-- dump date 20140619_060848 -- class Genbank::misc_feature -- table misc_feature_note -- id note 522772000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 522772000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 522772000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772000004 Walker A motif; other site 522772000005 ATP binding site [chemical binding]; other site 522772000006 Walker B motif; other site 522772000007 arginine finger; other site 522772000008 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 522772000009 DnaA box-binding interface [nucleotide binding]; other site 522772000010 aspartate aminotransferase; Provisional; Region: PRK06290 522772000011 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 522772000012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772000013 homodimer interface [polypeptide binding]; other site 522772000014 catalytic residue [active] 522772000015 Cation efflux family; Region: Cation_efflux; cl00316 522772000016 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 522772000017 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 522772000018 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 522772000019 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 522772000020 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 522772000021 dimer interface [polypeptide binding]; other site 522772000022 ssDNA binding site [nucleotide binding]; other site 522772000023 tetramer (dimer of dimers) interface [polypeptide binding]; other site 522772000024 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 522772000025 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 522772000026 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 522772000027 RNA binding surface [nucleotide binding]; other site 522772000028 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 522772000029 active site 522772000030 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 522772000031 NADH dehydrogenase subunit B; Validated; Region: PRK06411 522772000032 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 522772000033 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 522772000034 NADH dehydrogenase subunit D; Validated; Region: PRK06075 522772000035 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 522772000036 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 522772000037 putative dimer interface [polypeptide binding]; other site 522772000038 [2Fe-2S] cluster binding site [ion binding]; other site 522772000039 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 522772000040 dimer interface [polypeptide binding]; other site 522772000041 [2Fe-2S] cluster binding site [ion binding]; other site 522772000042 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 522772000043 SLBB domain; Region: SLBB; pfam10531 522772000044 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 522772000045 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 522772000046 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 522772000047 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 522772000048 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 522772000049 catalytic loop [active] 522772000050 iron binding site [ion binding]; other site 522772000051 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 522772000052 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772000053 molybdopterin cofactor binding site; other site 522772000054 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; cd02775 522772000055 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 522772000056 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 522772000057 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 522772000058 4Fe-4S binding domain; Region: Fer4; pfam00037 522772000059 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 522772000060 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 522772000061 NADH dehydrogenase subunit J; Provisional; Region: PRK06439 522772000062 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 522772000063 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 522772000064 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 522772000065 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 522772000066 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 522772000067 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 522772000068 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 522772000069 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 522772000070 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 522772000071 diiron binding motif [ion binding]; other site 522772000072 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 522772000073 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 522772000074 active site 522772000075 catalytic residues [active] 522772000076 metal binding site [ion binding]; metal-binding site 522772000077 Protein of unknown function (DUF721); Region: DUF721; pfam05258 522772000078 GTPase CgtA; Reviewed; Region: obgE; PRK12299 522772000079 GTP1/OBG; Region: GTP1_OBG; pfam01018 522772000080 Obg GTPase; Region: Obg; cd01898 522772000081 G1 box; other site 522772000082 GTP/Mg2+ binding site [chemical binding]; other site 522772000083 Switch I region; other site 522772000084 G2 box; other site 522772000085 G3 box; other site 522772000086 Switch II region; other site 522772000087 G4 box; other site 522772000088 G5 box; other site 522772000089 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 522772000090 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 522772000091 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 522772000092 Haemolytic domain; Region: Haemolytic; pfam01809 522772000093 membrane protein insertase; Provisional; Region: PRK01318 522772000094 Htaa; Region: HtaA; pfam04213 522772000095 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 522772000096 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 522772000097 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 522772000098 G-X-X-G motif; other site 522772000099 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 522772000100 RxxxH motif; other site 522772000101 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 522772000102 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 522772000103 active site 522772000104 intersubunit interactions; other site 522772000105 catalytic residue [active] 522772000106 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522772000107 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 522772000108 short chain dehydrogenase; Provisional; Region: PRK12937 522772000109 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 522772000110 NADP binding site [chemical binding]; other site 522772000111 homodimer interface [polypeptide binding]; other site 522772000112 active site 522772000113 substrate binding site [chemical binding]; other site 522772000114 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 522772000115 dimer interface [polypeptide binding]; other site 522772000116 substrate binding site [chemical binding]; other site 522772000117 ATP binding site [chemical binding]; other site 522772000118 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 522772000119 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 522772000120 active site 522772000121 PHP Thumb interface [polypeptide binding]; other site 522772000122 metal binding site [ion binding]; metal-binding site 522772000123 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 522772000124 generic binding surface II; other site 522772000125 generic binding surface I; other site 522772000126 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 522772000127 Competence protein; Region: Competence; pfam03772 522772000128 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 522772000129 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 522772000130 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 522772000131 ATP binding site [chemical binding]; other site 522772000132 substrate interface [chemical binding]; other site 522772000133 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 522772000134 thiS-thiF/thiG interaction site; other site 522772000135 Response regulator receiver domain; Region: Response_reg; pfam00072 522772000136 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 522772000137 active site 522772000138 phosphorylation site [posttranslational modification] 522772000139 intermolecular recognition site; other site 522772000140 dimerization interface [polypeptide binding]; other site 522772000141 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 522772000142 glycogen synthase; Provisional; Region: glgA; PRK00654 522772000143 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 522772000144 ADP-binding pocket [chemical binding]; other site 522772000145 homodimer interface [polypeptide binding]; other site 522772000146 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 522772000147 EamA-like transporter family; Region: EamA; pfam00892 522772000148 multifunctional aminopeptidase A; Provisional; Region: PRK00913 522772000149 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 522772000150 interface (dimer of trimers) [polypeptide binding]; other site 522772000151 Substrate-binding/catalytic site; other site 522772000152 Zn-binding sites [ion binding]; other site 522772000153 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 522772000154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 522772000155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 522772000156 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 522772000157 putative dimerization interface [polypeptide binding]; other site 522772000158 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 522772000159 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 522772000160 active site residue [active] 522772000161 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 522772000162 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 522772000163 Sporulation related domain; Region: SPOR; pfam05036 522772000164 ribonuclease PH; Reviewed; Region: rph; PRK00173 522772000165 Ribonuclease PH; Region: RNase_PH_bact; cd11362 522772000166 hexamer interface [polypeptide binding]; other site 522772000167 active site 522772000168 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 522772000169 active site 522772000170 dimerization interface [polypeptide binding]; other site 522772000171 Transglycosylase; Region: Transgly; cl17702 522772000172 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 522772000173 shikimate kinase; Reviewed; Region: aroK; PRK00131 522772000174 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 522772000175 ADP binding site [chemical binding]; other site 522772000176 magnesium binding site [ion binding]; other site 522772000177 putative shikimate binding site; other site 522772000178 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 522772000179 active site 522772000180 dimer interface [polypeptide binding]; other site 522772000181 metal binding site [ion binding]; metal-binding site 522772000182 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 522772000183 TPR motif; other site 522772000184 binding surface 522772000185 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 522772000186 Dehydroquinase class II; Region: DHquinase_II; pfam01220 522772000187 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 522772000188 trimer interface [polypeptide binding]; other site 522772000189 active site 522772000190 dimer interface [polypeptide binding]; other site 522772000191 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 522772000192 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 522772000193 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 522772000194 active site 522772000195 elongation factor P; Validated; Region: PRK00529 522772000196 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 522772000197 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 522772000198 RNA binding site [nucleotide binding]; other site 522772000199 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 522772000200 RNA binding site [nucleotide binding]; other site 522772000201 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 522772000202 carboxyltransferase (CT) interaction site; other site 522772000203 biotinylation site [posttranslational modification]; other site 522772000204 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 522772000205 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 522772000206 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 522772000207 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 522772000208 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 522772000209 binding surface 522772000210 TPR motif; other site 522772000211 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 522772000212 binding surface 522772000213 TPR motif; other site 522772000214 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522772000215 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 522772000216 binding surface 522772000217 TPR motif; other site 522772000218 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 522772000219 TPR motif; other site 522772000220 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522772000221 binding surface 522772000222 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 522772000223 