding]; other site 472759006247 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 472759006248 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 472759006249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759006250 homodimer interface [polypeptide binding]; other site 472759006251 catalytic residue [active] 472759006252 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 472759006253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759006254 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 472759006255 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 472759006256 hinge; other site 472759006257 active site 472759006258 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 472759006259 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 472759006260 motif II; other site 472759006261 cytidylate kinase; Provisional; Region: cmk; PRK00023 472759006262 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 472759006263 CMP-binding site; other site 472759006264 The sites determining sugar specificity; other site 472759006265 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 472759006266 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 472759006267 RNA binding site [nucleotide binding]; other site 472759006268 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 472759006269 RNA binding site [nucleotide binding]; other site 472759006270 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 472759006271 RNA binding site [nucleotide binding]; other site 472759006272 S1_RPS1_repeat_ec4: 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_ec4; cd05689 472759006273 RNA binding site [nucleotide binding]; other site 472759006274 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 472759006275 RNA binding site [nucleotide binding]; other site 472759006276 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 472759006277 RNA binding site [nucleotide binding]; other site 472759006278 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 higher-...; Region: HU_IHF; cd00591 472759006279 IHF dimer interface [polypeptide binding]; other site 472759006280 IHF - DNA interface [nucleotide binding]; other site 472759006281 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome...; Region: Xcc1710_like; cd05560 472759006282 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 472759006283 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 472759006284 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 472759006285 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 472759006286 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...; Region: Sigma70_r4; cd06171 472759006287 DNA binding residues [nucleotide binding] 472759006288 Ferredoxin [Energy production and conversion]; Region: COG1146 472759006289 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 472759006290 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 472759006291 tetratricopeptide repeat protein; Provisional; Region: PRK11788 472759006292 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 472759006293 binding surface 472759006294 TPR motif; other site 472759006295 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 472759006296 binding surface 472759006297 TPR motif; other site 472759006298 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 472759006299 binding surface 472759006300 TPR motif; other site 472759006301 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 472759006302 catalytic residues [active] 472759006303 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 472759006304 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 472759006305 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 472759006306 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 472759006307 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 472759006308 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 472759006309 Domain of unknown function DUF20; Region: UPF0118; cl00465 472759006310 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but...; Region: TST_Repeat_1; cd01448 472759006311 active site residue [active] 472759006312 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 472759006313 active site residue [active] 472759006314 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 472759006315 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 472759006316 active site 472759006317 metal binding site [ion binding]; metal-binding site 472759006318 hexamer interface [polypeptide binding]; other site 472759006319 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_39; cd04699 472759006320 nudix motif; other site 472759006321 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 472759006322 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 472759006323 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 472759006324 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 472759006325 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 472759006326 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 472759006327 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 472759006328 ligand binding site [chemical binding]; other site 472759006329 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 472759006330 VPS10 domain; Region: VPS10; smart00602 472759006331 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 472759006332 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 472759006333 ferredoxin-NADP reductase; Provisional; Region: PRK10926 472759006334 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 472759006335 FAD binding pocket [chemical binding]; other site 472759006336 FAD binding motif [chemical binding]; other site 472759006337 phosphate binding motif [ion binding]; other site 472759006338 beta-alpha-beta structure motif; other site 472759006339 NAD binding pocket [chemical binding]; other site 472759006340 Domain of unknown function (DUF427); Region: DUF427; cl00998 472759006341 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 472759006342 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...; Region: TM_ABC_iron-siderophores_like; cl00462 472759006343 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...; Region: TM_ABC_iron-siderophores_like; cd06550 472759006344 ABC-ATPase subunit interface; other site 472759006345 dimer interface [polypeptide binding]; other site 472759006346 putative PBP binding regions; other site 472759006347 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 472759006348 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 iron-...; Region: ABC_Metallic_Cations; cd03235 472759006349 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...; Region: BtuF; cd01144 472759006350 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 472759006351 cobalamin binding residues [chemical binding]; other site 472759006352 putative BtuC binding residues; other site 472759006353 dimer interface [polypeptide binding]; other site 472759006354 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 472759006355 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 alpha-; Region: HCP_like; cl14655 472759006356 Cysteine-rich domain; Region: CCG; pfam02754 472759006357 Cysteine-rich domain; Region: CCG; pfam02754 472759006358 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 472759006359 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 472759006360 homodimer interface [polypeptide binding]; other site 472759006361 substrate-cofactor binding pocket; other site 472759006362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759006363 catalytic residue [active] 472759006364 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 472759006365 putative inner membrane peptidase; Provisional; Region: PRK11778 472759006366 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 472759006367 tandem repeat interface [polypeptide binding]; other site 472759006368 oligomer interface [polypeptide binding]; other site 472759006369 active site residues [active] 472759006370 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 472759006371 FAD binding domain; Region: FAD_binding_4; pfam01565 472759006372 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 472759006373 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 472759006374 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 472759006375 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...; Region: DnaE_OBF; cd04485 472759006376 generic binding surface II; other site 472759006377 generic binding surface I; other site 472759006378 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759006379 active site 472759006380 phosphorylation site [posttranslational modification] 472759006381 intermolecular recognition site; other site 472759006382 dimerization interface [polypeptide binding]; other site 472759006383 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759006384 metal binding site [ion binding]; metal-binding site 472759006385 active site 472759006386 I-site; other site 472759006387 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 472759006388 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 472759006389 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 472759006390 Ligand Binding Site [chemical binding]; other site 472759006391 TilS substrate binding domain; Region: TilS; pfam09179 472759006392 B3/4 domain; Region: B3_4; cl11458 472759006393 CTP synthetase; Validated; Region: pyrG; PRK05380 472759006394 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...; Region: CTGs; cd03113 472759006395 Catalytic site [active] 472759006396 Active site [active] 472759006397 UTP binding site [chemical binding]; other site 472759006398 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 472759006399 active site 472759006400 putative oxyanion hole; other site 472759006401 catalytic triad [active] 472759006402 NeuB family; Region: NeuB; cl00496 472759006403 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 472759006404 enolase; Provisional; Region: eno; PRK00077 472759006405 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 472759006406 dimer interface [polypeptide binding]; other site 472759006407 metal binding site [ion binding]; metal-binding site 472759006408 substrate binding pocket [chemical binding]; other site 472759006409 Septum formation initiator; Region: DivIC; cl11433 472759006410 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 472759006411 substrate binding site [chemical binding]; other site 472759006412 dimer interface [polypeptide binding]; other site 472759006413 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...; Region: MECDP_synthase; cd00554 472759006414 homotrimer interaction site [polypeptide binding]; other site 472759006415 zinc binding site [ion binding]; other site 472759006416 CDP-binding sites; other site 472759006417 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 472759006418 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 472759006419 Permutation of conserved domain; other site 472759006420 active site 472759006421 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cd01291 472759006422 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759006423 metal binding site [ion binding]; metal-binding site 472759006424 active site 472759006425 I-site; other site 472759006426 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 472759006427 siroheme synthase; Provisional; Region: cysG; PRK10637 472759006428 precorrin-2 dehydrogenase; Validated; Region: PRK06719 472759006429 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 472759006430 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 472759006431 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 472759006432 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 5-...; Region: QPRTase; cd01572 472759006433 dimerization interface [polypeptide binding]; other site 472759006434 active site 472759006435 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 472759006436 substrate binding site [chemical binding]; other site 472759006437 amidase catalytic site [active] 472759006438 Zn binding residues [ion binding]; other site 472759006439 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 472759006440 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 472759006441 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 472759006442 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 472759006443 RNA binding surface [nucleotide binding]; other site 472759006444 putative hydrolase; Provisional; Region: PRK10985 472759006445 acetyl-CoA synthetase; Provisional; Region: PRK00174 472759006446 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 472759006447 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 472759006448 peroxidase; Provisional; Region: PRK15000 472759006449 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...; Region: PRX_Typ2cys; cd03015 472759006450 dimer interface [polypeptide binding]; other site 472759006451 decamer (pentamer of dimers) interface [polypeptide binding]; other site 472759006452 catalytic triad [active] 472759006453 peroxidatic and resolving cysteines [active] 472759006454 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 472759006455 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 472759006456 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 472759006457 motif II; other site 472759006458 hypothetical protein; Validated; Region: PRK07682 472759006459 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 472759006460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759006461 homodimer interface [polypeptide binding]; other site 472759006462 catalytic residue [active] 472759006463 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 472759006464 S-adenosylmethionine binding site [chemical binding]; other site 472759006465 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 472759006466 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 472759006467 Walker A/P-loop; other site 472759006468 ATP binding site [chemical binding]; other site 472759006469 Q-loop/lid; other site 472759006470 ABC transporter signature motif; other site 472759006471 Walker B; other site 472759006472 D-loop; other site 472759006473 H-loop/switch region; other site 472759006474 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...; Region: TM_PBP2; cd06261 472759006475 dimer interface [polypeptide binding]; other site 472759006476 conserved gate region; other site 472759006477 putative PBP binding loops; other site 472759006478 ABC-ATPase subunit interface; other site 472759006479 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...; Region: TM_PBP2; cd06261 472759006480 dimer interface [polypeptide binding]; other site 472759006481 conserved gate region; other site 472759006482 putative PBP binding loops; other site 472759006483 ABC-ATPase subunit interface; other site 472759006484 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 472759006485 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...; Region: PBPb; cd00134 472759006486 substrate binding pocket [chemical binding]; other site 472759006487 membrane-bound complex binding site; other site 472759006488 hinge residues; other site 472759006489 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 472759006490 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 472759006491 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 472759006492 inhibitor-cofactor binding pocket; inhibition site 472759006493 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759006494 catalytic residue [active] 472759006495 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 472759006496 Coenzyme A binding pocket [chemical binding]; other site 472759006497 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 472759006498 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 472759006499 Sodium:solute symporter family; Region: SSF; cl00456 472759006500 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 472759006501 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 472759006502 ABC-2 type transporter; Region: ABC2_membrane; cl11417 472759006503 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 472759006504 ABC-2 type transporter; Region: ABC2_membrane; cl11417 472759006505 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 472759006506 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759006507 Walker A/P-loop; other site 472759006508 ATP binding site [chemical binding]; other site 472759006509 Q-loop/lid; other site 472759006510 ABC transporter signature motif; other site 472759006511 Walker B; other site 472759006512 D-loop; other site 472759006513 H-loop/switch region; other site 472759006514 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759006515 Walker A/P-loop; other site 472759006516 ATP binding site [chemical binding]; other site 472759006517 Q-loop/lid; other site 472759006518 ABC transporter signature motif; other site 472759006519 Walker B; other site 472759006520 D-loop; other site 472759006521 H-loop/switch region; other site 472759006522 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 472759006523 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 472759006524 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 472759006525 dimer interface [polypeptide binding]; other site 472759006526 active site 472759006527 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 472759006528 hypothetical protein; Provisional; Region: PRK05409 472759006529 Protein of unknown function (DUF692); Region: DUF692; cl01263 472759006530 Protein of unknown function (DUF422); Region: DUF422; cl00991 472759006531 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 472759006532 PemK-like protein; Region: PemK; cl00995 472759006533 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 472759006534 M28 Zn-Peptidases; Region: M28_like_1; cd05640 472759006535 metal binding site [ion binding]; metal-binding site 472759006536 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759006537 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759006538 Probable transposase; Region: OrfB_IS605; pfam01385 472759006539 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759006540 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 472759006541 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 472759006542 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 472759006543 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 472759006544 active site 472759006545 TDP-binding site; other site 472759006546 acceptor substrate-binding pocket; other site 472759006547 homodimer interface [polypeptide binding]; other site 472759006548 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 472759006549 endonuclease III; Provisional; Region: PRK10702 472759006550 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 472759006551 minor groove reading motif; other site 472759006552 helix-hairpin-helix signature motif; other site 472759006553 substrate binding pocket [chemical binding]; other site 472759006554 active site 472759006555 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 472759006556 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 472759006557 FMN-binding domain; Region: FMN_bind; cl01081 472759006558 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 472759006559 C subunit; Region: rnfC; TIGR01945 472759006560 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 472759006561 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 472759006562 SLBB domain; Region: SLBB; pfam10531 472759006563 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 alpha-; Region: HCP_like; cl14655 472759006564 electron transport complex protein RnfB; Provisional; Region: PRK05113 472759006565 Putative Fe-S cluster; Region: FeS; pfam04060 472759006566 4Fe-4S binding domain; Region: Fer4; cl02805 472759006567 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 472759006568 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 472759006569 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 472759006570 active site 472759006571 HIGH motif; other site 472759006572 KMSKS motif; other site 472759006573 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 472759006574 tRNA binding surface [nucleotide binding]; other site 472759006575 anticodon binding site; other site 472759006576 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 472759006577 dimer interface [polypeptide binding]; other site 472759006578 putative tRNA-binding site [nucleotide binding]; other site 472759006579 antiporter inner membrane protein; Provisional; Region: PRK11670 472759006580 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 472759006581 Walker A motif; other site 472759006582 DsrE/DsrF-like family; Region: DrsE; cl00672 472759006583 Transposase IS200 like; Region: Y1_Tnp; cl00848 472759006584 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759006585 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759006586 Probable transposase; Region: OrfB_IS605; pfam01385 472759006587 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759006588 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 472759006589 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-...; Region: CBS_pair; cd02205 472759006590 FOG: CBS domain [General function prediction only]; Region: COG0517 472759006591 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-...; Region: CBS_pair; cl09141 472759006592 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 472759006593 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 472759006594 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 472759006595 FAD binding domain; Region: FAD_binding_4; pfam01565 472759006596 D-glycerate 3-kinase; Region: PLN02796 472759006597 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759006598 Active site [active] 472759006599 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 472759006600 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-...; Region: AGAT_like; cd06451 472759006601 homodimer interface [polypeptide binding]; other site 472759006602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759006603 catalytic residue [active] 472759006604 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_5; cd06153 472759006605 homotrimer interaction site [polypeptide binding]; other site 472759006606 putative active site [active] 472759006607 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 472759006608 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 472759006609 metal binding site [ion binding]; metal-binding site 472759006610 dimer interface [polypeptide binding]; other site 472759006611 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 472759006612 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 472759006613 trimer interface [polypeptide binding]; other site 472759006614 active site 472759006615 substrate binding site [chemical binding]; other site 472759006616 CoA binding site [chemical binding]; other site 472759006617 hypothetical protein; Validated; Region: PRK07682 472759006618 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 472759006619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759006620 homodimer interface [polypeptide binding]; other site 472759006621 catalytic residue [active] 472759006622 ribosome maturation protein RimP; Reviewed; Region: PRK00092 472759006623 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...; Region: Sm_like; cl00259 472759006624 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 472759006625 Sm1 motif; other site 472759006626 predicted subunit interaction site [polypeptide binding]; other site 472759006627 RNA binding pocket [nucleotide binding]; other site 472759006628 Sm2 motif; other site 472759006629 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 472759006630 NusA N-terminal domain; Region: NusA_N; pfam08529 472759006631 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and...; Region: S1_NusA; cd04455 472759006632 RNA binding site [nucleotide binding]; other site 472759006633 homodimer interface [polypeptide binding]; other site 472759006634 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 472759006635 G-X-X-G motif; other site 472759006636 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 472759006637 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 472759006638 translation initiation factor IF-2; Validated; Region: infB; PRK05306 472759006639 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 472759006640 translation initiation factor IF-2; Region: IF-2; TIGR00487 472759006641 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 472759006642 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 472759006643 G1 box; other site 472759006644 putative GEF interaction site [polypeptide binding]; other site 472759006645 GTP/Mg2+ binding site [chemical binding]; other site 472759006646 Switch I region; other site 472759006647 G2 box; other site 472759006648 G3 box; other site 472759006649 Switch II region; other site 472759006650 G4 box; other site 472759006651 G5 box; other site 472759006652 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...; Region: IF2_mtIF2_II; cd03702 472759006653 Translation-initiation factor 2; Region: IF-2; pfam11987 472759006654 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...; Region: mtIF2_IVc; cd03692 472759006655 Ribosome-binding factor A; Region: RBFA; cl00542 472759006656 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 472759006657 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...; Region: PseudoU_synth_EcTruB; cd02573 472759006658 RNA binding site [nucleotide binding]; other site 472759006659 active site 472759006660 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...; Region: Ribosomal_S15p_S13e; cd00353 472759006661 16S/18S rRNA binding site [nucleotide binding]; other site 472759006662 S13e-L30e interaction site [polypeptide binding]; other site 472759006663 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 472759006664 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 472759006665 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 472759006666 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 472759006667 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 