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 522772000224 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 522772000225 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 522772000226 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522772000227 active site 522772000228 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 522772000229 putative active site [active] 522772000230 catalytic residue [active] 522772000231 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 522772000232 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 522772000233 GTP-binding protein YchF; Reviewed; Region: PRK09601 522772000234 YchF GTPase; Region: YchF; cd01900 522772000235 G1 box; other site 522772000236 GTP/Mg2+ binding site [chemical binding]; other site 522772000237 Switch I region; other site 522772000238 G2 box; other site 522772000239 Switch II region; other site 522772000240 G3 box; other site 522772000241 G4 box; other site 522772000242 G5 box; other site 522772000243 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 522772000244 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 522772000245 trimer interface [polypeptide binding]; other site 522772000246 dimer interface [polypeptide binding]; other site 522772000247 putative active site [active] 522772000248 Predicted amidohydrolase [General function prediction only]; Region: COG0388 522772000249 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 522772000250 putative active site [active] 522772000251 catalytic triad [active] 522772000252 putative dimer interface [polypeptide binding]; other site 522772000253 NAD synthetase; Provisional; Region: PRK13980 522772000254 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 522772000255 homodimer interface [polypeptide binding]; other site 522772000256 NAD binding pocket [chemical binding]; other site 522772000257 ATP binding pocket [chemical binding]; other site 522772000258 Mg binding site [ion binding]; other site 522772000259 active-site loop [active] 522772000260 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 522772000261 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 522772000262 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 522772000263 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 522772000264 active site 522772000265 GMP synthase; Reviewed; Region: guaA; PRK00074 522772000266 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 522772000267 AMP/PPi binding site [chemical binding]; other site 522772000268 candidate oxyanion hole; other site 522772000269 catalytic triad [active] 522772000270 potential glutamine specificity residues [chemical binding]; other site 522772000271 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 522772000272 ATP Binding subdomain [chemical binding]; other site 522772000273 Ligand Binding sites [chemical binding]; other site 522772000274 Dimerization subdomain; other site 522772000275 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 522772000276 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 522772000277 FtsX-like permease family; Region: FtsX; pfam02687 522772000278 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 522772000279 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 522772000280 binding surface 522772000281 TPR repeat; Region: TPR_11; pfam13414 522772000282 TPR motif; other site 522772000283 TPR repeat; Region: TPR_11; pfam13414 522772000284 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 522772000285 binding surface 522772000286 TPR motif; other site 522772000287 TPR repeat; Region: TPR_11; pfam13414 522772000288 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 522772000289 binding surface 522772000290 TPR motif; other site 522772000291 TPR repeat; Region: TPR_11; pfam13414 522772000292 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 522772000293 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 522772000294 motif II; other site 522772000295 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 522772000296 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 522772000297 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 522772000298 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 522772000299 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 522772000300 [4Fe-4S] binding site [ion binding]; other site 522772000301 molybdopterin cofactor binding site; other site 522772000302 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 522772000303 molybdopterin cofactor binding site; other site 522772000304 NapD protein; Region: NapD; cl01163 522772000305 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 522772000306 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 522772000307 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 522772000308 4Fe-4S binding domain; Region: Fer4_5; pfam12801 522772000309 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 522772000310 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 522772000311 ligand binding site [chemical binding]; other site 522772000312 flexible hinge region; other site 522772000313 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 522772000314 putative switch regulator; other site 522772000315 non-specific DNA interactions [nucleotide binding]; other site 522772000316 DNA binding site [nucleotide binding] 522772000317 sequence specific DNA binding site [nucleotide binding]; other site 522772000318 putative cAMP binding site [chemical binding]; other site 522772000319 threonine synthase; Validated; Region: PRK08329 522772000320 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 522772000321 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 522772000322 CoenzymeA binding site [chemical binding]; other site 522772000323 subunit interaction site [polypeptide binding]; other site 522772000324 PHB binding site; other site 522772000325 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 522772000326 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772000327 Walker A motif; other site 522772000328 ATP binding site [chemical binding]; other site 522772000329 Walker B motif; other site 522772000330 arginine finger; other site 522772000331 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 522772000332 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 522772000333 Transcriptional regulator [Transcription]; Region: IclR; COG1414 522772000334 Bacterial transcriptional regulator; Region: IclR; pfam01614 522772000335 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 522772000336 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 522772000337 putative metal binding site; other site 522772000338 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 522772000339 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 522772000340 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 522772000341 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522772000342 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 522772000343 active site 522772000344 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 522772000345 4Fe-4S binding domain; Region: Fer4; pfam00037 522772000346 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 522772000347 phosphate binding site [ion binding]; other site 522772000348 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 522772000349 domain_subunit interface; other site 522772000350 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 522772000351 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 522772000352 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 522772000353 PAS fold; Region: PAS_4; pfam08448 522772000354 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772000355 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 522772000356 dimer interface [polypeptide binding]; other site 522772000357 phosphorylation site [posttranslational modification] 522772000358 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 522772000359 ATP binding site [chemical binding]; other site 522772000360 Mg2+ binding site [ion binding]; other site 522772000361 G-X-G motif; other site 522772000362 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 522772000363 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 522772000364 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 522772000365 NAD(P) binding site [chemical binding]; other site 522772000366 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 522772000367 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 522772000368 zinc binding site [ion binding]; other site 522772000369 putative ligand binding site [chemical binding]; other site 522772000370 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 522772000371 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 522772000372 TM-ABC transporter signature motif; other site 522772000373 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 522772000374 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772000375 Walker A/P-loop; other site 522772000376 ATP binding site [chemical binding]; other site 522772000377 Q-loop/lid; other site 522772000378 ABC transporter signature motif; other site 522772000379 Walker B; other site 522772000380 D-loop; other site 522772000381 H-loop/switch region; other site 522772000382 Methyltransferase domain; Region: Methyltransf_31; pfam13847 522772000383 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 522772000384 hypothetical protein; Provisional; Region: PRK08960 522772000385 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 522772000386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772000387 homodimer interface [polypeptide binding]; other site 522772000388 catalytic residue [active] 522772000389 EVE domain; Region: EVE; cl00728 522772000390 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 522772000391 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 522772000392 putative deacylase active site [active] 522772000393 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 522772000394 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 522772000395 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 522772000396 Walker A/P-loop; other site 522772000397 ATP binding site [chemical binding]; other site 522772000398 Q-loop/lid; other site 522772000399 ABC transporter signature motif; other site 522772000400 Walker B; other site 522772000401 D-loop; other site 522772000402 H-loop/switch region; other site 522772000403 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 522772000404 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 522772000405 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522772000406 ligand binding site [chemical binding]; other site 522772000407 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 522772000408 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772000409 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772000410 active site 522772000411 I-site; other site 522772000412 metal binding site [ion binding]; metal-binding site 522772000413 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 522772000414 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 522772000415 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 522772000416 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 522772000417 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 522772000418 Walker A/P-loop; other site 522772000419 ATP binding site [chemical binding]; other site 522772000420 Q-loop/lid; other site 522772000421 ABC transporter signature motif; other site 522772000422 Walker B; other site 522772000423 D-loop; other site 522772000424 H-loop/switch region; other site 522772000425 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 522772000426 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 522772000427 HlyD family secretion protein; Region: HlyD_3; pfam13437 522772000428 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 522772000429 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522772000430 DNA binding residues [nucleotide binding] 522772000431 dimerization interface [polypeptide binding]; other site 522772000432 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 522772000433 Cysteine-rich domain; Region: CCG; pfam02754 522772000434 Cysteine-rich domain; Region: CCG; pfam02754 522772000435 4Fe-4S binding domain; Region: Fer4; pfam00037 522772000436 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 522772000437 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 522772000438 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 522772000439 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 522772000440 Ligand binding site [chemical binding]; other site 522772000441 Electron transfer flavoprotein domain; Region: ETF; pfam01012 522772000442 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 522772000443 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 522772000444 putative substrate translocation pore; other site 522772000445 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 522772000446 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 522772000447 XdhC Rossmann domain; Region: XdhC_C; pfam13478 522772000448 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 522772000449 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 522772000450 Ligand binding site; other site 522772000451 metal-binding site 522772000452 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 522772000453 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 522772000454 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 522772000455 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 522772000456 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 522772000457 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 522772000458 catalytic loop [active] 522772000459 iron binding site [ion binding]; other site 522772000460 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 522772000461 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 522772000462 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 522772000463 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 522772000464 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 522772000465 putative active site [active] 522772000466 heme pocket [chemical binding]; other site 522772000467 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 522772000468 putative active site [active] 522772000469 heme pocket [chemical binding]; other site 522772000470 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 522772000471 PAS domain; Region: PAS_9; pfam13426 522772000472 putative active site [active] 522772000473 heme pocket [chemical binding]; other site 522772000474 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772000475 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772000476 metal binding site [ion binding]; metal-binding site 522772000477 active site 522772000478 I-site; other site 522772000479 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 522772000480 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 522772000481 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 522772000482 substrate binding pocket [chemical binding]; other site 522772000483 membrane-bound complex binding site; other site 522772000484 hinge residues; other site 522772000485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772000486 dimer interface [polypeptide binding]; other site 522772000487 conserved gate region; other site 522772000488 putative PBP binding loops; other site 522772000489 ABC-ATPase subunit interface; other site 522772000490 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 522772000491 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772000492 dimer interface [polypeptide binding]; other site 522772000493 conserved gate region; other site 522772000494 putative PBP binding loops; other site 522772000495 ABC-ATPase subunit interface; other site 522772000496 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 522772000497 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 522772000498 Walker A/P-loop; other site 522772000499 ATP binding site [chemical binding]; other site 522772000500 Q-loop/lid; other site 522772000501 ABC transporter signature motif; other site 522772000502 Walker B; other site 522772000503 D-loop; other site 522772000504 H-loop/switch region; other site 522772000505 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cl00399 522772000506 MoaE homodimer interface [polypeptide binding]; other site 522772000507 MoaD interaction [polypeptide binding]; other site 522772000508 active site residues [active] 522772000509 Response regulator receiver domain; Region: Response_reg; pfam00072 522772000510 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 522772000511 active site 522772000512 phosphorylation site [posttranslational modification] 522772000513 intermolecular recognition site; other site 522772000514 dimerization interface [polypeptide binding]; other site 522772000515 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 522772000516 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 522772000517 putative active site [active] 522772000518 heme pocket [chemical binding]; other site 522772000519 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 522772000520 putative active site [active] 522772000521 heme pocket [chemical binding]; other site 522772000522 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 522772000523 GAF domain; Region: GAF_2; pfam13185 522772000524 PAS domain S-box; Region: sensory_box; TIGR00229 522772000525 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 522772000526 putative active site [active] 522772000527 heme pocket [chemical binding]; other site 522772000528 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772000529 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 522772000530 ATP binding site [chemical binding]; other site 522772000531 Mg2+ binding site [ion binding]; other site 522772000532 G-X-G motif; other site 522772000533 flavoprotein, HI0933 family; Region: TIGR00275 522772000534 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 522772000535 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 522772000536 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 522772000537 putative dimer interface [polypeptide binding]; other site 522772000538 active site pocket [active] 522772000539 putative cataytic base [active] 522772000540 cobalamin synthase; Reviewed; Region: cobS; PRK00235 522772000541 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 522772000542 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 522772000543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772000544 homodimer interface [polypeptide binding]; other site 522772000545 catalytic residue [active] 522772000546 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 522772000547 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 522772000548 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 522772000549 active site 522772000550 SAM binding site [chemical binding]; other site 522772000551 homodimer interface [polypeptide binding]; other site 522772000552 cobyric acid synthase; Provisional; Region: PRK00784 522772000553 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 522772000554 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 522772000555 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 522772000556 catalytic triad [active] 522772000557 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 522772000558 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 522772000559 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 522772000560 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 522772000561 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 522772000562 catalytic triad [active] 522772000563 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 522772000564 Precorrin-8X methylmutase; Region: CbiC; pfam02570 522772000565 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 522772000566 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 522772000567 active site 522772000568 SAM binding site [chemical binding]; other site 522772000569 homodimer interface [polypeptide binding]; other site 522772000570 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 522772000571 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 522772000572 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 522772000573 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 522772000574 active site 522772000575 SAM binding site [chemical binding]; other site 522772000576 homodimer interface [polypeptide binding]; other site 522772000577 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 522772000578 active site 522772000579 putative homodimer interface [polypeptide binding]; other site 522772000580 SAM binding site [chemical binding]; other site 522772000581 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 522772000582 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 522772000583 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 522772000584 active site 522772000585 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 522772000586 active site 522772000587 N-terminal domain interface [polypeptide binding]; other site 522772000588 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 522772000589 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772000590 Walker A/P-loop; other site 522772000591 ATP binding site [chemical binding]; other site 522772000592 Q-loop/lid; other site 522772000593 ABC transporter signature motif; other site 522772000594 Walker B; other site 522772000595 D-loop; other site 522772000596 H-loop/switch region; other site 522772000597 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 522772000598 ABC-2 type transporter; Region: ABC2_membrane; cl17235 522772000599 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 522772000600 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 522772000601 ABC-ATPase subunit interface; other site 522772000602 dimer interface [polypeptide binding]; other site 522772000603 putative PBP binding regions; other site 522772000604 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 522772000605 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 522772000606 Walker A/P-loop; other site 522772000607 ATP binding site [chemical binding]; other site 522772000608 Q-loop/lid; other site 522772000609 ABC transporter signature motif; other site 522772000610 Walker B; other site 522772000611 D-loop; other site 522772000612 H-loop/switch region; other site 522772000613 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 522772000614 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 522772000615 intersubunit interface [polypeptide binding]; other site 522772000616 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 522772000617 active site 522772000618 SAM binding site [chemical binding]; other site 522772000619 homodimer interface [polypeptide binding]; other site 522772000620 PAS domain S-box; Region: sensory_box; TIGR00229 522772000621 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 522772000622 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 522772000623 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 522772000624 putative active site [active] 522772000625 heme pocket [chemical binding]; other site 522772000626 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 522772000627 Histidine kinase; Region: HisKA_2; pfam07568 522772000628 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 522772000629 ATP binding site [chemical binding]; other site 522772000630 Mg2+ binding site [ion binding]; other site 522772000631 G-X-G motif; other site 522772000632 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 522772000633 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 522772000634 active site 522772000635 phosphorylation site [posttranslational modification] 522772000636 intermolecular recognition site; other site 522772000637 dimerization interface [polypeptide binding]; other site 522772000638 CheB methylesterase; Region: CheB_methylest; pfam01339 522772000639 CheD chemotactic sensory transduction; Region: CheD; cl00810 522772000640 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 522772000641 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 522772000642 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 522772000643 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 522772000644 putative CheA interaction surface; other site 522772000645 HAMP domain; Region: HAMP; pfam00672 522772000646 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772000647 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772000648 dimer interface [polypeptide binding]; other site 522772000649 putative CheW interface [polypeptide binding]; other site 522772000650 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 522772000651 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 522772000652 putative binding surface; other site 522772000653 active site 522772000654 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 522772000655 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 522772000656 ATP binding site [chemical binding]; other site 522772000657 Mg2+ binding site [ion binding]; other site 522772000658 G-X-G motif; other site 522772000659 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 522772000660 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 522772000661 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 522772000662 active site 522772000663 phosphorylation site [posttranslational modification] 522772000664 intermolecular recognition site; other site 522772000665 dimerization interface [polypeptide binding]; other site 522772000666 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 522772000667 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772000668 dimer interface [polypeptide binding]; other site 522772000669 putative CheW interface [polypeptide binding]; other site 522772000670 Response regulator receiver domain; Region: Response_reg; pfam00072 522772000671 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 522772000672 active site 522772000673 phosphorylation site [posttranslational modification] 522772000674 intermolecular recognition site; other site 522772000675 dimerization interface [polypeptide binding]; other site 522772000676 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 522772000677 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 522772000678 active site 522772000679 phosphorylation site [posttranslational modification] 522772000680 intermolecular recognition site; other site 522772000681 dimerization interface [polypeptide binding]; other site 522772000682 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 522772000683 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772000684 