472759006668 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 472759006669 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 472759006670 putative nucleic acid binding region [nucleotide binding]; other site 472759006671 G-X-X-G motif; other site 472759006672 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 472759006673 RNA binding site [nucleotide binding]; other site 472759006674 domain interface; other site 472759006675 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 472759006676 homodimer interface [polypeptide binding]; other site 472759006677 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 472759006678 active site pocket [active] 472759006679 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 472759006680 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 472759006681 active site 1 [active] 472759006682 dimer interface [polypeptide binding]; other site 472759006683 active site 2 [active] 472759006684 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 472759006685 dinuclear metal binding motif [ion binding]; other site 472759006686 pyruvate dehydrogenase E1 component alpha subunit; Reviewed; Region: odpA; CHL00149 472759006687 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 472759006688 tetramer interface [polypeptide binding]; other site 472759006689 TPP-binding site [chemical binding]; other site 472759006690 heterodimer interface [polypeptide binding]; other site 472759006691 phosphorylation loop region [posttranslational modification] 472759006692 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 472759006693 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 472759006694 alpha subunit interface [polypeptide binding]; other site 472759006695 TPP binding site [chemical binding]; other site 472759006696 heterodimer interface [polypeptide binding]; other site 472759006697 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 472759006698 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 472759006699 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 472759006700 E3 interaction surface; other site 472759006701 lipoyl attachment site [posttranslational modification]; other site 472759006702 e3 binding domain; Region: E3_binding; pfam02817 472759006703 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 472759006704 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 472759006705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759006706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759006707 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 472759006708 argininosuccinate synthase; Provisional; Region: PLN00200 472759006709 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 472759006710 ANP binding site [chemical binding]; other site 472759006711 Substrate Binding Site II [chemical binding]; other site 472759006712 Substrate Binding Site I [chemical binding]; other site 472759006713 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 472759006714 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 472759006715 adenylosuccinate lyase; Provisional; Region: PRK09285 472759006716 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 472759006717 tetramer interface [polypeptide binding]; other site 472759006718 active site 472759006719 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 472759006720 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...; Region: AcnB_Swivel; cd01576 472759006721 substrate binding site [chemical binding]; other site 472759006722 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 472759006723 substrate binding site [chemical binding]; other site 472759006724 ligand binding site [chemical binding]; other site 472759006725 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 472759006726 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...; Region: HNHc; cl00083 472759006727 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 472759006728 potential catalytic triad [active] 472759006729 conserved cys residue [active] 472759006730 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 472759006731 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 472759006732 ligand binding site [chemical binding]; other site 472759006733 Protein of unknown function (DUF489); Region: DUF489; cl01097 472759006734 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 472759006735 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 472759006736 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 472759006737 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 472759006738 active site 472759006739 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 472759006740 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 472759006741 substrate binding pocket [chemical binding]; other site 472759006742 chain length determination region; other site 472759006743 substrate-Mg2+ binding site; other site 472759006744 catalytic residues [active] 472759006745 aspartate-rich region 1; other site 472759006746 active site lid residues [active] 472759006747 aspartate-rich region 2; other site 472759006748 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 472759006749 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 472759006750 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 472759006751 active site 472759006752 Riboflavin kinase; Region: Flavokinase; cl03312 472759006753 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 472759006754 binding surface 472759006755 TPR motif; other site 472759006756 glycerate dehydrogenase; Provisional; Region: PRK06487 472759006757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759006758 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 472759006759 Cupin domain; Region: Cupin_2; cl09118 472759006760 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 472759006761 TIGR03440 family protein; Region: unchr_TIGR03440 472759006762 DinB superfamily; Region: DinB_2; cl00986 472759006763 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 472759006764 probable methyltransferase; Region: TIGR03438 472759006765 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 472759006766 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 472759006767 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...; Region: SHMT; cd00378 472759006768 dimer interface [polypeptide binding]; other site 472759006769 glycine-pyridoxal phosphate binding site [chemical binding]; other site 472759006770 active site 472759006771 folate binding site [chemical binding]; other site 472759006772 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 472759006773 ATP cone domain; Region: ATP-cone; pfam03477 472759006774 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 472759006775 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 472759006776 catalytic motif [active] 472759006777 Zn binding site [ion binding]; other site 472759006778 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 5,10-...; Region: DHFR; cl00161 472759006779 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 472759006780 Lumazine binding domain; Region: Lum_binding; pfam00677 472759006781 Lumazine binding domain; Region: Lum_binding; pfam00677 472759006782 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 472759006783 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 472759006784 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; cl00522 472759006785 dimerization interface [polypeptide binding]; other site 472759006786 active site 472759006787 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 472759006788 RNA/DNA hybrid binding site [nucleotide binding]; other site 472759006789 active site 472759006790 Haemolysin-III related; Region: HlyIII; cl03831 472759006791 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 472759006792 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759006793 Probable transposase; Region: OrfB_IS605; pfam01385 472759006794 Transposase, Mutator family; Region: Transposase_mut; pfam00872 472759006795 MULE transposase domain; Region: MULE; pfam10551 472759006796 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 472759006797 putative active site [active] 472759006798 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 472759006799 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 472759006800 G1 box; other site 472759006801 putative GEF interaction site [polypeptide binding]; other site 472759006802 GTP/Mg2+ binding site [chemical binding]; other site 472759006803 Switch I region; other site 472759006804 G2 box; other site 472759006805 G3 box; other site 472759006806 Switch II region; other site 472759006807 G4 box; other site 472759006808 G5 box; other site 472759006809 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 472759006810 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr (; Region: PTPc; cl00053 472759006811 active site 472759006812 catalytic residues [active] 472759006813 Protein tyrosine phosphatase, catalytic domain; Region: PTPc; smart00194 472759006814 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 472759006815 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 472759006816 Transposase, Mutator family; Region: Transposase_mut; pfam00872 472759006817 MULE transposase domain; Region: MULE; pfam10551 472759006818 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09741 472759006819 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 472759006820 CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE; Region: cas_TM1811_Csm1; TIGR02578 472759006821 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cl00622 472759006822 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 472759006823 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 472759006824 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 472759006825 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 472759006826 putative active site [active] 472759006827 CRISPR-associated protein (Cas_Cas02710); Region: Cas_Cas02710; pfam09670 472759006828 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 472759006829 Transposase IS200 like; Region: Y1_Tnp; cl00848 472759006830 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 472759006831 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 472759006832 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl01634 472759006833 Transposase [DNA replication, recombination, and repair]; Region: COG5421 472759006834 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 472759006835 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 472759006836 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 472759006837 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 472759006838 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 472759006839 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 472759006840 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 472759006841 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 472759006842 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 472759006843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759006844 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 472759006845 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 472759006846 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 472759006847 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 472759006848 glutamate dehydrogenase; Region: PLN02477 472759006849 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 472759006850 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 472759006851 NAD(P) binding site [chemical binding]; other site 472759006852 Domain of unknown function DUF20; Region: UPF0118; cl00465 472759006853 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 472759006854 putative active site [active] 472759006855 transaldolase; Provisional; Region: PRK03903 472759006856 catalytic residue [active] 472759006857 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 472759006858 MgtE intracellular N domain; Region: MgtE_N; cl15244 472759006859 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 472759006860 Divalent cation transporter; Region: MgtE; cl00786 472759006861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 472759006862 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 472759006863 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 472759006864 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...; Region: TM_PBP2; cd06261 472759006865 dimer interface [polypeptide binding]; other site 472759006866 conserved gate region; other site 472759006867 putative PBP binding loops; other site 472759006868 ABC-ATPase subunit interface; other site 472759006869 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 472759006870 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...; Region: TM_PBP2; cd06261 472759006871 dimer interface [polypeptide binding]; other site 472759006872 conserved gate region; other site 472759006873 putative PBP binding loops; other site 472759006874 ABC-ATPase subunit interface; other site 472759006875 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 472759006876 YcfA-like protein; Region: YcfA; cl00752 472759006877 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 472759006878 Predicted transcriptional regulator [Transcription]; Region: COG3905 472759006879 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759006880 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 472759006881 nucleophile elbow; other site 472759006882 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 472759006883 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 472759006884 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 472759006885 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 472759006886 catalytic residues [active] 472759006887 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 472759006888 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 472759006889 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 472759006890 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 472759006891 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 472759006892 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 472759006893 Zn binding site [ion binding]; other site 472759006894 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 472759006895 metal binding site [ion binding]; metal-binding site 472759006896 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 C-...; Region: PDZ_serine_protease; cd00987 472759006897 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 472759006898 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 472759006899 Walker A/P-loop; other site 472759006900 ATP binding site [chemical binding]; other site 472759006901 Q-loop/lid; other site 472759006902 ABC transporter signature motif; other site 472759006903 Walker B; other site 472759006904 D-loop; other site 472759006905 H-loop/switch region; other site 472759006906 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 472759006907 FtsX-like permease family; Region: FtsX; pfam02687 472759006908 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 472759006909 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 472759006910 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 472759006911 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 472759006912 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 472759006913 Uncharacterized conserved protein [Function unknown]; Region: COG3391 472759006914 Transposase IS200 like; Region: Y1_Tnp; cl00848 472759006915 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759006916 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759006917 Probable transposase; Region: OrfB_IS605; pfam01385 472759006918 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759006919 Domain of unknown function DUF59; Region: DUF59; cl00941 472759006920 NnrS protein; Region: NnrS; cl01258 472759006921 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 472759006922 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...; Region: PBPb; cl15306 472759006923 substrate binding pocket [chemical binding]; other site 472759006924 membrane-bound complex binding site; other site 472759006925 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 472759006926 PAS fold; Region: PAS_3; pfam08447 472759006927 putative active site [active] 472759006928 heme pocket [chemical binding]; other site 472759006929 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 472759006930 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 472759006931 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 472759006932 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 472759006933 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 472759006934 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 472759006935 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 472759006936 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 472759006937 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 472759006938 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 472759006939 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 472759006940 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 472759006941 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; cl12011 472759006942 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 472759006943 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 472759006944 homodimer interface [polypeptide binding]; other site 472759006945 active site 472759006946 TDP-binding site; other site 472759006947 acceptor substrate-binding pocket; other site 472759006948 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 472759006949 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 472759006950 dimer interface [polypeptide binding]; other site 472759006951 TPP-binding site [chemical binding]; other site 472759006952 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 472759006953 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 472759006954 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 472759006955 E3 interaction surface; other site 472759006956 lipoyl attachment site [posttranslational modification]; other site 472759006957 e3 binding domain; Region: E3_binding; pfam02817 472759006958 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 472759006959 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 472759006960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759006961 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 472759006962 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...; Region: HNHc; cd00085 472759006963 active site 472759006964 universal stress protein UspE; Provisional; Region: PRK11175 472759006965 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 472759006966 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 472759006967 Ligand Binding Site [chemical binding]; other site 472759006968 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 472759006969 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 472759006970 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 472759006971 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 472759006972 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 472759006973 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 472759006974 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 472759006975 putative active site [active] 472759006976 putative metal binding site [ion binding]; other site 472759006977 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 472759006978 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 472759006979 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 472759006980 active site residue [active] 472759006981 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 472759006982 active site residue [active] 472759006983 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 472759006984 active site flap/lid [active] 472759006985 nucleophilic elbow; other site 472759006986 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 472759006987 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This...; Region: Alpha_ANH_like_II; cd01993 472759006988 Ligand Binding Site [chemical binding]; other site 472759006989 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 472759006990 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 472759006991 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; cl12011 472759006992 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 472759006993 Protein of unknown function (DUF423); Region: DUF423; cl01008 472759006994 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 472759006995 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 472759006996 Predicted transcriptional regulator [Transcription]; Region: COG2378 472759006997 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 472759006998 CRISPR/Cas system-associated protein Cas10d; Region: Cas10d_I-D; cd09712 472759006999 CRISPR/Cas system-associated protein Csc2; Region: Csc2_I-D; cl11869 472759007000 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759007001 CRISPR-associated helicase Cas3, subtype CYANO; Region: cas3_cyano; TIGR03158 472759007002 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 472759007003 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 472759007004 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 472759007005 Integrase core domain; Region: rve; cl01316 472759007006 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 472759007007 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759007008 Predicted transcriptional regulator [Transcription]; Region: COG4190 472759007009 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759007010 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 472759007011 Transposase IS200 like; Region: Y1_Tnp; cl00848 472759007012 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759007013 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759007014 Probable transposase; Region: OrfB_IS605; pfam01385 472759007015 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759007016 BCCT family transporter; Region: BCCT; cl00569 472759007017 Rhomboid family; Region: Rhomboid; cl11446 472759007018 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 472759007019 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 472759007020 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 472759007021 mercuric reductase; Validated; Region: PRK06370 472759007022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759007023 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 472759007024 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; cl11391 472759007025 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 472759007026 Transposase, Mutator family; Region: Transposase_mut; pfam00872 472759007027 MULE transposase domain; Region: MULE; pfam10551 472759007028 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 472759007029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759007030 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 472759007031 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 472759007032 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 472759007033 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 472759007034 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759007035 Archease protein family (DUF101/UPF0211); Region: Archease; cl00606 472759007036 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 472759007037 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 472759007038 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 472759007039 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...; Region: Hint; cl12032 472759007040 hypothetical protein; Reviewed; Region: PRK09588 472759007041 Protein of unknown function DUF72; Region: DUF72; cl00777 472759007042 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 472759007043 DNA-K related protein; Region: DUF3731; pfam12531 472759007044 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 472759007045 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 472759007046 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 472759007047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759007048 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 472759007049 transaldolase; Provisional; Region: PRK03903 472759007050 catalytic residue [active] 472759007051 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 472759007052 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 472759007053 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 472759007054 N-acetyl-D-glucosamine binding site [chemical binding]; other site 472759007055 catalytic residue [active] 472759007056 SelR domain; Region: SelR; cl00369 472759007057 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 472759007058 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 472759007059 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 472759007060 dimerization interface [polypeptide binding]; other site 472759007061 putative ATP binding site [chemical binding]; other site 472759007062 probable DNA repair protein; Region: TIGR03623 472759007063 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 472759007064 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 472759007065 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 472759007066 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 472759007067 UvrD/REP helicase; Region: UvrD-helicase; cl14126 472759007068 UvrD/REP helicase; Region: UvrD-helicase; cl14126 472759007069 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 472759007070 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 472759007071 putative catalytic residue [active] 472759007072 pyruvate kinase; Provisional; Region: PRK05826 472759007073 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 472759007074 domain interfaces; other site 472759007075 active site 472759007076 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 472759007077 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 472759007078 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 472759007079 tocopherol O-methyltransferase; Region: PLN02244 472759007080 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 472759007081 S-adenosylmethionine binding site [chemical binding]; other site 472759007082 RecD/TraA family; Region: recD_rel; TIGR01448 472759007083 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 472759007084 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 472759007085 Walker A/P-loop; other site 472759007086 ATP binding site [chemical binding]; other site 472759007087 Q-loop/lid; other site 472759007088 ABC transporter signature motif; other site 472759007089 Walker B; other site 472759007090 D-loop; other site 472759007091 H-loop/switch region; other site 472759007092 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 472759007093 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...; Region: TM_PBP2; cd06261 472759007094 dimer interface [polypeptide binding]; other site 472759007095 conserved gate region; other site 472759007096 putative PBP binding loops; other site 472759007097 ABC-ATPase subunit interface; other site 472759007098 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...; Region: TM_PBP2; cd06261 472759007099 dimer interface [polypeptide binding]; other site 472759007100 conserved gate region; other site 472759007101 putative PBP binding loops; other site 472759007102 ABC-ATPase subunit interface; other site 472759007103 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 472759007104 dimerization interface [polypeptide binding]; other site 472759007105 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 472759007106 dimerization interface [polypeptide binding]; other site 472759007107 putative DNA binding site [nucleotide binding]; other site 472759007108 putative Zn2+ binding site [ion binding]; other site 472759007109 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 472759007110 putative catalytic site [active] 472759007111 putative metal binding site [ion binding]; other site 472759007112 putative phosphate binding site [ion binding]; other site 472759007113 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 472759007114 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 472759007115 putative NADP binding site [chemical binding]; other site 472759007116 putative substrate binding site [chemical binding]; other site 472759007117 active site 472759007118 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 472759007119 tellurite resistance protein terB; Region: terB; cd07176 472759007120 putative metal binding site [ion binding]; other site 472759007121 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 472759007122 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 472759007123 putative metal binding site [ion binding]; other site 472759007124 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 472759007125 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 472759007126 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 472759007127 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 472759007128 Integral membrane protein TerC family; Region: TerC; cl10468 472759007129 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 472759007130 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 472759007131 putative metal binding site [ion binding]; other site 472759007132 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 472759007133 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting...; Region: NAPRTase_A; cd01570 472759007134 active site 472759007135 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 472759007136 RES domain; Region: RES; cl02411 472759007137 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 472759007138 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 472759007139 catalytic residues [active] 472759007140 catalytic nucleophile [active] 472759007141 Recombinase; Region: Recombinase; pfam07508 472759007142 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 472759007143 conserved cys residue [active] 472759007144 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 472759007145 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 472759007146 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 472759007147 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 472759007148 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 472759007149 multifunctional aminopeptidase A; Provisional; Region: PRK00913 472759007150 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...; Region: Peptidase_M17; cd00433 472759007151 interface (dimer of trimers) [polypeptide binding]; other site 472759007152 Substrate-binding/catalytic site; other site 472759007153 Zn-binding sites [ion binding]; other site 472759007154 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 472759007155 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 472759007156 active site 472759007157 ATP binding site [chemical binding]; other site 472759007158 substrate binding site [chemical binding]; other site 472759007159 activation loop (A-loop); other site 472759007160 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 472759007161 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 472759007162 Protein of unknown function (DUF433); Region: DUF433; cl01030 472759007163 TIR domain; Region: TIR; cl02060 472759007164 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 472759007165 phosphopeptide binding site; other site 472759007166 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 472759007167 phosphopeptide binding site; other site 472759007168 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 472759007169 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 472759007170 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 472759007171 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 472759007172 RDD family; Region: RDD; cl00746 472759007173 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 472759007174 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 472759007175 dimerization interface [polypeptide binding]; other site 472759007176 ATP binding site [chemical binding]; other site 472759007177 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 472759007178 dimerization interface [polypeptide binding]; other site 472759007179 ATP binding site [chemical binding]; other site 472759007180 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 472759007181 putative active site [active] 472759007182 catalytic triad [active] 472759007183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 472759007184 Smr domain; Region: Smr; cl02619 472759007185 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 472759007186 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 472759007187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 472759007188 Protein of unknown function (DUF497); Region: DUF497; cl01108 472759007189 Domain of unknown function DUF29; Region: DUF29; pfam01724 472759007190 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 472759007191 Domain of unknown function DUF29; Region: DUF29; pfam01724 472759007192 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 472759007193 HicB family; Region: HicB; pfam05534 472759007194 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 472759007195 metal binding site [ion binding]; metal-binding site 472759007196 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 472759007197 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 472759007198 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 472759007199 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 472759007200 TspO/MBR family; Region: TspO_MBR; cl01379 472759007201 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 472759007202 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759007203 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 472759007204 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 472759007205 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 472759007206 D-pathway; other site 472759007207 Putative ubiquinol binding site [chemical binding]; other site 472759007208 Low-spin heme (heme b) binding site [chemical binding]; other site 472759007209 Putative water exit pathway; other site 472759007210 Binuclear center (heme o3/CuB) [ion binding]; other site 472759007211 K-pathway; other site 472759007212 Putative proton exit pathway; other site 472759007213 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 472759007214 Subunit I/III interface [polypeptide binding]; other site 472759007215 Cytochrome c; Region: Cytochrom_C; cl11414 472759007216 Cytochrome c; Region: Cytochrom_C; cl11414 472759007217 sensor protein PhoQ; Provisional; Region: PRK10815 472759007218 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 472759007219 ATP binding site [chemical binding]; other site 472759007220 Mg2+ binding site [ion binding]; other site 472759007221 G-X-G motif; other site 472759007222 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 472759007223 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759007224 active site 472759007225 phosphorylation site [posttranslational modification] 472759007226 intermolecular recognition site; other site 472759007227 dimerization interface [polypeptide binding]; other site 472759007228 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...; Region: trans_reg_C; cd00383 472759007229 DNA binding site [nucleotide binding] 472759007230 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 472759007231 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 472759007232 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 472759007233 putative active site [active] 472759007234 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 472759007235 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 472759007236 Protein of unknown function (DUF525); Region: DUF525; cl01119 472759007237 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 472759007238 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 472759007239 active site 472759007240 metal binding site [ion binding]; metal-binding site 472759007241 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 472759007242 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 472759007243 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; cl09233 472759007244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759007245 NAD(P) binding site [chemical binding]; other site 472759007246 active site 472759007247 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_cladeD; cd03379 472759007248 active site clefts [active] 472759007249 zinc binding site [ion binding]; other site 472759007250 dimer interface [polypeptide binding]; other site 472759007251 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; cl12011 472759007252 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 472759007253 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...; Region: AAA; cd00009 472759007254 Walker A motif; other site 472759007255 ATP binding site [chemical binding]; other site 472759007256 Walker B motif; other site 472759007257 arginine finger; other site 472759007258 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 472759007259 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 472759007260 active site 472759007261 substrate binding site [chemical binding]; other site 472759007262 Mg2+ binding site [ion binding]; other site 472759007263 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759007264 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 472759007265 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 472759007266 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 472759007267 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 472759007268 LemA family; Region: LemA; cl00742 472759007269 Peptidase family M48; Region: Peptidase_M48; cl12018 472759007270 CHAD domain; Region: CHAD; cl10506 472759007271 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 472759007272 putative ADP-ribose binding site [chemical binding]; other site 472759007273 putative active site [active] 472759007274 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 472759007275 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 472759007276 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 472759007277 DNA binding site [nucleotide binding] 472759007278 Int/Topo IB signature motif; other site 472759007279 active site 472759007280 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 472759007281 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...; Region: AAA; cd00009 472759007282 Walker A motif; other site 472759007283 ATP binding site [chemical binding]; other site 472759007284 Walker B motif; other site 472759007285 Cupin domain; Region: Cupin_2; cl09118 472759007286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759007287 metal binding site [ion binding]; metal-binding site 472759007288 active site 472759007289 I-site; other site 472759007290 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 472759007291 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 472759007292 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 472759007293 Phosphopantetheine attachment site; Region: PP-binding; cl09936 472759007294 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 472759007295 putative acyl-acceptor binding pocket; other site 472759007296 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 472759007297 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 472759007298 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 472759007299 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 472759007300 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 472759007301 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 472759007302 putative active site [active] 472759007303 putative metal binding site [ion binding]; other site 472759007304 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 472759007305 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 472759007306 GIY-YIG motif/motif A; other site 472759007307 active site 472759007308 catalytic site [active] 472759007309 putative DNA binding site [nucleotide binding]; other site 472759007310 metal binding site [ion binding]; metal-binding site 472759007311 UvrB/uvrC motif; Region: UVR; pfam02151 472759007312 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 472759007313 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 472759007314 OPT oligopeptide transporter protein; Region: OPT; cl14607 472759007315 putative oligopeptide transporter, OPT family; Region: TIGR00733 472759007316 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 472759007317 Acetokinase family; Region: Acetate_kinase; cl01029 472759007318 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 472759007319 Isoamylase N-terminus domain. Isoamylase (aka glycogen 6-glucanohydrolase) is one of the starch-debranching enzymes that catalyzes the hydrolysis of alpha-1,6-glucosidic linkages specific in alpha-glucans such as amylopectin or glycogen. Isoamylase...; Region: Isoamylase_N_term; cd02852 472759007320 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 472759007321 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 472759007322 putative homodimer interface [polypeptide binding]; other site 472759007323 putative active site pocket [active] 472759007324 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 472759007325 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 472759007326 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 472759007327 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759007328 Trehalose phosphorylase (TP) reversibly catalyzes trehalose synthesis and degradation from alpha-glucose-1-phosphate (alpha-Glc-1-P) and glucose. The catalyzing activity includes the phosphorolysis of trehalose, which produce alpha-Glc-1-P and glucose...; Region: GT1_Trehalose_phosphorylase; cd03792 472759007329 Maltooligosyl trehalose synthase (MTSase) N-terminus domain. MTSase and maltooligosyl trehalose trehalohydrolase (MTHase) work together to produce trehalose. MTSase is responsible for converting the alpha-1,4-glucosidic linkage to an alpha,alpha-1,1-...; Region: MTHase_N_term; cd02853 472759007330 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 472759007331 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 472759007332 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 472759007333 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional; Region: PRK14507 472759007334 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 472759007335 trigger factor; Provisional; Region: tig; PRK01490 472759007336 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 472759007337 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 472759007338 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 472759007339 oligomer interface [polypeptide binding]; other site 472759007340 active site residues [active] 472759007341 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 472759007342 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 472759007343 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...; Region: AAA; cd00009 472759007344 Walker A motif; other site 472759007345 ATP binding site [chemical binding]; other site 472759007346 Walker B motif; other site 472759007347 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 472759007348 Found in ATP-dependent protease La (LON); Region: LON; smart00464 472759007349 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 472759007350 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...; Region: AAA; cd00009 472759007351 Walker A motif; other site 472759007352 ATP binding site [chemical binding]; other site 472759007353 Walker B motif; other site 472759007354 arginine finger; other site 472759007355 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 472759007356 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 472759007357 Sporulation related domain; Region: SPOR; cl10051 472759007358 Colicin V production protein; Region: Colicin_V; cl00567 472759007359 amidophosphoribosyltransferase; Provisional; Region: PRK09246 472759007360 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 472759007361 tetramer interface [polypeptide binding]; other site 472759007362 active site 472759007363 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 472759007364 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 472759007365 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 472759007366 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 472759007367 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 472759007368 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 472759007369 dimer interface [polypeptide binding]; other site 472759007370 active site 472759007371 CoA binding pocket [chemical binding]; other site 472759007372 Acyl transferase domain; Region: Acyl_transf_1; cl08282 472759007373 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 472759007374 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 472759007375 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 472759007376 NAD(P) binding site [chemical binding]; other site 472759007377 homotetramer interface [polypeptide binding]; other site 472759007378 homodimer interface [polypeptide binding]; other site 472759007379 active site 472759007380 Phosphopantetheine attachment site; Region: PP-binding; cl09936 472759007381 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 472759007382 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 472759007383 dimer interface [polypeptide binding]; other site 472759007384 active site 472759007385 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 472759007386 Aminotransferase class IV; Region: Aminotran_4; pfam01063 472759007387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759007388 catalytic residue [active] 472759007389 YceG-like family; Region: YceG; pfam02618 472759007390 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 472759007391 dimerization interface [polypeptide binding]; other site 472759007392 thymidylate kinase; Validated; Region: tmk; PRK00698 472759007393 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...; Region: TMPK; cd01672 472759007394 TMP-binding site; other site 472759007395 ATP-binding site [chemical binding]; other site 472759007396 DNA polymerase III subunit delta'; Validated; Region: PRK05707 472759007397 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759007398 C terminal; Region: DNApol3-delta_C; pfam09115 472759007399 PilZ domain; Region: PilZ; cl01260 472759007400 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 472759007401 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 472759007402 active site 472759007403 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 472759007404 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 472759007405 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 472759007406 catalytic residue [active] 472759007407 Domain of unknown function DUF29; Region: DUF29; pfam01724 472759007408 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 472759007409 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 472759007410 putative active site pocket [active] 472759007411 dimerization interface [polypeptide binding]; other site 472759007412 putative catalytic residue [active] 472759007413 fumarate hydratase; Reviewed; Region: fumC; PRK00485 472759007414 Class II fumarases; Region: Fumarase_classII; cd01362 472759007415 active site 472759007416 tetramer interface [polypeptide binding]; other site 472759007417 Sulfate transporter family; Region: Sulfate_transp; cl00967 472759007418 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 472759007419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 472759007420 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 connected by an extended linker. The...; Region: HAMP; cl01054 472759007421 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 trans-...; Region: HisKA; cd00082 472759007422 dimer interface [polypeptide binding]; other site 472759007423 phosphorylation site [posttranslational modification] 472759007424 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 472759007425 ATP binding site [chemical binding]; other site 472759007426 G-X-G motif; other site 472759007427 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 472759007428 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759007429 active site 472759007430 phosphorylation site [posttranslational modification] 472759007431 intermolecular recognition site; other site 472759007432 dimerization interface [polypeptide binding]; other site 472759007433 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...; Region: AAA; cd00009 472759007434 Walker A motif; other site 472759007435 ATP binding site [chemical binding]; other site 472759007436 Walker B motif; other site 472759007437 arginine finger; other site 472759007438 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 472759007439 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 472759007440 NeuB family; Region: NeuB; cl00496 472759007441 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 472759007442 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 472759007443 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 472759007444 Cu(I) binding site [ion binding]; other site 472759007445 transcription-repair coupling factor; Provisional; Region: PRK10689 472759007446 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 472759007447 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 472759007448 ATP binding site [chemical binding]; other site 472759007449 putative Mg++ binding site [ion binding]; other site 472759007450 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 472759007451 nucleotide binding region [chemical binding]; other site 472759007452 ATP-binding site [chemical binding]; other site 472759007453 TRCF domain; Region: TRCF; cl04088 472759007454 Uncharacterized family 4; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_4; cd10161 472759007455 putative homotetramer interface [polypeptide binding]; other site 472759007456 putative homodimer interface [polypeptide binding]; other site 472759007457 putative metal binding site [ion binding]; other site 472759007458 putative homodimer-homodimer interface [polypeptide binding]; other site 472759007459 YeeE/YedE family (DUF395); Region: DUF395; cl01018 472759007460 YeeE/YedE family (DUF395); Region: DUF395; cl01018 472759007461 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 472759007462 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...; Region: DnaJ; cd06257 472759007463 HSP70 interaction site [polypeptide binding]; other site 472759007464 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 472759007465 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 472759007466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759007467 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; cl09110 472759007468 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 472759007469 Cation transport protein; Region: TrkH; cl10514 472759007470 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759007471 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 472759007472 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 472759007473 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 472759007474 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 472759007475 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 472759007476 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 472759007477 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 472759007478 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 472759007479 dimer interface [polypeptide binding]; other site 472759007480 active site residues [active] 472759007481 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 472759007482 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 472759007483 thiS-thiF/thiG interaction site; other site 472759007484 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 472759007485 ThiS interaction site; other site 472759007486 putative active site [active] 472759007487 tetramer interface [polypeptide binding]; other