dimer interface [polypeptide binding]; other site 522772000685 phosphorylation site [posttranslational modification] 522772000686 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 522772000687 ATP binding site [chemical binding]; other site 522772000688 Mg2+ binding site [ion binding]; other site 522772000689 G-X-G motif; other site 522772000690 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772000691 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 522772000692 active site 522772000693 phosphorylation site [posttranslational modification] 522772000694 intermolecular recognition site; other site 522772000695 dimerization interface [polypeptide binding]; other site 522772000696 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772000697 Walker A motif; other site 522772000698 ATP binding site [chemical binding]; other site 522772000699 Walker B motif; other site 522772000700 arginine finger; other site 522772000701 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 522772000702 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 522772000703 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 522772000704 PhnA protein; Region: PhnA; pfam03831 522772000705 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 522772000706 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 522772000707 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 522772000708 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 522772000709 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 522772000710 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 522772000711 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 522772000712 active site 522772000713 phosphorylation site [posttranslational modification] 522772000714 intermolecular recognition site; other site 522772000715 dimerization interface [polypeptide binding]; other site 522772000716 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 522772000717 DNA binding site [nucleotide binding] 522772000718 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 522772000719 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772000720 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772000721 dimer interface [polypeptide binding]; other site 522772000722 phosphorylation site [posttranslational modification] 522772000723 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 522772000724 ATP binding site [chemical binding]; other site 522772000725 Mg2+ binding site [ion binding]; other site 522772000726 G-X-G motif; other site 522772000727 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772000728 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 522772000729 molybdopterin cofactor binding site; other site 522772000730 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 522772000731 molybdopterin cofactor binding site; other site 522772000732 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 522772000733 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 522772000734 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772000735 molybdopterin cofactor binding site; other site 522772000736 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 522772000737 molybdopterin cofactor binding site; other site 522772000738 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 522772000739 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772000740 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 522772000741 molybdopterin cofactor binding site; other site 522772000742 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 522772000743 molybdopterin cofactor binding site; other site 522772000744 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 522772000745 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772000746 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 522772000747 molybdopterin cofactor binding site; other site 522772000748 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 522772000749 molybdopterin cofactor binding site; other site 522772000750 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 522772000751 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 522772000752 hypothetical protein; Provisional; Region: PRK13795 522772000753 Paraquat-inducible protein A; Region: PqiA; pfam04403 522772000754 Paraquat-inducible protein A; Region: PqiA; pfam04403 522772000755 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 522772000756 mce related protein; Region: MCE; pfam02470 522772000757 mce related protein; Region: MCE; pfam02470 522772000758 mce related protein; Region: MCE; pfam02470 522772000759 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 522772000760 active site 1 [active] 522772000761 dimer interface [polypeptide binding]; other site 522772000762 hexamer interface [polypeptide binding]; other site 522772000763 active site 2 [active] 522772000764 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 522772000765 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 522772000766 substrate binding site [chemical binding]; other site 522772000767 dimer interface [polypeptide binding]; other site 522772000768 ATP binding site [chemical binding]; other site 522772000769 Transcriptional regulators [Transcription]; Region: PurR; COG1609 522772000770 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 522772000771 DNA binding site [nucleotide binding] 522772000772 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 522772000773 ligand binding site [chemical binding]; other site 522772000774 dimerization interface [polypeptide binding]; other site 522772000775 D-ribose pyranase; Provisional; Region: PRK11797 522772000776 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 522772000777 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 522772000778 Walker A/P-loop; other site 522772000779 ATP binding site [chemical binding]; other site 522772000780 Q-loop/lid; other site 522772000781 ABC transporter signature motif; other site 522772000782 Walker B; other site 522772000783 D-loop; other site 522772000784 H-loop/switch region; other site 522772000785 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 522772000786 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 522772000787 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 522772000788 TM-ABC transporter signature motif; other site 522772000789 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 522772000790 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 522772000791 ligand binding site [chemical binding]; other site 522772000792 dimerization interface [polypeptide binding]; other site 522772000793 Carbon starvation protein CstA; Region: CstA; pfam02554 522772000794 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 522772000795 Carbon starvation protein CstA; Region: CstA; pfam02554 522772000796 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 522772000797 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 522772000798 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772000799 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 522772000800 ATP binding site [chemical binding]; other site 522772000801 Mg2+ binding site [ion binding]; other site 522772000802 G-X-G motif; other site 522772000803 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 522772000804 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 522772000805 FAD binding pocket [chemical binding]; other site 522772000806 FAD binding motif [chemical binding]; other site 522772000807 phosphate binding motif [ion binding]; other site 522772000808 beta-alpha-beta structure motif; other site 522772000809 NAD binding pocket [chemical binding]; other site 522772000810 Iron coordination center [ion binding]; other site 522772000811 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 522772000812 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 522772000813 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 522772000814 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 522772000815 Cache domain; Region: Cache_1; pfam02743 522772000816 HAMP domain; Region: HAMP; pfam00672 522772000817 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772000818 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772000819 dimer interface [polypeptide binding]; other site 522772000820 putative CheW interface [polypeptide binding]; other site 522772000821 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 522772000822 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 522772000823 4Fe-4S binding domain; Region: Fer4; pfam00037 522772000824 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 522772000825 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 522772000826 Ferredoxin [Energy production and conversion]; Region: COG1146 522772000827 4Fe-4S binding domain; Region: Fer4; pfam00037 522772000828 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522772000829 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 522772000830 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 522772000831 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 522772000832 HlyD family secretion protein; Region: HlyD_3; pfam13437 522772000833 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 522772000834 Protein export membrane protein; Region: SecD_SecF; cl14618 522772000835 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 522772000836 Rrf2 family protein; Region: rrf2_super; TIGR00738 522772000837 Transcriptional regulator; Region: Rrf2; pfam02082 522772000838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 522772000839 TIGR03545 family protein; Region: TIGR03545 522772000840 TIGR03546 family protein; Region: TIGR03546 522772000841 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 522772000842 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772000843 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 522772000844 active site 522772000845 phosphorylation site [posttranslational modification] 522772000846 intermolecular recognition site; other site 522772000847 dimerization interface [polypeptide binding]; other site 522772000848 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772000849 Walker A motif; other site 522772000850 ATP binding site [chemical binding]; other site 522772000851 Walker B motif; other site 522772000852 arginine finger; other site 522772000853 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 522772000854 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 522772000855 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 522772000856 substrate binding pocket [chemical binding]; other site 522772000857 membrane-bound complex binding site; other site 522772000858 hinge residues; other site 522772000859 Cell differentiation family, Rcd1-like; Region: Rcd1; cl02160 522772000860 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772000861 dimer interface [polypeptide binding]; other site 522772000862 phosphorylation site [posttranslational modification] 522772000863 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 522772000864 ATP binding site [chemical binding]; other site 522772000865 Mg2+ binding site [ion binding]; other site 522772000866 G-X-G motif; other site 522772000867 hypothetical protein; Validated; Region: PRK07121 522772000868 Predicted oxidoreductase [General function prediction only]; Region: COG3573 522772000869 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 522772000870 catalytic core [active] 522772000871 Protein of unknown function DUF262; Region: DUF262; pfam03235 522772000872 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 522772000873 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 522772000874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772000875 Integrase core domain; Region: rve; pfam00665 522772000876 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522772000877 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 522772000878 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772000879 Walker A motif; other site 522772000880 ATP binding site [chemical binding]; other site 522772000881 Walker B motif; other site 522772000882 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772000883 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 522772000884 Walker A motif; other site 522772000885 ATP binding site [chemical binding]; other site 522772000886 Walker B motif; other site 522772000887 arginine finger; other site 522772000888 AAA domain; Region: AAA_22; pfam13401 522772000889 Bacterial TniB protein; Region: TniB; pfam05621 522772000890 Integrase core domain; Region: rve; pfam00665 522772000891 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 522772000892 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 522772000893 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 522772000894 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 522772000895 glutaminase active site [active] 522772000896 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 522772000897 dimer interface [polypeptide binding]; other site 522772000898 active site 522772000899 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 522772000900 dimer interface [polypeptide binding]; other site 522772000901 active site 522772000902 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 522772000903 RNA binding surface [nucleotide binding]; other site 522772000904 SurA N-terminal domain; Region: SurA_N; pfam09312 522772000905 