site 472759007488 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron...; Region: FNR_like; cl06868 472759007489 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 472759007490 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...; Region: AAA; cd00009 472759007491 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 472759007492 Walker B motif; other site 472759007493 arginine finger; other site 472759007494 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 472759007495 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 472759007496 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 472759007497 GAF domain; Region: GAF; cl00853 472759007498 PAS domain S-box; Region: sensory_box; TIGR00229 472759007499 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 472759007500 putative active site [active] 472759007501 heme pocket [chemical binding]; other site 472759007502 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759007503 metal binding site [ion binding]; metal-binding site 472759007504 active site 472759007505 I-site; other site 472759007506 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 472759007507 glutathione reductase; Validated; Region: PRK06116 472759007508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759007509 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 472759007510 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 472759007511 anti sigma factor interaction site; other site 472759007512 regulatory phosphorylation site [posttranslational modification]; other site 472759007513 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 472759007514 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 472759007515 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 472759007516 substrate binding site [chemical binding]; other site 472759007517 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 472759007518 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 N-...; Region: GltS; cd00713 472759007519 active site 472759007520 dimer interface [polypeptide binding]; other site 472759007521 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 472759007522 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...; Region: GltS_FMN; cd02808 472759007523 active site 472759007524 FMN binding site [chemical binding]; other site 472759007525 substrate binding site [chemical binding]; other site 472759007526 3Fe-4S cluster binding site [ion binding]; other site 472759007527 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 472759007528 domain interface; other site 472759007529 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 472759007530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759007531 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 472759007532 anti sigma factor interaction site; other site 472759007533 regulatory phosphorylation site [posttranslational modification]; other site 472759007534 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...; Region: Aldo_ket_red; cd06660 472759007535 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 472759007536 active site 472759007537 catalytic tetrad [active] 472759007538 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 472759007539 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 472759007540 motif II; other site 472759007541 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; cl11391 472759007542 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 472759007543 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 472759007544 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 472759007545 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 472759007546 aspartate aminotransferase; Provisional; Region: PRK07681 472759007547 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 472759007548 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759007549 homodimer interface [polypeptide binding]; other site 472759007550 catalytic residue [active] 472759007551 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 472759007552 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 472759007553 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 472759007554 Uncharacterized conserved protein (DUF2267); Region: DUF2267; cl02314 472759007555 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 472759007556 catalytic motif [active] 472759007557 Catalytic residue [active] 472759007558 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 472759007559 active site 472759007560 catalytic triad [active] 472759007561 oxyanion hole [active] 472759007562 switch loop; other site 472759007563 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 472759007564 sulfite oxidase; Provisional; Region: PLN00177 472759007565 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 472759007566 Moco binding site; other site 472759007567 metal coordination site [ion binding]; other site 472759007568 dimerization interface [polypeptide binding]; other site 472759007569 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 472759007570 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 472759007571 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 472759007572 PUA domain; Region: PUA; cl00607 472759007573 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; cl12011 472759007574 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 472759007575 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 472759007576 homodimer interface [polypeptide binding]; other site 472759007577 substrate-cofactor binding pocket; other site 472759007578 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759007579 catalytic residue [active] 472759007580 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 472759007581 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 472759007582 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 472759007583 DNA binding residues [nucleotide binding] 472759007584 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 higher-...; Region: HU_IHF; cd00591 472759007585 IHF dimer interface [polypeptide binding]; other site 472759007586 IHF - DNA interface [nucleotide binding]; other site 472759007587 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 472759007588 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 472759007589 putative tRNA-binding site [nucleotide binding]; other site 472759007590 B3/4 domain; Region: B3_4; cl11458 472759007591 tRNA synthetase B5 domain; Region: B5; cl08394 472759007592 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 472759007593 dimer interface [polypeptide binding]; other site 472759007594 motif 1; other site 472759007595 motif 3; other site 472759007596 motif 2; other site 472759007597 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 472759007598 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 472759007599 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 472759007600 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 472759007601 dimer interface [polypeptide binding]; other site 472759007602 motif 1; other site 472759007603 active site 472759007604 motif 2; other site 472759007605 motif 3; other site 472759007606 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 472759007607 23S rRNA binding site [nucleotide binding]; other site 472759007608 L21 binding site [polypeptide binding]; other site 472759007609 L13 binding site [polypeptide binding]; other site 472759007610 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 472759007611 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 472759007612 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 472759007613 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 472759007614 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 472759007615 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...; Region: TGS_ThrRS_N; cd01667 472759007616 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 472759007617 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 472759007618 active site 472759007619 dimer interface [polypeptide binding]; other site 472759007620 motif 1; other site 472759007621 motif 2; other site 472759007622 motif 3; other site 472759007623 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 472759007624 anticodon binding site; other site 472759007625 excinuclease ABC subunit B; Provisional; Region: PRK05298 472759007626 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 472759007627 ATP binding site [chemical binding]; other site 472759007628 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 472759007629 nucleotide binding region [chemical binding]; other site 472759007630 ATP-binding site [chemical binding]; other site 472759007631 Ultra-violet resistance protein B; Region: UvrB; pfam12344 472759007632 UvrB/uvrC motif; Region: UVR; pfam02151 472759007633 hypothetical protein; Validated; Region: PRK07682 472759007634 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 472759007635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759007636 homodimer interface [polypeptide binding]; other site 472759007637 catalytic residue [active] 472759007638 Domain of unknown function DUF29; Region: DUF29; pfam01724 472759007639 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 472759007640 hydrolase, ortholog 2, exosortase system type 1 associated; Region: hydr2_PEP; TIGR03101 472759007641 Phosphopantetheine attachment site; Region: PP-binding; cl09936 472759007642 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 472759007643 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 472759007644 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 472759007645 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 472759007646 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 472759007647 dimer interface [polypeptide binding]; other site 472759007648 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 472759007649 Ligand Binding Site [chemical binding]; other site 472759007650 Molecular Tunnel; other site 472759007651 FkbH-like domain; Region: FkbH; TIGR01686 472759007652 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 472759007653 active site 472759007654 motif I; other site 472759007655 motif II; other site 472759007656 Macrocin-O-methyltransferase (TylF); Region: TylF; pfam05711 472759007657 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 472759007658 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 472759007659 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 472759007660 Trm112p-like protein; Region: Trm112p; cl01066 472759007661 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; cl12011 472759007662 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; cl12011 472759007663 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 472759007664 active site 472759007665 ATP binding site [chemical binding]; other site 472759007666 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 472759007667 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 472759007668 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core (; Region: GT1_wlbH_like; cd03798 472759007669 PEP-CTERM/exosortase 1-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 472759007670 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 472759007671 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 472759007672 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 472759007673 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 472759007674 active site 472759007675 dimer interface [polypeptide binding]; other site 472759007676 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 472759007677 Ligand Binding Site [chemical binding]; other site 472759007678 Molecular Tunnel; other site 472759007679 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues...; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 472759007680 active site 472759007681 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 472759007682 homodimer interface [polypeptide binding]; other site 472759007683 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 472759007684 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 472759007685 putative ADP-binding pocket [chemical binding]; other site 472759007686 eight transmembrane protein EpsH (proposed exosortase); Region: 8TM_EpsH; cl10495 472759007687 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 472759007688 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 472759007689 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 472759007690 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 472759007691 FemAB family; Region: FemAB; cl11444 472759007692 polysaccharide deactylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 472759007693 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 472759007694 Domain of unknown function (DUF3473); Region: DUF3473; pfam11959 472759007695 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 472759007696 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 472759007697 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 472759007698 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 472759007699 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 472759007700 Chain length determinant protein; Region: Wzz; cl01623 472759007701 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 472759007702 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 472759007703 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 472759007704 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 472759007705 binding surface 472759007706 TPR motif; other site 472759007707 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 472759007708 binding surface 472759007709 TPR motif; other site 472759007710 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 472759007711 binding surface 472759007712 TPR motif; other site 472759007713 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 472759007714 binding surface 472759007715 TPR motif; other site 472759007716 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 472759007717 TPR motif; other site 472759007718 binding surface 472759007719 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 472759007720 binding surface 472759007721 TPR motif; other site 472759007722 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 472759007723 binding surface 472759007724 TPR motif; other site 472759007725 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 472759007726 TPR motif; other site 472759007727 binding surface 472759007728 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 472759007729 binding surface 472759007730 TPR motif; other site 472759007731 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 472759007732 TPR motif; other site 472759007733 binding surface 472759007734 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 472759007735 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 472759007736 putative trimer interface [polypeptide binding]; other site 472759007737 putative CoA binding site [chemical binding]; other site 472759007738 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 472759007739 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 472759007740 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 472759007741 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 472759007742 Protein export membrane protein; Region: SecD_SecF; cl14618 472759007743 hypothetical protein; Validated; Region: PRK08223 472759007744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759007745 ATP binding site [chemical binding]; other site 472759007746 substrate interface [chemical binding]; other site 472759007747 hypothetical protein; Provisional; Region: PRK07877 472759007748 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 472759007749 dimer interface [polypeptide binding]; other site 472759007750 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 472759007751 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 472759007752 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 472759007753 Hemagglutinin; Region: Hemagglutinin; pfam00509 472759007754 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 472759007755 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 472759007756 oligomeric interface; other site 472759007757 putative active site [active] 472759007758 homodimer interface [polypeptide binding]; other site 472759007759 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 472759007760 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759007761 active site 472759007762 phosphorylation site [posttranslational modification] 472759007763 intermolecular recognition site; other site 472759007764 dimerization interface [polypeptide binding]; other site 472759007765 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...; Region: AAA; cd00009 472759007766 Walker A motif; other site 472759007767 ATP binding site [chemical binding]; other site 472759007768 Walker B motif; other site 472759007769 arginine finger; other site 472759007770 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 472759007771 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 472759007772 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 trans-...; Region: HisKA; cd00082 472759007773 dimer interface [polypeptide binding]; other site 472759007774 phosphorylation site [posttranslational modification] 472759007775 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 472759007776 ATP binding site [chemical binding]; other site 472759007777 Mg2+ binding site [ion binding]; other site 472759007778 G-X-G motif; other site 472759007779 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 472759007780 Bacterial sugar transferase; Region: Bac_transf; cl00939 472759007781 Cytochrome c; Region: Cytochrom_C; cl11414 472759007782 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 472759007783 Bacterial SH3 domain; Region: SH3_3; cl02551 472759007784 Dehydratase family; Region: ILVD_EDD; cl00340 472759007785 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 472759007786 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 472759007787 UvrD/REP helicase; Region: UvrD-helicase; cl14126 472759007788 UvrD/REP helicase; Region: UvrD-helicase; cl14126 472759007789 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 472759007790 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759007791 Membrane fusogenic activity; Region: BMFP; cl01115 472759007792 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759007793 Probable transposase; Region: OrfB_IS605; pfam01385 472759007794 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759007795 Protein of unknown function (DUF1597); Region: DUF1597; pfam07642 472759007796 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 472759007797 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 472759007798 N-acetylglutamate synthase; Validated; Region: PRK05279 472759007799 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an N-...; Region: AAK_NAGS-ABP; cd04237 472759007800 putative feedback inhibition sensing region; other site 472759007801 putative nucleotide binding site [chemical binding]; other site 472759007802 putative substrate binding site [chemical binding]; other site 472759007803 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 472759007804 Coenzyme A binding pocket [chemical binding]; other site 472759007805 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 472759007806 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 472759007807 GatB domain; Region: GatB_Yqey; cl11497 472759007808 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 472759007809 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 472759007810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759007811 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759007812 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 472759007813 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 472759007814 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; cl11391 472759007815 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where...; Region: Ap4A_hydrolase_plant_like; cd03671 472759007816 putative active site [active] 472759007817 Ap4A binding site [chemical binding]; other site 472759007818 nudix motif; other site 472759007819 putative metal binding site [ion binding]; other site 472759007820 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where...; Region: Ap4A_hydrolase_plant_like; cd03671 472759007821 putative active site [active] 472759007822 Ap4A binding site [chemical binding]; other site 472759007823 nudix motif; other site 472759007824 putative metal binding site [ion binding]; other site 472759007825 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 472759007826 Bacterial sugar transferase; Region: Bac_transf; cl00939 472759007827 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 472759007828 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 472759007829 catalytic triad [active] 472759007830 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 472759007831 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 472759007832 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 472759007833 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 472759007834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759007835 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 472759007836 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 472759007837 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 472759007838 S-adenosylmethionine binding site [chemical binding]; other site 472759007839 MatE; Region: MatE; cl10513 472759007840 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 6-...; Region: LbH_MAT_like; cd04647 472759007841 trimer interface [polypeptide binding]; other site 472759007842 active site 472759007843 substrate binding site [chemical binding]; other site 472759007844 CoA binding site [chemical binding]; other site 472759007845 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 472759007846 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759007847 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 472759007848 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 472759007849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759007850 NAD(P) binding site [chemical binding]; other site 472759007851 active site 472759007852 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 472759007853 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 472759007854 S-adenosylmethionine binding site [chemical binding]; other site 472759007855 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 472759007856 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 472759007857 active site 472759007858 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 472759007859 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 472759007860 Probable Catalytic site [active] 472759007861 metal binding site [ion binding]; metal-binding site 472759007862 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 472759007863 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 472759007864 active site 472759007865 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; cl12011 472759007866 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 472759007867 Integrase core domain; Region: rve; cl01316 472759007868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 472759007869 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759007870 MatE; Region: MatE; cl10513 472759007871 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 472759007872 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 472759007873 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 472759007874 active site 472759007875 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 472759007876 Ligand binding site [chemical binding]; other site 472759007877 Putative Catalytic site [active] 472759007878 DXD motif; other site 472759007879 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 472759007880 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 472759007881 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 472759007882 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 472759007883 Chain length determinant protein; Region: Wzz; cl01623 472759007884 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 472759007885 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 472759007886 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 472759007887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 472759007888 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 472759007889 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cd00882 472759007890 G1 box; other site 472759007891 GTP/Mg2+ binding site [chemical binding]; other site 472759007892 G2 box; other site 472759007893 Switch I region; other site 472759007894 G3 box; other site 472759007895 Switch II region; other site 472759007896 G4 box; other site 472759007897 G5 box; other site 472759007898 Response regulator receiver domain; Region: Response_reg; pfam00072 472759007899 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759007900 active site 472759007901 phosphorylation site [posttranslational modification] 472759007902 intermolecular recognition site; other site 472759007903 dimerization interface [polypeptide binding]; other site 472759007904 Response regulator receiver domain; Region: Response_reg; pfam00072 472759007905 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759007906 active site 472759007907 phosphorylation site [posttranslational modification] 472759007908 intermolecular recognition site; other site 472759007909 dimerization interface [polypeptide binding]; other site 472759007910 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 472759007911 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 472759007912 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 472759007913 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 472759007914 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; cl12011 472759007915 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 472759007916 putative binding surface; other site 472759007917 active site 472759007918 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 472759007919 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 472759007920 putative binding surface; other site 472759007921 active site 472759007922 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 472759007923 putative binding surface; other site 472759007924 active site 472759007925 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 472759007926 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 472759007927 ATP binding site [chemical binding]; other site 472759007928 Mg2+ binding site [ion binding]; other site 472759007929 G-X-G motif; other site 472759007930 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 472759007931 Response regulator receiver domain; Region: Response_reg; pfam00072 472759007932 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759007933 active site 472759007934 phosphorylation site [posttranslational modification] 472759007935 intermolecular recognition site; other site 472759007936 dimerization interface [polypeptide binding]; other site 472759007937 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 472759007938 CheB methylesterase; Region: CheB_methylest; pfam01339 472759007939 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 472759007940 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 472759007941 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 472759007942 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 472759007943 inhibitor-cofactor binding pocket; inhibition site 472759007944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759007945 catalytic residue [active] 472759007946 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 472759007947 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 472759007948 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 472759007949 Walker A/P-loop; other site 472759007950 ATP binding site [chemical binding]; other site 472759007951 Q-loop/lid; other site 472759007952 ABC transporter signature motif; other site 472759007953 Walker B; other site 472759007954 D-loop; other site 472759007955 H-loop/switch region; other site 472759007956 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 472759007957 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 472759007958 FtsX-like permease family; Region: FtsX; pfam02687 472759007959 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 472759007960 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 472759007961 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 472759007962 C-term; Region: GreA_GreB; pfam01272 472759007963 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 472759007964 NADP binding site [chemical binding]; other site 472759007965 homodimer interface [polypeptide binding]; other site 472759007966 active site 472759007967 Low molecular weight phosphatase family; Region: LMWPc; cd00115 472759007968 Active site [active] 472759007969 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_20; cd07254 472759007970 putative metal binding site [ion binding]; other site 472759007971 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 472759007972 dimerization interface [polypeptide binding]; other site 472759007973 putative DNA binding site [nucleotide binding]; other site 472759007974 putative Zn2+ binding site [ion binding]; other site 472759007975 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759007976 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 472759007977 Uncharacterised protein family (UPF0156); Region: RHH_2; cl01448 472759007978 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759007979 Predicted transcriptional regulator [Transcription]; Region: COG5340 472759007980 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 472759007981 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 472759007982 Domain of unknown function DUF87; Region: DUF87; pfam01935 472759007983 HerA helicase [Replication, recombination, and repair]; Region: COG0433 472759007984 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; cl12011 472759007985 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; cl12011 472759007986 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; cl12011 472759007987 Restriction endonuclease [Defense mechanisms]; Region: COG3587 472759007988 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759007989 Restriction endonuclease [Defense mechanisms]; Region: COG3587 472759007990 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 472759007991 Fic/DOC family; Region: Fic; cl00960 472759007992 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 472759007993 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 472759007994 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 472759007995 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 472759007996 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 472759007997 putative active site [active] 472759007998 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 472759007999 putative ADP-binding pocket [chemical binding]; other site 472759008000 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 472759008001 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 472759008002 putative active site [active] 472759008003 O-Antigen ligase; Region: Wzy_C; cl04850 472759008004 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 472759008005 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 472759008006 putative active site [active] 472759008007 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759008008 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 472759008009 putative ADP-binding pocket [chemical binding]; other site 472759008010 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 472759008011 Protein of unknown function (DUF1022); Region: DUF1022; pfam06258 472759008012 spermidine synthase; Provisional; Region: PRK00811 472759008013 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; cl12011 472759008014 arginine decarboxylase; Provisional; Region: PRK05354 472759008015 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 472759008016 dimer interface [polypeptide binding]; other site 472759008017 active site 472759008018 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 472759008019 catalytic residues [active] 472759008020 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 472759008021 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 472759008022 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 472759008023 DNA polymerase I; Provisional; Region: PRK05755 472759008024 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 472759008025 active site 472759008026 metal binding site 1 [ion binding]; metal-binding site 472759008027 putative 5' ssDNA interaction site; other site 472759008028 metal binding site 3; metal-binding site 472759008029 metal binding site 2 [ion binding]; metal-binding site 472759008030 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 472759008031 putative DNA binding site [nucleotide binding]; other site 472759008032 putative metal binding site [ion binding]; other site 472759008033 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 472759008034 active site 472759008035 catalytic site [active] 472759008036 substrate binding site [chemical binding]; other site 472759008037 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 472759008038 active site 472759008039 DNA binding site [nucleotide binding] 472759008040 catalytic site [active] 472759008041 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 472759008042 G1 box; other site 472759008043 GTP/Mg2+ binding site [chemical binding]; other site 472759008044 Switch I region; other site 472759008045 G2 box; other site 472759008046 G3 box; other site 472759008047 Switch II region; other site 472759008048 G4 box; other site 472759008049 G5 box; other site 472759008050 Cytochrome c; Region: Cytochrom_C; cl11414 472759008051 Cytochrome c; Region: Cytochrom_C; cl11414 472759008052 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 472759008053 catalytic residues [active] 472759008054 hinge region; other site 472759008055 alpha helical domain; other site 472759008056 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 472759008057 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 472759008058 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 472759008059 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 472759008060 dimerization interface [polypeptide binding]; other site 472759008061 putative DNA binding site [nucleotide binding]; other site 472759008062 putative Zn2+ binding site [ion binding]; other site 472759008063 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 472759008064 active site 472759008065 NTP binding site [chemical binding]; other site 472759008066 metal binding triad [ion binding]; metal-binding site 472759008067 antibiotic binding site [chemical binding]; other site 472759008068 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 472759008069 ADP-ribose binding site [chemical binding]; other site 472759008070 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; cl12011 472759008071 Protein of unknown function DUF45; Region: DUF45; cl00636 472759008072 short chain dehydrogenase; Provisional; Region: PRK06841 472759008073 classical (c) SDRs; Region: SDR_c; cd05233 472759008074 NAD(P) binding site [chemical binding]; other site 472759008075 active site 472759008076 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 472759008077 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 472759008078 Ligand binding site [chemical binding]; other site 472759008079 oligomer interface [polypeptide binding]; other site 472759008080 Low molecular weight phosphatase family; Region: LMWPc; cd00115 472759008081 Active site [active] 472759008082 ribonuclease E; Reviewed; Region: rne; PRK10811 472759008083 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 472759008084 homodimer interface [polypeptide binding]; other site 472759008085 oligonucleotide binding site [chemical binding]; other site 472759008086 recombination factor protein RarA; Reviewed; Region: PRK13342 472759008087 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...; Region: AAA; cd00009 472759008088 Walker A motif; other site 472759008089 ATP binding site [chemical binding]; other site 472759008090 Walker B motif; other site 472759008091 arginine finger; other site 472759008092 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 472759008093 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 472759008094 Extracellular matrix protein 1 (ECM1); Region: ECM1; pfam05782 472759008095 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759008096 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 472759008097 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 472759008098 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 472759008099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759008100 NAD(P) binding pocket [chemical binding]; other site 472759008101 thioredoxin reductase; Provisional; Region: PRK10262 472759008102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759008103 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 472759008104 Peptidase family M48; Region: Peptidase_M48; cl12018 472759008105 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 472759008106 putative active site [active] 472759008107 putative substrate binding site [chemical binding]; other site 472759008108 catalytic site [active] 472759008109 dimer interface [polypeptide binding]; other site 472759008110 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 472759008111 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 472759008112 putative carbohydrate kinase; Provisional; Region: PRK10565 472759008113 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 472759008114 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 472759008115 putative substrate binding site [chemical binding]; other site 472759008116 putative ATP binding site [chemical binding]; other site 472759008117 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 472759008118 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 472759008119 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 472759008120 active site 472759008121 metal binding site [ion binding]; metal-binding site 472759008122 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 472759008123 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 472759008124 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 472759008125 ATP binding site [chemical binding]; other site 472759008126 Mg2+ binding site [ion binding]; other site 472759008127 G-X-G motif; other site 472759008128 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 472759008129 ATP binding site [chemical binding]; other site 472759008130 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 472759008131 PAS domain S-box; Region: sensory_box; TIGR00229 472759008132 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 472759008133 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759008134 metal binding site [ion binding]; metal-binding site 472759008135 active site 472759008136 I-site; other site 472759008137 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 472759008138 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 472759008139 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759008140 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 472759008141 putative dimerization interface [polypeptide binding]; other site 472759008142 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 472759008143 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 472759008144 dimer interface [polypeptide binding]; other site 472759008145 catalytic residue [active] 472759008146 metal binding site [ion binding]; metal-binding site 472759008147 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 472759008148 multimerization interface [polypeptide binding]; other site 472759008149 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 472759008150 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 472759008151 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 472759008152 metal ion-dependent adhesion site (MIDAS); other site 472759008153 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit; Region: rbcL; CHL00040 472759008154 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 472759008155 homodimer interface [polypeptide binding]; other site 472759008156 active site 472759008157 heterodimer interface [polypeptide binding]; other site 472759008158 catalytic residue [active] 472759008159 metal binding site [ion binding]; metal-binding site 472759008160 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 472759008161 multimerization interface [polypeptide binding]; other site 472759008162 CbbX; Provisional; Region: cbbX; CHL00181 472759008163 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...; Region: AAA; cd00009 472759008164 Walker A motif; other site 472759008165 ATP binding site [chemical binding]; other site 472759008166 Walker B motif; other site 472759008167 arginine finger; other site 472759008168 hypothetical protein; Provisional; Region: PRK08185 472759008169 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...; Region: TBP_aldolase_IIB; cd00947 472759008170 intersubunit interface [polypeptide binding]; other site 472759008171 active site 472759008172 zinc binding site [ion binding]; other site 472759008173 Na+ binding site [ion binding]; other site 472759008174 pyruvate kinase; Provisional; Region: PRK05826 472759008175 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 472759008176 domain interfaces; other site 472759008177 active site 472759008178 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 472759008179 substrate binding site [chemical binding]; other site 472759008180 hinge regions; other site 472759008181 ADP binding site [chemical binding]; other site 472759008182 catalytic site [active] 472759008183 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 472759008184 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 472759008185 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 472759008186 transketolase; Reviewed; Region: PRK12753 472759008187 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 472759008188 TPP-binding site [chemical binding]; other site 472759008189 dimer interface [polypeptide binding]; other site 472759008190 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 472759008191 PYR/PP interface [polypeptide binding]; other site 472759008192 dimer interface [polypeptide binding]; other site 472759008193 TPP binding site [chemical binding]; other site 472759008194 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 472759008195 dihydrodipicolinate reductase; Provisional; Region: PRK00048 472759008196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759008197 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 472759008198 chaperone protein DnaJ; Provisional; Region: PRK10767 472759008199 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...; Region: DnaJ; cd06257 472759008200 HSP70 interaction site [polypeptide binding]; other site 472759008201 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 472759008202 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 472759008203 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 472759008204 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 472759008205 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 472759008206 dimer interface [polypeptide binding]; other site 472759008207 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 472759008208 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 472759008209 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 472759008210 HrcA protein C terminal domain; Region: HrcA; pfam01628 472759008211 Proteobacterial; Region: dnaQ_proteo; TIGR01406 472759008212 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 472759008213 active site 472759008214 substrate binding site [chemical binding]; other site 472759008215 catalytic site [active] 472759008216 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 472759008217 RNA/DNA hybrid binding site [nucleotide binding]; other site 472759008218 active site 472759008219 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; cl12011 472759008220 Uncharacterized conserved protein [Function unknown]; Region: COG5590 472759008221 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 472759008222 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 472759008223 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 472759008224 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 472759008225 heterodimer interface [polypeptide binding]; other site 472759008226 active site 472759008227 FMN binding site [chemical binding]; other site 472759008228 homodimer interface [polypeptide binding]; other site 472759008229 substrate binding site [chemical binding]; other site 472759008230 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 472759008231 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 472759008232 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 472759008233 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759008234 Active site [active] 472759008235 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 472759008236 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 472759008237 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759008238 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 472759008239 ThiC family; Region: ThiC; cl08031 472759008240 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex; Region: MutH_Sau3AI; cd00583 472759008241 putative DNA-binding cleft [nucleotide binding]; other site 472759008242 putative DNA clevage site; other site 472759008243 molecular lever; other site 472759008244 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 472759008245 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759008246 Walker A/P-loop; other site 472759008247 ATP binding site [chemical binding]; other site 472759008248 Q-loop/lid; other site 472759008249 ABC transporter signature motif; other site 472759008250 Walker B; other site 472759008251 D-loop; other site 472759008252 H-loop/switch region; other site 472759008253 ABC-2 type transporter; Region: ABC2_membrane; cl11417 472759008254 Bacitracin resistance protein BacA; Region: BacA; cl00858 472759008255 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 472759008256 23S rRNA interface [nucleotide binding]; other site 472759008257 L3 interface [polypeptide binding]; other site 472759008258 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 472759008259 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759008260 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 472759008261 non-specific DNA binding site [nucleotide binding]; other site 472759008262 salt bridge; other site 472759008263 sequence-specific DNA binding site [nucleotide binding]; other site 472759008264 Phd_YefM; Region: PhdYeFM; cl09153 472759008265 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 472759008266 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 472759008267 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 472759008268 cysteine synthases; Region: cysKM; TIGR01136 472759008269 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 472759008270 dimer interface [polypeptide binding]; other site 472759008271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759008272 catalytic residue [active] 472759008273 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 472759008274 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 472759008275 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 472759008276 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 472759008277 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 472759008278 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 472759008279 ALDH subfamily: ALDH families 1and 2, including 10-formyltetrahydrofolate dehydrogenase, NAD+-dependent retinal dehydrogenase 1 and related proteins; Region: ALDH_F1-2_Ald2-like; cd07091 472759008280 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 472759008281 NAD(P) binding site [chemical binding]; other site 472759008282 catalytic residues [active] 472759008283 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 472759008284 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 472759008285 tetramer interface [polypeptide binding]; other site 472759008286 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759008287 catalytic residue [active] 472759008288 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 472759008289 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 472759008290 metal binding site [ion binding]; metal-binding site 472759008291 putative dimer interface [polypeptide binding]; other site 472759008292 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 472759008293 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 472759008294 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate...; Region: APP_MetAP; cd01066 472759008295 active site 472759008296 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 472759008297 DNA-binding site [nucleotide binding]; DNA binding site 472759008298 RNA-binding motif; other site 472759008299 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 472759008300 RNA/DNA binding site [nucleotide binding]; other site 472759008301 helicase 45; Provisional; Region: PTZ00424 472759008302 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 472759008303 ATP binding site [chemical binding]; other site 472759008304 Mg++ binding site [ion binding]; other site 472759008305 motif III; other site 472759008306 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 472759008307 nucleotide binding region [chemical binding]; other site 472759008308 ATP-binding site [chemical binding]; other site 472759008309 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759008310 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759008311 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 472759008312 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 472759008313 putative ribose interaction site [chemical binding]; other site 472759008314 putative ADP binding site [chemical binding]; other site 472759008315 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 472759008316 active site 472759008317 nucleotide binding site [chemical binding]; other site 472759008318 HIGH motif; other site 472759008319 KMSKS motif; other site 472759008320 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 472759008321 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 472759008322 NADP binding site [chemical binding]; other site 472759008323 homopentamer interface [polypeptide binding]; other site 472759008324 substrate binding site [chemical binding]; other site 472759008325 active site 472759008326 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 472759008327 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 472759008328 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 472759008329 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 472759008330 Outer membrane efflux protein; Region: OEP; pfam02321 472759008331 Outer membrane efflux protein; Region: OEP; pfam02321 472759008332 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 472759008333 S-adenosylmethionine binding site [chemical binding]; other site 472759008334 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 two-...; Region: SirA_YedF_YeeD; cd00291 472759008335 CPxP motif; other site 472759008336 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 472759008337 Peptidase family M48; Region: Peptidase_M48; cl12018 472759008338 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 472759008339 binding surface 472759008340 TPR motif; other site 472759008341 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; cl14189 472759008342 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 472759008343 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 472759008344 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 472759008345 