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 522772000906 SurA N-terminal domain; Region: SurA_N_3; cl07813 522772000907 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 522772000908 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 522772000909 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 522772000910 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 522772000911 ATP binding site [chemical binding]; other site 522772000912 putative Mg++ binding site [ion binding]; other site 522772000913 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 522772000914 nucleotide binding region [chemical binding]; other site 522772000915 ATP-binding site [chemical binding]; other site 522772000916 TRCF domain; Region: TRCF; pfam03461 522772000917 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 522772000918 dimer interface [polypeptide binding]; other site 522772000919 active site 522772000920 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 522772000921 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 522772000922 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 522772000923 Helix-turn-helix domain; Region: HTH_17; pfam12728 522772000924 PBP superfamily domain; Region: PBP_like; pfam12727 522772000925 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 522772000926 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 522772000927 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 522772000928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772000929 Integrase core domain; Region: rve; pfam00665 522772000930 transposase/IS protein; Provisional; Region: PRK09183 522772000931 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772000932 Walker A motif; other site 522772000933 ATP binding site [chemical binding]; other site 522772000934 Walker B motif; other site 522772000935 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772000936 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 522772000937 DNA binding residues [nucleotide binding] 522772000938 Integrase core domain; Region: rve; pfam00665 522772000939 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522772000940 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772000941 Walker A motif; other site 522772000942 ATP binding site [chemical binding]; other site 522772000943 Walker B motif; other site 522772000944 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772000945 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 522772000946 Walker A motif; other site 522772000947 ATP binding site [chemical binding]; other site 522772000948 Walker B motif; other site 522772000949 arginine finger; other site 522772000950 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 522772000951 DNA binding site [nucleotide binding] 522772000952 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 522772000953 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 522772000954 SmpB-tmRNA interface; other site 522772000955 Hemerythrin; Region: Hemerythrin; cd12107 522772000956 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 522772000957 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 522772000958 dimerization interface [polypeptide binding]; other site 522772000959 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 522772000960 ATP binding site [chemical binding]; other site 522772000961 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 522772000962 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 522772000963 Competence protein A; Region: Competence_A; pfam11104 522772000964 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 522772000965 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 522772000966 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 522772000967 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 522772000968 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 522772000969 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 522772000970 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 522772000971 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 522772000972 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 522772000973 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 522772000974 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 522772000975 flagellar motor protein MotS; Reviewed; Region: PRK06925 522772000976 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 522772000977 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522772000978 ligand binding site [chemical binding]; other site 522772000979 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 522772000980 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 522772000981 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 522772000982 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 522772000983 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 522772000984 Caspase domain; Region: Peptidase_C14; pfam00656 522772000985 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 522772000986 Putative catalytic domain of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar3; cd09131 522772000987 PLD-like domain; Region: PLDc_2; pfam13091 522772000988 putative active site [active] 522772000989 putative catalytic site [active] 522772000990 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 522772000991 G1 box; other site 522772000992 GTP/Mg2+ binding site [chemical binding]; other site 522772000993 Switch I region; other site 522772000994 G2 box; other site 522772000995 G3 box; other site 522772000996 Switch II region; other site 522772000997 G4 box; other site 522772000998 G5 box; other site 522772000999 DHH family; Region: DHH; pfam01368 522772001000 DHHA1 domain; Region: DHHA1; pfam02272 522772001001 Uncharacterized conserved protein [Function unknown]; Region: COG0432 522772001002 nickel responsive regulator; Provisional; Region: PRK04460 522772001003 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 522772001004 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 522772001005 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; cl00397 522772001006 PDGLE domain; Region: PDGLE; pfam13190 522772001007 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 522772001008 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 522772001009 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 522772001010 Walker A/P-loop; other site 522772001011 ATP binding site [chemical binding]; other site 522772001012 Q-loop/lid; other site 522772001013 ABC transporter signature motif; other site 522772001014 Walker B; other site 522772001015 D-loop; other site 522772001016 H-loop/switch region; other site 522772001017 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 522772001018 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 522772001019 Ligand Binding Site [chemical binding]; other site 522772001020 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 522772001021 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 522772001022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772001023 catalytic residue [active] 522772001024 DJ-1 family protein; Region: not_thiJ; TIGR01383 522772001025 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 522772001026 conserved cys residue [active] 522772001027 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 522772001028 dimer interface [polypeptide binding]; other site 522772001029 motif 1; other site 522772001030 active site 522772001031 motif 2; other site 522772001032 motif 3; other site 522772001033 argininosuccinate synthase; Provisional; Region: PRK13820 522772001034 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 522772001035 ANP binding site [chemical binding]; other site 522772001036 Substrate Binding Site II [chemical binding]; other site 522772001037 Substrate Binding Site I [chemical binding]; other site 522772001038 ornithine carbamoyltransferase; Provisional; Region: PRK00779 522772001039 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 522772001040 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 522772001041 acetylornithine aminotransferase; Provisional; Region: PRK02627 522772001042 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 522772001043 inhibitor-cofactor binding pocket; inhibition site 522772001044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772001045 catalytic residue [active] 522772001046 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 522772001047 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 522772001048 putative acyl-acceptor binding pocket; other site 522772001049 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 522772001050 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 522772001051 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 522772001052 putative acyl-acceptor binding pocket; other site 522772001053 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 522772001054 active site 522772001055 HslU subunit interaction site [polypeptide binding]; other site 522772001056 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 522772001057 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772001058 Walker A motif; other site 522772001059 ATP binding site [chemical binding]; other site 522772001060 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 522772001061 Walker B motif; other site 522772001062 arginine finger; other site 522772001063 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 522772001064 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 522772001065 putative substrate translocation pore; other site 522772001066 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522772001067 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 522772001068 CcmB protein; Region: CcmB; cl17444 522772001069 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522772001070 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 522772001071 Walker A/P-loop; other site 522772001072 ATP binding site [chemical binding]; other site 522772001073 Q-loop/lid; other site 522772001074 ABC transporter signature motif; other site 522772001075 Walker B; other site 522772001076 D-loop; other site 522772001077 H-loop/switch region; other site 522772001078 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 522772001079 CcmE; Region: CcmE; cl00994 522772001080 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 522772001081 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 522772001082 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 522772001083 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 522772001084 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 522772001085 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 522772001086 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 522772001087 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 522772001088 Walker A motif; other site 522772001089 ATP binding site [chemical binding]; other site 522772001090 Walker B motif; other site 522772001091 Mechanosensitive ion channel; Region: MS_channel; pfam00924 522772001092 prolyl-tRNA synthetase; Provisional; Region: PRK09194 522772001093 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 522772001094 dimer interface [polypeptide binding]; other site 522772001095 motif 1; other site 522772001096 active site 522772001097 motif 2; other site 522772001098 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 522772001099 putative deacylase active site [active] 522772001100 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 522772001101 active site 522772001102 motif 3; other site 522772001103 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 522772001104 anticodon binding site; other site 522772001105 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 522772001106 Peptidase family M23; Region: Peptidase_M23; pfam01551 522772001107 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772001108 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 522772001109 ATP binding site [chemical binding]; other site 522772001110 Mg2+ binding site [ion binding]; other site 522772001111 G-X-G motif; other site 522772001112 Response regulator receiver domain; Region: Response_reg; pfam00072 522772001113 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 522772001114 active site 522772001115 phosphorylation site [posttranslational modification] 522772001116 intermolecular recognition site; other site 522772001117 dimerization interface [polypeptide binding]; other site 522772001118 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 522772001119 Secretin and TonB N terminus short domain; Region: STN; pfam07660 522772001120 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 522772001121 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 522772001122 TPR repeat; Region: TPR_11; pfam13414 522772001123 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 522772001124 binding surface 522772001125 TPR motif; other site 522772001126 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522772001127 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 522772001128 putative substrate translocation pore; other site 522772001129 Hemerythrin; Region: Hemerythrin; cd12107 522772001130 Fe binding site [ion binding]; other site 522772001131 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 522772001132 HemN C-terminal domain; Region: HemN_C; pfam06969 522772001133 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 