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 472759008346 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 472759008347 FeS/SAM binding site; other site 472759008348 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 472759008349 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759008350 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 472759008351 Walker A/P-loop; other site 472759008352 ATP binding site [chemical binding]; other site 472759008353 Q-loop/lid; other site 472759008354 ABC transporter signature motif; other site 472759008355 Walker B; other site 472759008356 D-loop; other site 472759008357 H-loop/switch region; other site 472759008358 ABC-2 type transporter; Region: ABC2_membrane; cl11417 472759008359 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 472759008360 Kelch motif; Region: Kelch_1; cl02701 472759008361 Kelch motif; Region: Kelch_1; cl02701 472759008362 Kelch motif; Region: Kelch_1; cl02701 472759008363 kelch-like protein; Provisional; Region: PHA03098 472759008364 Kelch motif; Region: Kelch_1; cl02701 472759008365 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 472759008366 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 472759008367 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-2,3-...; Region: LbH_LpxD; cd03352 472759008368 trimer interface [polypeptide binding]; other site 472759008369 active site 472759008370 UDP-GlcNAc binding site [chemical binding]; other site 472759008371 lipid binding site [chemical binding]; lipid-binding site 472759008372 Uncharacterised protein family (UPF0093); Region: UPF0093; cl00863 472759008373 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 472759008374 HicB family; Region: HicB; pfam05534 472759008375 DNA repair protein RadA; Provisional; Region: PRK11823 472759008376 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759008377 Walker A motif; other site 472759008378 ATP binding site [chemical binding]; other site 472759008379 Walker B motif; other site 472759008380 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 472759008381 alanine racemase; Reviewed; Region: alr; PRK00053 472759008382 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 472759008383 active site 472759008384 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 472759008385 substrate binding site [chemical binding]; other site 472759008386 catalytic residues [active] 472759008387 dimer interface [polypeptide binding]; other site 472759008388 replicative DNA helicase; Region: DnaB; TIGR00665 472759008389 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 472759008390 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 472759008391 Walker A motif; other site 472759008392 ATP binding site [chemical binding]; other site 472759008393 Walker B motif; other site 472759008394 DNA binding loops [nucleotide binding] 472759008395 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 472759008396 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 472759008397 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 472759008398 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 472759008399 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 472759008400 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 472759008401 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 472759008402 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 472759008403 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 472759008404 PAS domain S-box; Region: sensory_box; TIGR00229 472759008405 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 472759008406 GAF domain; Region: GAF; cl00853 472759008407 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 trans-...; Region: HisKA; cd00082 472759008408 dimer interface [polypeptide binding]; other site 472759008409 phosphorylation site [posttranslational modification] 472759008410 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 472759008411 ATP binding site [chemical binding]; other site 472759008412 Mg2+ binding site [ion binding]; other site 472759008413 G-X-G motif; other site 472759008414 Response regulator receiver domain; Region: Response_reg; pfam00072 472759008415 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759008416 active site 472759008417 phosphorylation site [posttranslational modification] 472759008418 intermolecular recognition site; other site 472759008419 dimerization interface [polypeptide binding]; other site 472759008420 trehalose synthase; Region: treS_nterm; TIGR02456 472759008421 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 472759008422 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 472759008423 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 472759008424 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 472759008425 pyruvate phosphate dikinase; Provisional; Region: PRK05878 472759008426 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 472759008427 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 472759008428 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 472759008429 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 472759008430 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 472759008431 Active_site [active] 472759008432 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 472759008433 MPT binding site; other site 472759008434 trimer interface [polypeptide binding]; other site 472759008435 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 472759008436 Transposase IS200 like; Region: Y1_Tnp; cl00848 472759008437 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 472759008438 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 connected by an extended linker. The...; Region: HAMP; cl01054 472759008439 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 trans-...; Region: HisKA; cd00082 472759008440 dimer interface [polypeptide binding]; other site 472759008441 phosphorylation site [posttranslational modification] 472759008442 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 472759008443 ATP binding site [chemical binding]; other site 472759008444 Mg2+ binding site [ion binding]; other site 472759008445 G-X-G motif; other site 472759008446 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 472759008447 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759008448 active site 472759008449 phosphorylation site [posttranslational modification] 472759008450 intermolecular recognition site; other site 472759008451 dimerization interface [polypeptide binding]; other site 472759008452 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...; Region: AAA; cd00009 472759008453 Walker A motif; other site 472759008454 ATP binding site [chemical binding]; other site 472759008455 Walker B motif; other site 472759008456 arginine finger; other site 472759008457 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 472759008458 CHASE2 domain; Region: CHASE2; cl01732 472759008459 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 472759008460 cyclase homology domain; Region: CHD; cd07302 472759008461 nucleotidyl binding site; other site 472759008462 metal binding site [ion binding]; metal-binding site 472759008463 dimer interface [polypeptide binding]; other site 472759008464 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 472759008465 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 472759008466 ligand binding site [chemical binding]; other site 472759008467 flexible hinge region; other site 472759008468 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 472759008469 putative switch regulator; other site 472759008470 non-specific DNA interactions [nucleotide binding]; other site 472759008471 DNA binding site [nucleotide binding] 472759008472 sequence specific DNA binding site [nucleotide binding]; other site 472759008473 putative cAMP binding site [chemical binding]; other site 472759008474 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 472759008475 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 472759008476 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 472759008477 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 472759008478 dimer interface [polypeptide binding]; other site 472759008479 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 472759008480 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 472759008481 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 472759008482 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; cl12011 472759008483 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 472759008484 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 472759008485 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 472759008486 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 472759008487 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...; Region: TM_PBP2; cl00427 472759008488 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 472759008489 DsbD alpha interface [polypeptide binding]; other site 472759008490 catalytic residues [active] 472759008491 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...; Region: TlpA_like_family; cd02966 472759008492 catalytic residues [active] 472759008493 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 472759008494 trimer interface [polypeptide binding]; other site 472759008495 active site 472759008496 dimer interface [polypeptide binding]; other site 472759008497 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 472759008498 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 472759008499 carboxyltransferase (CT) interaction site; other site 472759008500 biotinylation site [posttranslational modification]; other site 472759008501 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 472759008502 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 472759008503 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759008504 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 472759008505 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 472759008506 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; cl12011 472759008507 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 472759008508 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 472759008509 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 472759008510 purine monophosphate binding site [chemical binding]; other site 472759008511 dimer interface [polypeptide binding]; other site 472759008512 putative catalytic residues [active] 472759008513 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 472759008514 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 472759008515 adenylate cyclase; Provisional; Region: cyaA; PRK09450 472759008516 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 472759008517 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 472759008518 adenylate cyclase; Provisional; Region: cyaA; PRK09450 472759008519 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 472759008520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759008521 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 472759008522 Polymer-forming cytoskeletal; Region: Bactofilin; cl09137 472759008523 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 472759008524 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 472759008525 dimer interface [polypeptide binding]; other site 472759008526 [2Fe-2S] cluster binding site [ion binding]; other site 472759008527 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 472759008528 active site lid residues [active] 472759008529 substrate binding pocket [chemical binding]; other site 472759008530 catalytic residues [active] 472759008531 substrate-Mg2+ binding site; other site 472759008532 aspartate-rich region 1; other site 472759008533 aspartate-rich region 2; other site 472759008534 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 472759008535 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 472759008536 RNA binding surface [nucleotide binding]; other site 472759008537 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 472759008538 probable active site [active] 472759008539 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 472759008540 ScpA/B protein; Region: ScpA_ScpB; cl00598 472759008541 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 472759008542 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 472759008543 active site 472759008544 HIGH motif; other site 472759008545 dimer interface [polypeptide binding]; other site 472759008546 KMSKS motif; other site 472759008547 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 472759008548 active site 472759008549 seryl-tRNA synthetase; Provisional; Region: PRK05431 472759008550 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 472759008551 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 472759008552 dimer interface [polypeptide binding]; other site 472759008553 active site 472759008554 motif 1; other site 472759008555 motif 2; other site 472759008556 motif 3; other site 472759008557 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 472759008558 NlpC/P60 family; Region: NLPC_P60; cl11438 472759008559 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 472759008560 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 472759008561 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; cl09110 472759008562 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 472759008563 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 472759008564 catalytic triad [active] 472759008565 threonine dehydratase; Provisional; Region: PRK07334 472759008566 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 472759008567 tetramer interface [polypeptide binding]; other site 472759008568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759008569 catalytic residue [active] 472759008570 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 472759008571 Predicted acyl esterases [General function prediction only]; Region: COG2936 472759008572 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 472759008573 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 472759008574 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759008575 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 472759008576 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 472759008577 putative cation:proton antiport protein; Provisional; Region: PRK10669 472759008578 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 472759008579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759008580 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; cl09110 472759008581 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G_bact; cd04170 472759008582 elongation factor G; Reviewed; Region: PRK12740 472759008583 G1 box; other site 472759008584 putative GEF interaction site [polypeptide binding]; other site 472759008585 GTP/Mg2+ binding site [chemical binding]; other site 472759008586 Switch I region; other site 472759008587 G2 box; other site 472759008588 G3 box; other site 472759008589 Switch II region; other site 472759008590 G4 box; other site 472759008591 G5 box; other site 472759008592 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...; Region: EFG_mtEFG_II; cd04088 472759008593 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...; Region: EFG_mtEFG1_IV; cd01434 472759008594 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...; Region: EFG_mtEFG_C; cd03713 472759008595 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 472759008596 aromatic arch; other site 472759008597 DCoH dimer interaction site [polypeptide binding]; other site 472759008598 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 472759008599 DCoH tetramer interaction site [polypeptide binding]; other site 472759008600 substrate binding site [chemical binding]; other site 472759008601 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 472759008602 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 472759008603 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 472759008604 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759008605 metal binding site [ion binding]; metal-binding site 472759008606 active site 472759008607 I-site; other site 472759008608 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 472759008609 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 472759008610 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 472759008611 substrate binding pocket [chemical binding]; other site 472759008612 chain length determination region; other site 472759008613 substrate-Mg2+ binding site; other site 472759008614 catalytic residues [active] 472759008615 aspartate-rich region 1; other site 472759008616 active site lid residues [active] 472759008617 aspartate-rich region 2; other site 472759008618 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 472759008619 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 472759008620 S-adenosylmethionine binding site [chemical binding]; other site 472759008621 Integral membrane protein TerC family; Region: TerC; cl10468 472759008622 hypothetical protein; Provisional; Region: PRK11281 472759008623 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 472759008624 Mechanosensitive ion channel; Region: MS_channel; pfam00924 472759008625 Integral membrane protein TerC family; Region: TerC; cl10468 472759008626 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 472759008627 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 472759008628 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 472759008629 FeS/SAM binding site; other site 472759008630 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 472759008631 putative ligand binding pocket/active site [active] 472759008632 putative metal binding site [ion binding]; other site 472759008633 AMMECR1; Region: AMMECR1; cl00911 472759008634 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 472759008635 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 472759008636 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 472759008637 flagellar motor protein MotD; Reviewed; Region: PRK09038 472759008638 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 472759008639 ligand binding site [chemical binding]; other site 472759008640 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 472759008641 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 472759008642 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 472759008643 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 472759008644 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 472759008645 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...; Region: Sigma70_r4; cd06171 472759008646 DNA binding residues [nucleotide binding] 472759008647 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 472759008648 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 472759008649 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 472759008650 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 472759008651 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 472759008652 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 472759008653 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 472759008654 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 472759008655 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 472759008656 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 472759008657 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 472759008658 FliP family; Region: FliP; cl00593 472759008659 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 472759008660 flagellar motor switch protein; Validated; Region: fliN; PRK05698 472759008661 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 472759008662 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 472759008663 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 472759008664 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 472759008665 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 472759008666 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 472759008667 putative NAD(P) binding site [chemical binding]; other site 472759008668 active site 472759008669 putative substrate binding site [chemical binding]; other site 472759008670 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 472759008671 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 472759008672 Probable Catalytic site [active] 472759008673 metal binding site [ion binding]; metal-binding site 472759008674 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 472759008675 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 472759008676 active site 472759008677 catalytic residues [active] 472759008678 putative active site [active] 472759008679 putative catalytic triad [active] 472759008680 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 472759008681 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 472759008682 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; cl11391 472759008683 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759008684 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 472759008685 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 472759008686 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 472759008687 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 472759008688 active site 472759008689 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 472759008690 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 472759008691 Ligand binding site [chemical binding]; other site 472759008692 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 472759008693 S-adenosylmethionine binding site [chemical binding]; other site 472759008694 ubiquinone biosynthesis O-methyltransferase; Region: UbiG; TIGR01983 472759008695 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 472759008696 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 472759008697 Probable Catalytic site [active] 472759008698 metal binding site [ion binding]; metal-binding site 472759008699 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759008700 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 472759008701 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 472759008702 S-adenosylmethionine binding site [chemical binding]; other site 472759008703 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 472759008704 putative acyl-acceptor binding pocket; other site 472759008705 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 472759008706 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 472759008707 Walker A/P-loop; other site 472759008708 ATP binding site [chemical binding]; other site 472759008709 Q-loop/lid; other site 472759008710 ABC transporter signature motif; other site 472759008711 Walker B; other site 472759008712 D-loop; other site 472759008713 H-loop/switch region; other site 472759008714 ABC-2 type transporter; Region: ABC2_membrane; cl11417 472759008715 YcfA-like protein; Region: YcfA; cl00752 472759008716 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 472759008717 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 472759008718 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 472759008719 putative active site [active] 472759008720 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 472759008721 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 472759008722 Probable transposase; Region: OrfB_IS605; pfam01385 472759008723 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 472759008724 Uncharacterised protein family (UPF0156); Region: RHH_2; cl01448 472759008725 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 472759008726 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 472759008727 PPIC-type PPIASE domain; Region: Rotamase; cl08278 472759008728 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 472759008729 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 472759008730 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 472759008731 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 472759008732 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 472759008733 general secretion pathway protein C; Region: typeII_sec_gspC; TIGR01713 472759008734 General secretion pathway protein M; Region: GspM_II; pfam10741 472759008735 general secretion pathway protein L; Region: typeII_sec_gspL; TIGR01709 472759008736 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 472759008737 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 472759008738 General secretion pathway protein K; Region: GspK; pfam03934 472759008739 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 472759008740 general secretion pathway protein J; Validated; Region: PRK08808 472759008741 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 472759008742 TPR motif; other site 472759008743 binding surface 472759008744 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 472759008745 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 472759008746 Ligand binding site [chemical binding]; other site 472759008747 Putative Catalytic site [active] 472759008748 DXD motif; other site 472759008749 Cytochrome c; Region: Cytochrom_C; cl11414 472759008750 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 472759008751 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 472759008752 putative ADP-binding pocket [chemical binding]; other site 472759008753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 472759008754 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 472759008755 Probable Catalytic site [active] 472759008756 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 472759008757 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 472759008758 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 472759008759 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 472759008760 Walker A/P-loop; other site 472759008761 ATP binding site [chemical binding]; other site 472759008762 Q-loop/lid; other site 472759008763 ABC transporter signature motif; other site 472759008764 Walker B; other site 472759008765 D-loop; other site 472759008766 H-loop/switch region; other site 472759008767 ABC-2 type transporter; Region: ABC2_membrane; cl11417 472759008768 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 472759008769 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 472759008770 Probable Catalytic site [active] 472759008771 metal binding site [ion binding]; metal-binding site 472759008772 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 472759008773 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 472759008774 active site 472759008775 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 472759008776 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 472759008777 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; cl12011 472759008778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 472759008779 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 472759008780 S-adenosylmethionine binding site [chemical binding]; other site 472759008781 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 472759008782 PPIC-type PPIASE domain; Region: Rotamase; cl08278 472759008783 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 472759008784 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...; Region: GDC-P; cd00613 472759008785 tetramer interface [polypeptide binding]; other site 472759008786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759008787 catalytic residue [active] 472759008788 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 472759008789 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 472759008790 substrate binding site [chemical binding]; other site 472759008791 ATP binding site [chemical binding]; other site 472759008792 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 472759008793 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein...; Region: SSP411; cd02955 472759008794 catalytic residues [active] 472759008795 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 472759008796 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 472759008797 RNA binding surface [nucleotide binding]; other site 472759008798 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...; Region: PseudoU_synth_RluCD_like; cd02869 472759008799 active site 472759008800 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 472759008801 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 472759008802 putative NAD(P) binding site [chemical binding]; other site 472759008803 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 472759008804 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 472759008805 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 472759008806 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 472759008807 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 472759008808 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 472759008809 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 472759008810 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 472759008811 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 472759008812 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 472759008813 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 472759008814 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 alpha-; Region: HCP_like; cl14655 472759008815 NADH dehydrogenase; Region: NADHdh; cl00469 472759008816 NADH dehydrogenase subunit G; Validated; Region: PRK09129 472759008817 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 472759008818 catalytic loop [active] 472759008819 iron binding site [ion binding]; other site 472759008820 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 472759008821 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions...; Region: MopB_NDH-1_NuoG2; cd02772 472759008822 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-; Region: MopB_CT; cl09929 472759008823 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 472759008824 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 472759008825 SLBB domain; Region: SLBB; pfam10531 472759008826 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 472759008827 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 472759008828 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of...; Region: TRX_Fd_NuoE; cd03064 472759008829 putative dimer interface [polypeptide binding]; other site 472759008830 [2Fe-2S] cluster binding site [ion binding]; other site 472759008831 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 472759008832 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 472759008833 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 472759008834 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 472759008835 Preprotein translocase SecG subunit; Region: SecG; cl09123 472759008836 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 472759008837 substrate binding site [chemical binding]; other site 472759008838 dimer interface [polypeptide binding]; other site 472759008839 catalytic triad [active] 472759008840 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 472759008841 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of UDP-N-...; Region: GlmM; cd05802 472759008842 active site 472759008843 substrate binding site [chemical binding]; other site 472759008844 metal binding site [ion binding]; metal-binding site 472759008845 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 472759008846 dihydropteroate synthase; Region: DHPS; TIGR01496 472759008847 substrate binding pocket [chemical binding]; other site 472759008848 dimer interface [polypeptide binding]; other site 472759008849 inhibitor binding site; inhibition site 472759008850 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 472759008851 FtsH Extracellular; Region: FtsH_ext; pfam06480 472759008852 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...; Region: AAA; cd00009 472759008853 Walker A motif; other site 472759008854 ATP binding site [chemical binding]; other site 472759008855 Walker B motif; other site 472759008856 arginine finger; other site 472759008857 Peptidase family M41; Region: Peptidase_M41; pfam01434 472759008858 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; cl12011 472759008859 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 472759008860 domain; Region: GreA_GreB_N; pfam03449 472759008861 C-term; Region: GreA_GreB; pfam01272 472759008862 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 472759008863 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 472759008864 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759008865 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 472759008866 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 472759008867 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759008868 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 472759008869 IMP binding site; other site 472759008870 dimer interface [polypeptide binding]; other site 472759008871 interdomain contacts; other site 472759008872 partial ornithine binding site; other site 472759008873 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 472759008874 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 472759008875 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 472759008876 catalytic site [active] 472759008877 subunit interface [polypeptide binding]; other site 472759008878 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 472759008879 dimer interface [polypeptide binding]; other site 472759008880 active site 472759008881 aspartate-rich active site metal binding site; other site 472759008882 allosteric magnesium binding site [ion binding]; other site 472759008883 Schiff base residues; other site 472759008884 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 472759008885 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 472759008886 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 472759008887 shikimate binding site; other site 472759008888 NAD(P) binding site [chemical binding]; other site 472759008889 Cell division protein ZapA; Region: ZapA; cl01146 472759008890 TIGR02449 family protein; Region: TIGR02449 472759008891 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 472759008892 proline aminopeptidase P II; Provisional; Region: PRK10879 472759008893 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 472759008894 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action...; Region: Prolidase; cd01087 472759008895 active site 472759008896 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 472759008897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759008898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759008899 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 472759008900 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 472759008901 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 472759008902 ATP binding site [chemical binding]; other site 472759008903 Mg++ binding site [ion binding]; other site 472759008904 motif III; other site 472759008905 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 472759008906 nucleotide binding region [chemical binding]; other site 472759008907 ATP-binding site [chemical binding]; other site 472759008908 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 472759008909 catalytic residues [active] 472759008910 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 472759008911 adenylosuccinate synthetase; Provisional; Region: PRK01117 472759008912 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 r-...; Region: AdSS; cd03108 472759008913 GDP-binding site [chemical binding]; other site 472759008914 ACT binding site; other site 472759008915 IMP binding site; other site 472759008916 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 472759008917 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 472759008918 dimer interface [polypeptide binding]; other site 472759008919 motif 1; other site 472759008920 active site 472759008921 motif 2; other site 472759008922 motif 3; other site 472759008923 FtsH protease regulator HflC; Provisional; Region: PRK11029 472759008924 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 472759008925 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 472759008926 HflK protein; Region: hflK; TIGR01933 472759008927 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 472759008928 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 472759008929 G1 box; other site 472759008930 GTP/Mg2+ binding site [chemical binding]; other site 472759008931 Switch I region; other site 472759008932 G2 box; other site 472759008933 G3 box; other site 472759008934 Switch II region; other site 472759008935 G4 box; other site 472759008936 G5 box; other site 472759008937 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 472759008938 Sm1 motif; other site 472759008939 intra - hexamer interaction site; other site 472759008940 inter - hexamer interaction site [polypeptide binding]; other site 472759008941 nucleotide binding pocket [chemical binding]; other site 472759008942 Sm2 motif; other site 472759008943 IPP transferase; Region: IPPT; cl00403 472759008944 transcription termination factor Rho; Provisional; Region: rho; PRK09376 472759008945 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 472759008946 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...; Region: Rho_CSD; cd04459 472759008947 RNA binding site [nucleotide binding]; other site 472759008948 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...; Region: rho_factor; cd01128 472759008949 multimer interface [polypeptide binding]; other site 472759008950 Walker A motif; other site 472759008951 ATP binding site [chemical binding]; other site 472759008952 Walker B motif; other site 472759008953 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14969 472759008954 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...; Region: AAA; cd00009 472759008955 Walker A motif; other site 472759008956 ATP binding site [chemical binding]; other site 472759008957 Walker B motif; other site 472759008958 arginine finger; other site 472759008959 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 472759008960 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 472759008961 recombination protein RecR; Reviewed; Region: recR; PRK00076 472759008962 RecR protein; Region: RecR; pfam02132 472759008963 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 472759008964 putative active site [active] 472759008965 putative metal-binding site [ion binding]; other site 472759008966 tetramer interface [polypeptide binding]; other site 472759008967 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 472759008968 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 472759008969 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 472759008970 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 472759008971 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 472759008972 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 472759008973 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 472759008974 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 472759008975 rRNA binding site [nucleotide binding]; other site 472759008976 predicted 30S ribosome binding site; other site 472759008977 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 472759008978 hypothetical protein; Provisional; Region: PRK11032 472759008979 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 472759008980 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 472759008981 nucleoside/Zn binding site; other site 472759008982 dimer interface [polypeptide binding]; other site 472759008983 catalytic motif [active] 472759008984 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 472759008985 Predicted transcriptional regulator [Transcription]; Region: COG5340 472759008986 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 472759008987 GMP synthase; Reviewed; Region: guaA; PRK00074 472759008988 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 472759008989 AMP/PPi binding site [chemical binding]; other site 472759008990 candidate oxyanion hole; other site 472759008991 catalytic triad [active] 472759008992 potential glutamine specificity residues [chemical binding]; other site 472759008993 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 472759008994 ATP Binding subdomain [chemical binding]; other site 472759008995 Ligand Binding sites [chemical binding]; other site 472759008996 Dimerization subdomain; other site 472759008997 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 472759008998 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 472759008999 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 472759009000 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...; Region: IMPDH; cd00381 472759009001 active site 472759009002 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 472759009003 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 472759009004 generic binding surface II; other site 472759009005 generic binding surface I; other site 472759009006 Bacterial transcriptional activator domain; Region: BTAD; smart01043 472759009007 tetratricopeptide repeat protein; Provisional; Region: PRK11788 472759009008 Gram-negative bacterial tonB protein; Region: TonB; cl10048 472759009009 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 472759009010 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 472759009011 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 472759009012 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 472759009013 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 472759009014 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...; Region: rubredoxin; cd00730 472759009015 Rubredoxin; Region: Rubredoxin; pfam00301 472759009016 iron binding site [ion binding]; other site 472759009017 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- (beta-...; Region: TMP_TenI; cd00564 472759009018 thiamine phosphate binding site [chemical binding]; other site 472759009019 active site 472759009020 pyrophosphate binding site [ion binding]; other site 472759009021 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 472759009022 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 472759009023 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 472759009024 binding surface 472759009025 TPR motif; other site 472759009026 Mechanosensitive ion channel; Region: MS_channel; pfam00924 472759009027 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 472759009028 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 472759009029 inhibitor-cofactor binding pocket; inhibition site 472759009030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759009031 catalytic residue [active] 472759009032 Predicted amidohydrolase [General function prediction only]; Region: COG0388 472759009033 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 472759009034 putative active site [active] 472759009035 catalytic triad [active] 472759009036 putative dimer interface [polypeptide binding]; other site 472759009037 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 472759009038 UvrD/REP helicase; Region: UvrD-helicase; cl14126 472759009039 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 472759009040 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 472759009041 Sel1 repeat; Region: Sel1; cl02723 472759009042 Cation efflux family; Region: Cation_efflux; cl00316 472759009043 GYD domain; Region: GYD; cl01743 472759009044 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 472759009045 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 472759009046 active site 472759009047 metal binding site [ion binding]; metal-binding site 472759009048 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 472759009049 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but...; Region: TST_Repeat_1; cd01448 472759009050 active site residue [active] 472759009051 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 472759009052 active site residue [active] 472759009053 Protein of unknown function (DUF785); Region: DUF785; cl01682 472759009054 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the...; Region: M14_ASTE_ASPA_like_1; cd06251 472759009055 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 472759009056 putative active site [active] 472759009057 Zn-binding site [ion binding]; other site 472759009058 PAS domain S-box; Region: sensory_box; TIGR00229 472759009059 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 472759009060 putative active site [active] 472759009061 heme pocket [chemical binding]; other site 472759009062 PAS domain S-box; Region: sensory_box; TIGR00229 472759009063 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 472759009064 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 472759009065 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 472759009066 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 trans-...; Region: HisKA; cd00082 472759009067 dimer interface [polypeptide binding]; other site 472759009068 phosphorylation site [posttranslational modification] 472759009069 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 472759009070 ATP binding site [chemical binding]; other site 472759009071 Mg2+ binding site [ion binding]; other site 472759009072 G-X-G motif; other site 472759009073 Response regulator receiver domain; Region: Response_reg; pfam00072 472759009074 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759009075 active site 472759009076 phosphorylation site [posttranslational modification] 472759009077 intermolecular recognition site; other site 472759009078 dimerization interface [polypeptide binding]; other site 472759009079 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 472759009080 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 472759009081 tetramer interface [polypeptide binding]; other site 472759009082 pyridoxal 5'-phosphate binding site [chemical binding]; other site 472759009083 catalytic residue [active] 472759009084 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 472759009085 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 472759009086 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 472759009087 EamA-like transporter family; Region: EamA; cl01037 472759009088 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 472759009089 classical (c) SDRs; Region: SDR_c; cd05233 472759009090 NAD(P) binding site [chemical binding]; other site 472759009091 active site 472759009092 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 472759009093 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 472759009094 Walker A motif; other site 472759009095 ATP binding site [chemical binding]; other site 472759009096 Walker B motif; other site 472759009097 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 472759009098 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 472759009099 Walker A motif; other site 472759009100 ATP binding site [chemical binding]; other site 472759009101 Walker B motif; other site 472759009102 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 472759009103 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 472759009104 catalytic residue [active] 472759009105 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 472759009106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759009107 YGGT family; Region: YGGT; cl00508 472759009108 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 472759009109 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; cl11420 472759009110 muropeptide transporter; Reviewed; Region: ampG; PRK11902 472759009111 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 472759009112 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 472759009113 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 472759009114 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...; Region: AAK_NAGK-C; cd04250 472759009115 feedback inhibition sensing region; other site 472759009116 homohexameric interface [polypeptide binding]; other site 472759009117 carbamate kinase; Reviewed; Region: PRK12686 472759009118 nucleotide binding site [chemical binding]; other site 472759009119 N-acetyl-L-glutamate binding site [chemical binding]; other site 472759009120 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 472759009121 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 472759009122 active site 472759009123 substrate binding site [chemical binding]; other site 472759009124 metal binding site [ion binding]; metal-binding site 472759009125 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 472759009126 trimer interface [polypeptide binding]; other site 472759009127 active site 472759009128 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 472759009129 Flavoprotein; Region: Flavoprotein; cl08021 472759009130 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 472759009131 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 472759009132 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 472759009133 putative metal binding site [ion binding]; other site 472759009134 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...; Region: DnaJ; cd06257 472759009135 HSP70 interaction site [polypeptide binding]; other site 472759009136 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 472759009137 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 472759009138 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 472759009139 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 472759009140 S-adenosylmethionine binding site [chemical binding]; other site 472759009141 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 472759009142 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...; Region: URO-D; cd00717 472759009143 substrate binding site [chemical binding]; other site 472759009144 active site 472759009145 AIR carboxylase; Region: AIRC; cl00310 472759009146 DNA topoisomerase I; Provisional; Region: PRK08780 472759009147 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 472759009148 active site 472759009149 interdomain interaction site; other site 472759009150 putative metal-binding site [ion binding]; other site 472759009151 nucleotide binding site [chemical binding]; other site 472759009152 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...; Region: TOP1Ac; cd00186 472759009153 domain I; other site 472759009154 DNA binding groove [nucleotide binding] 472759009155 phosphate binding site [ion binding]; other site 472759009156 domain II; other site 472759009157 domain III; other site 472759009158 nucleotide binding site [chemical binding]; other site 472759009159 catalytic site [active] 472759009160 domain IV; other site 472759009161 Protein of unknown function (DUF494); Region: DUF494; cl01103 472759009162 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 472759009163 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 472759009164 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 472759009165 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(...; Region: Pep_deformylase; cd00487 472759009166 active site 472759009167 catalytic residues [active] 472759009168 metal binding site [ion binding]; metal-binding site 472759009169 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 472759009170 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 472759009171 putative active site [active] 472759009172 substrate binding site [chemical binding]; other site 472759009173 putative cosubstrate binding site; other site 472759009174 catalytic site [active] 472759009175 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 472759009176 substrate binding site [chemical binding]; other site 472759009177 16S rRNA methyltransferase B; Provisional; Region: PRK10901 472759009178 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 rRNA-...; Region: NusB_Sun; cl00223 472759009179 putative RNA binding site [nucleotide binding]; other site 472759009180 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; cl12011 472759009181 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 472759009182 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 connected by an extended linker. The...; Region: HAMP; cd06225 472759009183 dimerization interface [polypeptide binding]; other site 472759009184 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 trans-...; Region: HisKA; cd00082 472759009185 dimer interface [polypeptide binding]; other site 472759009186 phosphorylation site [posttranslational modification] 472759009187 