522772001134 dimerization interface [polypeptide binding]; other site 522772001135 putative DNA binding site [nucleotide binding]; other site 522772001136 putative Zn2+ binding site [ion binding]; other site 522772001137 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 522772001138 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 522772001139 inhibitor-cofactor binding pocket; inhibition site 522772001140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772001141 catalytic residue [active] 522772001142 elongation factor Tu; Reviewed; Region: PRK00049 522772001143 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 522772001144 G1 box; other site 522772001145 GEF interaction site [polypeptide binding]; other site 522772001146 GTP/Mg2+ binding site [chemical binding]; other site 522772001147 Switch I region; other site 522772001148 G2 box; other site 522772001149 G3 box; other site 522772001150 Switch II region; other site 522772001151 G4 box; other site 522772001152 G5 box; other site 522772001153 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 522772001154 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 522772001155 Antibiotic Binding Site [chemical binding]; other site 522772001156 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 522772001157 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 522772001158 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 522772001159 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 522772001160 putative homodimer interface [polypeptide binding]; other site 522772001161 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 522772001162 heterodimer interface [polypeptide binding]; other site 522772001163 homodimer interface [polypeptide binding]; other site 522772001164 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 522772001165 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 522772001166 23S rRNA interface [nucleotide binding]; other site 522772001167 L7/L12 interface [polypeptide binding]; other site 522772001168 putative thiostrepton binding site; other site 522772001169 L25 interface [polypeptide binding]; other site 522772001170 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 522772001171 mRNA/rRNA interface [nucleotide binding]; other site 522772001172 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 522772001173 23S rRNA interface [nucleotide binding]; other site 522772001174 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 522772001175 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 522772001176 peripheral dimer interface [polypeptide binding]; other site 522772001177 core dimer interface [polypeptide binding]; other site 522772001178 L10 interface [polypeptide binding]; other site 522772001179 L11 interface [polypeptide binding]; other site 522772001180 putative EF-Tu interaction site [polypeptide binding]; other site 522772001181 putative EF-G interaction site [polypeptide binding]; other site 522772001182 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 522772001183 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 522772001184 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 522772001185 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 522772001186 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 522772001187 RPB12 interaction site [polypeptide binding]; other site 522772001188 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 522772001189 RPB3 interaction site [polypeptide binding]; other site 522772001190 RPB1 interaction site [polypeptide binding]; other site 522772001191 RPB11 interaction site [polypeptide binding]; other site 522772001192 RPB10 interaction site [polypeptide binding]; other site 522772001193 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 522772001194 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 522772001195 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 522772001196 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 522772001197 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 522772001198 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 522772001199 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 522772001200 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 522772001201 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 522772001202 DNA binding site [nucleotide binding] 522772001203 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 522772001204 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 522772001205 S17 interaction site [polypeptide binding]; other site 522772001206 S8 interaction site; other site 522772001207 16S rRNA interaction site [nucleotide binding]; other site 522772001208 streptomycin interaction site [chemical binding]; other site 522772001209 23S rRNA interaction site [nucleotide binding]; other site 522772001210 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 522772001211 30S ribosomal protein S7; Validated; Region: PRK05302 522772001212 elongation factor G; Reviewed; Region: PRK00007 522772001213 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 522772001214 G1 box; other site 522772001215 putative GEF interaction site [polypeptide binding]; other site 522772001216 GTP/Mg2+ binding site [chemical binding]; other site 522772001217 Switch I region; other site 522772001218 G2 box; other site 522772001219 G3 box; other site 522772001220 Switch II region; other site 522772001221 G4 box; other site 522772001222 G5 box; other site 522772001223 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 522772001224 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 522772001225 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 522772001226 elongation factor Tu; Reviewed; Region: PRK00049 522772001227 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 522772001228 G1 box; other site 522772001229 GEF interaction site [polypeptide binding]; other site 522772001230 GTP/Mg2+ binding site [chemical binding]; other site 522772001231 Switch I region; other site 522772001232 G2 box; other site 522772001233 G3 box; other site 522772001234 Switch II region; other site 522772001235 G4 box; other site 522772001236 G5 box; other site 522772001237 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 522772001238 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 522772001239 Antibiotic Binding Site [chemical binding]; other site 522772001240 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 522772001241 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 522772001242 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 522772001243 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 522772001244 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 522772001245 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 522772001246 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 522772001247 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 522772001248 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 522772001249 putative translocon binding site; other site 522772001250 protein-rRNA interface [nucleotide binding]; other site 522772001251 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 522772001252 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 522772001253 G-X-X-G motif; other site 522772001254 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 522772001255 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 522772001256 23S rRNA interface [nucleotide binding]; other site 522772001257 5S rRNA interface [nucleotide binding]; other site 522772001258 putative antibiotic binding site [chemical binding]; other site 522772001259 L25 interface [polypeptide binding]; other site 522772001260 L27 interface [polypeptide binding]; other site 522772001261 50S ribosomal protein L29; Reviewed; Region: PRK00306 522772001262 23S rRNA interface [nucleotide binding]; other site 522772001263 putative translocon interaction site; other site 522772001264 signal recognition particle (SRP54) interaction site; other site 522772001265 L23 interface [polypeptide binding]; other site 522772001266 trigger factor interaction site; other site 522772001267 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 522772001268 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 522772001269 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 522772001270 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 522772001271 RNA binding site [nucleotide binding]; other site 522772001272 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 522772001273 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 522772001274 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 522772001275 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 522772001276 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 522772001277 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 522772001278 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 522772001279 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 522772001280 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 522772001281 5S rRNA interface [nucleotide binding]; other site 522772001282 23S rRNA interface [nucleotide binding]; other site 522772001283 L27 interface [polypeptide binding]; other site 522772001284 L5 interface [polypeptide binding]; other site 522772001285 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 522772001286 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 522772001287 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 522772001288 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 522772001289 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 522772001290 SecY translocase; Region: SecY; pfam00344 522772001291 adenylate kinase; Reviewed; Region: adk; PRK00279 522772001292 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 522772001293 AMP-binding site [chemical binding]; other site 522772001294 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 522772001295 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 522772001296 active site 522772001297 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 522772001298 rRNA binding site [nucleotide binding]; other site 522772001299 predicted 30S ribosome binding site; other site 522772001300 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 522772001301 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 522772001302 30S ribosomal protein S13; Region: bact_S13; TIGR03631 522772001303 30S ribosomal protein S11; Validated; Region: PRK05309 522772001304 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 522772001305 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 522772001306 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 522772001307 RNA binding surface [nucleotide binding]; other site 522772001308 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 522772001309 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 522772001310 alphaNTD - beta interaction site [polypeptide binding]; other site 522772001311 alphaNTD homodimer interface [polypeptide binding]; other site 522772001312 alphaNTD - beta' interaction site [polypeptide binding]; other site 522772001313 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 522772001314 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 522772001315 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; cl17608 522772001316 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772001317 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772001318 metal binding site [ion binding]; metal-binding site 522772001319 active site 522772001320 I-site; other site 522772001321 Late competence development protein ComFB; Region: ComFB; pfam10719 522772001322 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 522772001323 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 522772001324 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 522772001325 5'-3' exonuclease; Region: 53EXOc; smart00475 522772001326 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 522772001327 active site 522772001328 metal binding site 1 [ion binding]; metal-binding site 522772001329 putative 5' ssDNA interaction site; other site 522772001330 metal binding site 3; metal-binding site 522772001331 metal binding site 2 [ion binding]; metal-binding site 522772001332 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 522772001333 putative DNA binding site [nucleotide binding]; other site 522772001334 putative metal binding site [ion binding]; other site 522772001335 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 522772001336 active site 522772001337 DNA binding site [nucleotide binding] 522772001338 catalytic site [active] 522772001339 GAF domain; Region: GAF_2; pfam13185 522772001340 GAF domain; Region: GAF_3; pfam13492 522772001341 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772001342 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772001343 metal binding site [ion binding]; metal-binding site 522772001344 active site 522772001345 I-site; other site 522772001346 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 522772001347 histidinol dehydrogenase; Region: hisD; TIGR00069 522772001348 NAD binding site [chemical binding]; other site 522772001349 dimerization interface [polypeptide binding]; other site 522772001350 product binding site; other site 522772001351 substrate binding site [chemical binding]; other site 522772001352 zinc binding