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 472759009188 ATP binding site [chemical binding]; other site 472759009189 Mg2+ binding site [ion binding]; other site 472759009190 G-X-G motif; other site 472759009191 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 472759009192 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759009193 active site 472759009194 phosphorylation site [posttranslational modification] 472759009195 intermolecular recognition site; other site 472759009196 dimerization interface [polypeptide binding]; other site 472759009197 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...; Region: AAA; cd00009 472759009198 Walker A motif; other site 472759009199 ATP binding site [chemical binding]; other site 472759009200 Walker B motif; other site 472759009201 arginine finger; other site 472759009202 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 472759009203 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 472759009204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759009205 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; cl09110 472759009206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759009207 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; cl09110 472759009208 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 472759009209 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 472759009210 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 472759009211 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 472759009212 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 472759009213 Major Facilitator Superfamily; Region: MFS_1; pfam07690 472759009214 putative substrate translocation pore; other site 472759009215 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 472759009216 dimer interface [polypeptide binding]; other site 472759009217 ssDNA binding site [nucleotide binding]; other site 472759009218 tetramer (dimer of dimers) interface [polypeptide binding]; other site 472759009219 FRG domain; Region: FRG; cl07460 472759009220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 472759009221 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 472759009222 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 472759009223 Protein of unknown function (DUF3680); Region: DUF3680; cl02189 472759009224 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 472759009225 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 472759009226 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...; Region: OM_channels; cl00284 472759009227 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 472759009228 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 472759009229 binding surface 472759009230 TPR motif; other site 472759009231 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 472759009232 Gram-negative bacterial tonB protein; Region: TonB; cl10048 472759009233 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 472759009234 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 472759009235 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 472759009236 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 472759009237 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 472759009238 Response regulator receiver domain; Region: Response_reg; pfam00072 472759009239 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 472759009240 active site 472759009241 phosphorylation site [posttranslational modification] 472759009242 intermolecular recognition site; other site 472759009243 dimerization interface [polypeptide binding]; other site 472759009244 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 472759009245 metal binding site [ion binding]; metal-binding site 472759009246 active site 472759009247 I-site; other site 472759009248 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 472759009249 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 of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 472759009250 Int/Topo IB signature motif; other site 472759009251 active site 472759009252 Protein of unknown function, DUF484; Region: DUF484; cl01228 472759009253 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 472759009254 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 472759009255 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 472759009256 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 472759009257 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 472759009258 S-adenosylmethionine binding site [chemical binding]; other site 472759009259 diaminopimelate decarboxylase; Region: lysA; TIGR01048 472759009260 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 472759009261 active site 472759009262 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 472759009263 substrate binding site [chemical binding]; other site 472759009264 catalytic residues [active] 472759009265 dimer interface [polypeptide binding]; other site 472759009266 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 472759009267 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 472759009268 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 472759009269 Walker A motif; other site 472759009270 ATP binding site [chemical binding]; other site 472759009271 Walker B motif; other site 472759009272 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 472759009273 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 472759009274 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 472759009275 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 472759009276 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 472759009277 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 472759009278 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 472759009279 CoA-binding site [chemical binding]; other site 472759009280 ATP-binding [chemical binding]; other site 472759009281 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 472759009282 Domain of unknown function (DUF329); Region: DUF329; cl01144 472759009283 hypothetical protein; Provisional; Region: PRK08999 472759009284 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 472759009285 active site 472759009286 8-oxo-dGMP binding site [chemical binding]; other site 472759009287 nudix motif; other site 472759009288 metal binding site [ion binding]; metal-binding site 472759009289 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- (beta-...; Region: TMP_TenI; cd00564 472759009290 thiamine phosphate binding site [chemical binding]; other site 472759009291 active site 472759009292 pyrophosphate binding site [ion binding]; other site 472759009293 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 472759009294 Zinc-finger domain; Region: zf-CHCC; cl01821 472759009295 Quinolinate synthetase A protein; Region: NadA; cl00420 472759009296 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 472759009297 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 472759009298 dimer interface [polypeptide binding]; other site 472759009299 anticodon binding site; other site 472759009300 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 472759009301 homodimer interface [polypeptide binding]; other site 472759009302 motif 1; other site 472759009303 active site 472759009304 motif 2; other site 472759009305 GAD domain; Region: GAD; pfam02938 472759009306 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 472759009307 motif 3; other site 472759009308 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 472759009309 Protein of unknown function (DUF1614); Region: DUF1614; pfam07758 472759009310 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 472759009311 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 472759009312 [2Fe-2S] cluster binding site [ion binding]; other site 472759009313 cytochrome b; Provisional; Region: CYTB; MTH00145 472759009314 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: Cytochrome_b_N; cd00284 472759009315 Qi binding site; other site 472759009316 intrachain domain interface; other site 472759009317 interchain domain interface [polypeptide binding]; other site 472759009318 heme bH binding site [chemical binding]; other site 472759009319 heme bL binding site [chemical binding]; other site 472759009320 Qo binding site; other site 472759009321 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: cytochrome_b_C; cd00290 472759009322 interchain domain interface [polypeptide binding]; other site 472759009323 intrachain domain interface; other site 472759009324 Qi binding site; other site 472759009325 Qo binding site; other site 472759009326 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 472759009327 stringent starvation protein A; Provisional; Region: sspA; PRK09481 472759009328 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 472759009329 C-terminal domain interface [polypeptide binding]; other site 472759009330 putative GSH binding site (G-site) [chemical binding]; other site 472759009331 dimer interface [polypeptide binding]; other site 472759009332 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 472759009333 dimer interface [polypeptide binding]; other site 472759009334 N-terminal domain interface [polypeptide binding]; other site 472759009335 Stringent starvation protein B; Region: SspB; cl01120 472759009336 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 472759009337 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...; Region: PBPb; cd00134 472759009338 substrate binding pocket [chemical binding]; other site 472759009339 membrane-bound complex binding site; other site 472759009340 hinge residues; other site 472759009341 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 472759009342 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cd00216 472759009343 Trp docking motif; other site 472759009344 'Velcro' closure; other site 472759009345 active site 472759009346 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 472759009347 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 472759009348 HIGH motif; other site 472759009349 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 472759009350 active site 472759009351 KMSKS motif; other site 472759009352 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 472759009353 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 472759009354 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 472759009355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759009356 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 472759009357 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 472759009358 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 472759009359 NADP binding domain of methylene tetrahydromethanopterin dehydrogenase; Region: NAD_bind_H4MPT_DH; cd01078 472759009360 NADP binding site [chemical binding]; other site 472759009361 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 472759009362 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 472759009363 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 472759009364 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 472759009365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759009366 NAD(P) binding pocket [chemical binding]; other site 472759009367 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 472759009368 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759009369 Methenyltetrahydromethanopterin (methenyl-H4MPT) cyclohydrolase (MCH). MCH is a cytoplasmic enzyme that has been identified in methanogenic archaea, sulfate- reducing archaea, and methylotrophic bacteria. It catalyzes the reversible formation of N(5)...; Region: MCH; cd00545 472759009370 trimer interface I [polypeptide binding]; other site 472759009371 putative substrate binding pocket [chemical binding]; other site 472759009372 trimer interface II [polypeptide binding]; other site 472759009373 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759009374 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 472759009375 Formaldehyde-activating enzyme (Fae); Region: Fae; cl00774 472759009376 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 472759009377 active site 472759009378 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 472759009379 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 472759009380 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 472759009381 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 472759009382 chorismate binding enzyme; Region: Chorismate_bind; cl10555 472759009383 AAK_UC: Uncharacterized (UC) amino acid kinase-like proteins found mainly in archaea and a few bacteria. Sequences in this CD are members of the Amino Acid Kinase (AAK) superfamily; Region: AAK_UC; cd04240 472759009384 putative nucleotide binding site [chemical binding]; other site 472759009385 putative substrate binding site [chemical binding]; other site 472759009386 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 472759009387 active site 472759009388 dimer interface [polypeptide binding]; other site 472759009389 metal binding site [ion binding]; metal-binding site 472759009390 shikimate kinase; Reviewed; Region: aroK; PRK00131 472759009391 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...; Region: SK; cd00464 472759009392 ADP binding site [chemical binding]; other site 472759009393 magnesium binding site [ion binding]; other site 472759009394 putative shikimate binding site; other site 472759009395 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 472759009396 Secretin and TonB N terminus short domain; Region: STN; cl06624 472759009397 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 472759009398 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 472759009399 Pilus assembly protein, PilP; Region: PilP; cl01235 472759009400 Pilus assembly protein, PilO; Region: PilO; cl01234 472759009401 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 472759009402 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 472759009403 Competence protein A; Region: Competence_A; pfam11104 472759009404 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 472759009405 Transglycosylase; Region: Transgly; cl07896 472759009406 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 472759009407 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 472759009408 Malic enzyme, N-terminal domain; Region: malic; pfam00390 472759009409 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 472759009410 putative NAD(P) binding site [chemical binding]; other site 472759009411 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 472759009412 Cation transport protein; Region: TrkH; cl10514 472759009413 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 472759009414 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 472759009415 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 472759009416 putative active site [active] 472759009417 catalytic triad [active] 472759009418 putative dimer interface [polypeptide binding]; other site 472759009419 FOG: CBS domain [General function prediction only]; Region: COG0517 472759009420 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 472759009421 Transporter associated domain; Region: CorC_HlyC; cl08393 472759009422 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 472759009423 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 472759009424 PhoH-like protein; Region: PhoH; cl12134 472759009425 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 472759009426 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 472759009427 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 472759009428 FeS/SAM binding site; other site 472759009429 TRAM domain; Region: TRAM; cl01282 472759009430 hypothetical protein; Reviewed; Region: PRK00024 472759009431 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 472759009432 MPN+ (JAMM) motif; other site 472759009433 Zinc-binding site [ion binding]; other site 472759009434 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 5,10-...; Region: DHFR; cd00209 472759009435 folate binding site [chemical binding]; other site 472759009436 NADP+ binding site [chemical binding]; other site 472759009437 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 472759009438 dimerization interface [polypeptide binding]; other site 472759009439 active site 472759009440 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 472759009441 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 472759009442 active site 472759009443 NTP binding site [chemical binding]; other site 472759009444 metal binding triad [ion binding]; metal-binding site 472759009445 antibiotic binding site [chemical binding]; other site 472759009446 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 472759009447 YcfA-like protein; Region: YcfA; cl00752 472759009448 Integrase core domain; Region: rve; cl01316 472759009449 GTP-binding protein YchF; Reviewed; Region: PRK09601 472759009450 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 472759009451 G1 box; other site 472759009452 GTP/Mg2+ binding site [chemical binding]; other site 472759009453 Switch I region; other site 472759009454 G2 box; other site 472759009455 Switch II region; other site 472759009456 G3 box; other site 472759009457 G4 box; other site 472759009458 G5 box; other site 472759009459 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 472759009460 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 472759009461 putative active site [active] 472759009462 catalytic residue [active] 472759009463 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 472759009464 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 472759009465 5S rRNA interface [nucleotide binding]; other site 472759009466 CTC domain interface [polypeptide binding]; other site 472759009467 L16 interface [polypeptide binding]; other site 472759009468 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK04923 472759009469 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 472759009470 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 472759009471 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 472759009472 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 472759009473 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 472759009474 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 472759009475 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 472759009476 binding surface 472759009477 TPR motif; other site 472759009478 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 472759009479 binding surface 472759009480 TPR motif; other site 472759009481 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 472759009482 binding surface 472759009483 TPR motif; other site 472759009484 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 472759009485 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 472759009486 tRNA; other site 472759009487 putative tRNA binding site [nucleotide binding]; other site 472759009488 putative NADP binding site [chemical binding]; other site 472759009489 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 472759009490 peptide chain release factor 1; Validated; Region: prfA; PRK00591 472759009491 RF-1 domain; Region: RF-1; cl02875 472759009492 RF-1 domain; Region: RF-1; cl02875 472759009493 septum formation inhibitor; Reviewed; Region: minC; PRK00339 472759009494 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 472759009495 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 472759009496 cell division inhibitor MinD; Provisional; Region: PRK10818 472759009497 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a...; Region: MinD; cd02036 472759009498 Switch I; other site 472759009499 Switch II; other site 472759009500 Septum formation topological specificity factor MinE; Region: MinE; cl00538 472759009501 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 472759009502 HemY protein N-terminus; Region: HemY_N; pfam07219 472759009503 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 472759009504 HemX; Region: HemX; cl14667 472759009505 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...; Region: HemD; cd06578 472759009506 active site 472759009507 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 472759009508 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 472759009509 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 472759009510 domain interfaces; other site 472759009511 active site 472759009512 argininosuccinate lyase; Provisional; Region: PRK00855 472759009513 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 472759009514 active sites [active] 472759009515 tetramer interface [polypeptide binding]; other site 472759009516 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 472759009517 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 472759009518 serine endoprotease; Provisional; Region: PRK10898 472759009519 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...; Region: Tryp_SPc; cl00149 472759009520 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 C-...; Region: PDZ_serine_protease; cd00987 472759009521 protein binding site [polypeptide binding]; other site 472759009522 sucrose synthase; Region: sucr_synth; TIGR02470 472759009523 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 472759009524 putative ADP-binding pocket [chemical binding]; other site 472759009525 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 472759009526 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 472759009527 putative ADP-binding pocket [chemical binding]; other site 472759009528 sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial; Region: sucr_syn_bact_C; TIGR02471 472759009529 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 472759009530 active site 472759009531 motif I; other site 472759009532 motif II; other site 472759009533 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 472759009534 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 472759009535 putative substrate binding site [chemical binding]; other site 472759009536 putative ATP binding site [chemical binding]; other site 472759009537 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 472759009538 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...; Region: GFAT; cd00714 472759009539 glutaminase active site [active] 472759009540 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 472759009541 dimer interface [polypeptide binding]; other site 472759009542 active site 472759009543 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 472759009544 dimer interface [polypeptide binding]; other site 472759009545 active site 472759009546 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 472759009547 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 472759009548 Substrate binding site [chemical binding]; other site 472759009549 Mg++ binding site [ion binding]; other site 472759009550 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 472759009551 active site 472759009552 substrate binding site [chemical binding]; other site 472759009553 CoA binding site [chemical binding]; other site 472759009554 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 472759009555 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 472759009556 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 472759009557 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 472759009558 alpha subunit interaction interface [polypeptide binding]; other site 472759009559 Walker A motif; other site 472759009560 ATP binding site [chemical binding]; other site 472759009561 Walker B motif; other site 472759009562 inhibitor binding site; inhibition site 472759009563 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 472759009564 ATP synthase; Region: ATP-synt; cl00365 472759009565 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 472759009566 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 472759009567 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 472759009568 beta subunit interaction interface [polypeptide binding]; other site 472759009569 Walker A motif; other site 472759009570 ATP binding site [chemical binding]; other site 472759009571 Walker B motif; other site 472759009572 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 472759009573 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 472759009574 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 472759009575 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 472759009576 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 472759009577 ATP synthase subunit C; Region: ATP-synt_C; cl00466 472759009578 ATP synthase A chain; Region: ATP-synt_A; cl00413 472759009579 ParB-like partition proteins; Region: parB_part; TIGR00180 472759009580 ParB-like nuclease domain; Region: ParBc; cl02129 472759009581 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 472759009582 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...; Region: ParA; cd02042 472759009583 P-loop; other site 472759009584 Magnesium ion binding site [ion binding]; other site 472759009585 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...; Region: ParA; cd02042 472759009586 Magnesium ion binding site [ion binding]; other site 472759009587 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 472759009588 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; cl12011 472759009589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 472759009590 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 472759009591 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 472759009592 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 472759009593 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 472759009594 G1 box; other site 472759009595 GTP/Mg2+ binding site [chemical binding]; other site 472759009596 Switch I region; other site 472759009597 G2 box; other site 472759009598 Switch II region; other site 472759009599 G3 box; other site 472759009600 G4 box; other site 472759009601 G5 box; other site 472759009602 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 472759009603 membrane protein insertase; Provisional; Region: PRK01318 472759009604 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 472759009605 Ribonuclease P; Region: Ribonuclease_P; cl00457 472759009606 Ribosomal protein L34; Region: Ribosomal_L34; cl00370