site [ion binding]; other site 522772001353 catalytic residues [active] 522772001354 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 522772001355 Protein of unknown function (DUF342); Region: DUF342; pfam03961 522772001356 Tetratricopeptide repeat; Region: TPR_16; pfam13432 522772001357 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 522772001358 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 522772001359 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 522772001360 PYR/PP interface [polypeptide binding]; other site 522772001361 dimer interface [polypeptide binding]; other site 522772001362 TPP binding site [chemical binding]; other site 522772001363 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 522772001364 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 522772001365 TPP-binding site [chemical binding]; other site 522772001366 dimer interface [polypeptide binding]; other site 522772001367 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 522772001368 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 522772001369 putative valine binding site [chemical binding]; other site 522772001370 dimer interface [polypeptide binding]; other site 522772001371 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 522772001372 ketol-acid reductoisomerase; Provisional; Region: PRK05479 522772001373 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 522772001374 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 522772001375 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 522772001376 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 522772001377 HflX GTPase family; Region: HflX; cd01878 522772001378 G1 box; other site 522772001379 GTP/Mg2+ binding site [chemical binding]; other site 522772001380 Switch I region; other site 522772001381 G2 box; other site 522772001382 G3 box; other site 522772001383 Switch II region; other site 522772001384 G4 box; other site 522772001385 G5 box; other site 522772001386 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 522772001387 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 522772001388 HupF/HypC family; Region: HupF_HypC; pfam01455 522772001389 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 522772001390 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 522772001391 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 522772001392 CPxP motif; other site 522772001393 DsrE/DsrF-like family; Region: DrsE; pfam02635 522772001394 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 522772001395 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 522772001396 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 522772001397 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 522772001398 NAD(P) binding site [chemical binding]; other site 522772001399 homodimer interface [polypeptide binding]; other site 522772001400 substrate binding site [chemical binding]; other site 522772001401 active site 522772001402 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 522772001403 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 522772001404 inhibitor-cofactor binding pocket; inhibition site 522772001405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772001406 catalytic residue [active] 522772001407 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 522772001408 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772001409 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 522772001410 active site 522772001411 phosphorylation site [posttranslational modification] 522772001412 intermolecular recognition site; other site 522772001413 dimerization interface [polypeptide binding]; other site 522772001414 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772001415 Walker A motif; other site 522772001416 ATP binding site [chemical binding]; other site 522772001417 Walker B motif; other site 522772001418 arginine finger; other site 522772001419 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 522772001420 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772001421 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772001422 dimerization interface [polypeptide binding]; other site 522772001423 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772001424 dimer interface [polypeptide binding]; other site 522772001425 phosphorylation site [posttranslational modification] 522772001426 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 522772001427 ATP binding site [chemical binding]; other site 522772001428 G-X-G motif; other site 522772001429 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 522772001430 Ferritin-like domain; Region: Ferritin; pfam00210 522772001431 ferroxidase diiron center [ion binding]; other site 522772001432 Uncharacterized conserved protein [Function unknown]; Region: COG1543 522772001433 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 522772001434 active site 522772001435 substrate binding site [chemical binding]; other site 522772001436 catalytic site [active] 522772001437 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 522772001438 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 522772001439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 522772001440 glycogen/starch synthase, ADP-glucose type; Region: glgA; TIGR02095 522772001441 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 522772001442 ADP-binding pocket [chemical binding]; other site 522772001443 homodimer interface [polypeptide binding]; other site 522772001444 ADP-glucose phosphorylase; Region: PLN02643 522772001445 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 522772001446 nucleotide binding site/active site [active] 522772001447 HIT family signature motif; other site 522772001448 catalytic residue [active] 522772001449 N-terminal catalytic domain of 4-alpha-glucanotransferase; glycoside hydrolase family 57 (GH57); Region: GH57N_TLGT_like; cd10793 522772001450 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 522772001451 active site 522772001452 catalytic site [active] 522772001453 homodimer interface [polypeptide binding]; other site 522772001454 Lid 1; other site 522772001455 Domain of unknown function (DUF1925); Region: DUF1925; pfam09094 522772001456 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 522772001457 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 522772001458 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 522772001459 putative active site [active] 522772001460 catalytic site [active] 522772001461 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 522772001462 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 522772001463 active site 522772001464 Substrate binding site; other site 522772001465 Mg++ binding site; other site 522772001466 Left-handed parallel beta-Helix (LbH) domain of a group of proteins with similarity to glucose-1-phosphate adenylyltransferase: Included in this family are glucose-1-phosphate adenylyltransferase, mannose-1-phosphate guanylyltransferase, and the...; Region: LbH_G1P_AT_C_like; cd03356 522772001467 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 522772001468 active site 522772001469 substrate binding site [chemical binding]; other site 522772001470 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 522772001471 metal binding site [ion binding]; metal-binding site 522772001472 Response regulator receiver domain; Region: Response_reg; pfam00072 522772001473 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 522772001474 active site 522772001475 phosphorylation site [posttranslational modification] 522772001476 intermolecular recognition site; other site 522772001477 dimerization interface [polypeptide binding]; other site 522772001478 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 522772001479 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 522772001480 substrate binding site [chemical binding]; other site 522772001481 hexamer interface [polypeptide binding]; other site 522772001482 metal binding site [ion binding]; metal-binding site 522772001483 Transglycosylase SLT domain; Region: SLT_2; pfam13406 522772001484 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 522772001485 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522772001486 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 522772001487 PAS domain; Region: PAS_9; pfam13426 522772001488 putative active site [active] 522772001489 heme pocket [chemical binding]; other site 522772001490 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772001491 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772001492 dimer interface [polypeptide binding]; other site 522772001493 phosphorylation site [posttranslational modification] 522772001494 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 522772001495 ATP binding site [chemical binding]; other site 522772001496 Mg2+ binding site [ion binding]; other site 522772001497 G-X-G motif; other site 522772001498 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 522772001499 feedback inhibition sensing region; other site 522772001500 homohexameric interface [polypeptide binding]; other site 522772001501 carbamate kinase; Reviewed; Region: PRK12686 522772001502 nucleotide binding site [chemical binding]; other site 522772001503 N-acetyl-L-glutamate binding site [chemical binding]; other site 522772001504 protein-L-isoaspartate O-methyltransferase; Provisional; Region: PRK13942 522772001505 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 522772001506 S-adenosylmethionine binding site [chemical binding]; other site 522772001507 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 522772001508 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 522772001509 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522772001510 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 522772001511 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 522772001512 DNA binding residues [nucleotide binding] 522772001513 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 522772001514 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 522772001515 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 522772001516 active site 522772001517 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 522772001518 ligand binding site; other site 522772001519 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 522772001520 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 522772001521 NeuB family; Region: NeuB; pfam03102 522772001522 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 522772001523 NeuB binding interface [polypeptide binding]; other site 522772001524 putative substrate binding site [chemical binding]; other site 522772001525 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 522772001526 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 522772001527 FlaG protein; Region: FlaG; pfam03646 522772001528 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 522772001529 WbqC-like protein family; Region: WbqC; pfam08889 522772001530 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 522772001531 Methyltransferase domain; Region: Methyltransf_23; pfam13489 522772001532 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 522772001533 S-adenosylmethionine binding site [chemical binding]; other site 522772001534 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 522772001535 Coenzyme A binding pocket [chemical binding]; other site 522772001536 tungsten cofactor oxidoreducase radical SAM maturase; Region: W_rSAM_matur; TIGR04317 522772001537 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 522772001538 FeS/SAM binding site; other site 522772001539 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 522772001540 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 522772001541 heterotetramer interface [polypeptide binding]; other site 522772001542 active site pocket [active] 522772001543 cleavage site 522772001544 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 522772001545 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 522772001546 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 522772001547 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 522772001548 inhibitor-cofactor binding pocket; inhibition site 522772001549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772001550 catalytic residue [active] 522772001551 Nitrogen regulatory protein P-II; Region: P-II; smart00938 522772001552 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 522772001553 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 522772001554 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 522772001555 ATP synthase subunit C; Region: ATP-synt_C; cl00466 522772001556 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 522772001557 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 522772001558 heme-binding residues [chemical binding]; other site 522772001559 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 522772001560 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 522772001561 5S rRNA interface [nucleotide binding]; other site 522772001562 CTC domain interface [polypeptide binding]; other site 522772001563 L16 interface [polypeptide binding]; other site 522772001564 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 522772001565 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 522772001566 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 522772001567 2-isopropylmalate synthase; Validated; Region: PRK00915 522772001568 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 522772001569 active site 522772001570 catalytic residues [active] 522772001571 metal binding site [ion binding]; metal-binding site 522772001572 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 522772001573 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 522772001574 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772001575 dimerization interface [polypeptide binding]; other site 522772001576 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772001577 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772001578 dimer interface [polypeptide binding]; other site 522772001579 putative CheW interface [polypeptide binding]; other site 522772001580 hypothetical protein; Validated; Region: PRK00110 522772001581 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 522772001582 active site 522772001583 putative DNA-binding cleft [nucleotide binding]; other site 522772001584 dimer interface [polypeptide binding]; other site 522772001585 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 522772001586 RuvA N terminal domain; Region: RuvA_N; pfam01330 522772001587 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 522772001588 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522772001589 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 522772001590 Walker A/P-loop; other site 522772001591 ATP binding site [chemical binding]; other site 522772001592 Q-loop/lid; other site 522772001593 ABC transporter signature motif; other site 522772001594 Walker B; other site 522772001595 D-loop; other site 522772001596 H-loop/switch region; other site 522772001597 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 522772001598 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 522772001599 FAD binding domain; Region: FAD_binding_4; pfam01565 522772001600 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 522772001601 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 522772001602 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 522772001603 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 522772001604 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 522772001605 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 522772001606 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 522772001607 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 522772001608 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 522772001609 CAAX protease self-immunity; Region: Abi; pfam02517 522772001610 putative type II secretion protein GspC; Provisional; Region: PRK09681 522772001611 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 522772001612 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 522772001613 type II secretion system protein D; Region: type_II_gspD; TIGR02517 522772001614 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 522772001615 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 522772001616 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 522772001617 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 522772001618 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 522772001619 Walker A motif; other site 522772001620 ATP binding site [chemical binding]; other site 522772001621 Walker B motif; other site 522772001622 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 522772001623 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 522772001624 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 522772001625 GTP-binding protein LepA; Provisional; Region: PRK05433 522772001626 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 522772001627 G1 box; other site 522772001628 putative GEF interaction site [polypeptide binding]; other site 522772001629 GTP/Mg2+ binding site [chemical binding]; other site 522772001630 Switch I region; other site 522772001631 G2 box; other site 522772001632 G3 box; other site 522772001633 Switch II region; other site 522772001634 G4 box; other site 522772001635 G5 box; other site 522772001636 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 522772001637 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 522772001638 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 522772001639 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 522772001640 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 522772001641 Catalytic site [active] 522772001642 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 522772001643 putative nucleotide binding site [chemical binding]; other site 522772001644 uridine monophosphate binding site [chemical binding]; other site 522772001645 homohexameric interface [polypeptide binding]; other site 522772001646 ribosome recycling factor; Reviewed; Region: frr; PRK00083 522772001647 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 522772001648 hinge region; other site 522772001649 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 522772001650 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 522772001651 catalytic residue [active] 522772001652 putative FPP diphosphate binding site; other site 522772001653 putative FPP binding hydrophobic cleft; other site 522772001654 dimer interface [polypeptide binding]; other site 522772001655 putative IPP diphosphate binding site; other site 522772001656 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 522772001657 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 522772001658 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 522772001659 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 522772001660 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 522772001661 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 522772001662 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 522772001663 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 522772001664 active site 522772001665 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 522772001666 protein binding site [polypeptide binding]; other site 522772001667 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 522772001668 putative substrate binding region [chemical binding]; other site 522772001669 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 522772001670 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 522772001671 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 522772001672 putative catalytic site [active] 522772001673 putative phosphate binding site [ion binding]; other site 522772001674 active site 522772001675 metal binding site A [ion binding]; metal-binding site 522772001676 DNA binding site [nucleotide binding] 522772001677 putative AP binding site [nucleotide binding]; other site 522772001678 putative metal binding site B [ion binding]; other site 522772001679 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 522772001680 FMN binding site [chemical binding]; other site 522772001681 dimer interface [polypeptide binding]; other site 522772001682 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 522772001683 dimer interface [polypeptide binding]; other site 522772001684 ADP-ribose binding site [chemical binding]; other site 522772001685 active site 522772001686 nudix motif; other site 522772001687 metal binding site [ion binding]; metal-binding site 522772001688 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 522772001689 Flagellar protein YcgR; Region: YcgR_2; pfam12945 522772001690 PilZ domain; Region: PilZ; pfam07238 522772001691 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772001692 dimerization interface [polypeptide binding]; other site 522772001693 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772001694 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772001695 dimer interface [polypeptide binding]; other site 522772001696 putative CheW interface [polypeptide binding]; other site 522772001697 Protein of unknown function (DUF493); Region: DUF493; pfam04359 522772001698 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 522772001699 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 522772001700 dimer interface [polypeptide binding]; other site 522772001701 active site residues [active] 522772001702 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 522772001703 Putative methyltransferase; Region: Methyltransf_4; cl17290 522772001704 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 522772001705 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 522772001706 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772001707 dimer interface [polypeptide binding]; other site 522772001708 putative CheW interface [polypeptide binding]; other site 522772001709 PAS domain S-box; Region: sensory_box; TIGR00229 522772001710 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772001711 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 522772001712 ATP binding site [chemical binding]; other site 522772001713 G-X-G motif; other site 522772001714 Predicted permeases [General function prediction only]; Region: COG0679 522772001715 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 522772001716 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 522772001717 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 522772001718 DHH family; Region: DHH; pfam01368 522772001719 DHHA1 domain; Region: DHHA1; pfam02272 522772001720 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 522772001721 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772001722 Zn2+ binding site [ion binding]; other site 522772001723 Mg2+ binding site [ion binding]; other site 522772001724 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 522772001725 synthetase active site [active] 522772001726 NTP binding site [chemical binding]; other site 522772001727 metal binding site [ion binding]; metal-binding site 522772001728 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 522772001729 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 522772001730 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 522772001731 AAA domain; Region: AAA_30; pfam13604 522772001732 Family description; Region: UvrD_C_2; pfam13538 522772001733 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 522772001734 Family description; Region: UvrD_C_2; pfam13538 522772001735 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 522772001736 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 522772001737 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 522772001738 PAS domain; Region: PAS_9; pfam13426 522772001739 putative active site [active] 522772001740 heme pocket [chemical binding]; other site 522772001741 PAS domain S-box; Region: sensory_box; TIGR00229 522772001742 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 522772001743 putative active site [active] 522772001744 heme pocket [chemical binding]; other site 522772001745 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772001746 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772001747 metal binding site [ion binding]; metal-binding site 522772001748 active site 522772001749 I-site; other site 522772001750 EamA-like transporter family; Region: EamA; pfam00892 522772001751 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 522772001752 EamA-like transporter family; Region: EamA; pfam00892 522772001753 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 522772001754 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 522772001755 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 522772001756 active site 522772001757 DNA binding site [nucleotide binding] 522772001758 Int/Topo IB signature motif; other site 522772001759 Frigida-like protein; Region: Frigida; pfam07899 522772001760 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 522772001761 non-specific DNA binding site [nucleotide binding]; other site 522772001762 salt bridge; other site 522772001763 sequence-specific DNA binding site [nucleotide binding]; other site 522772001764 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 522772001765 putative transcriptional regulator; Provisional; Region: tfx; cl17550 522772001766 mobile mystery protein A; Region: mob_myst_A; TIGR02612 522772001767 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 522772001768 non-specific DNA binding site [nucleotide binding]; other site 522772001769 salt bridge; other site 522772001770 sequence-specific DNA binding site [nucleotide binding]; other site 522772001771 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 522772001772 oligomeric interface; other site 522772001773 putative active site [active] 522772001774 homodimer interface [polypeptide binding]; other site 522772001775 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 522772001776 HipA N-terminal domain; Region: Couple_hipA; pfam13657 522772001777 HipA-like N-terminal domain; Region: HipA_N; pfam07805 522772001778 HipA-like C-terminal domain; Region: HipA_C; pfam07804 522772001779 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 522772001780 non-specific DNA binding site [nucleotide binding]; other site 522772001781 salt bridge; other site 522772001782 sequence-specific DNA binding site [nucleotide binding]; other site 522772001783 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 522772001784 PRTRC system protein D; Region: PRTRC_D; TIGR03739 522772001785 Mg binding site [ion binding]; other site 522772001786 nucleotide binding site [chemical binding]; other site 522772001787 putative protofilament interface [polypeptide binding]; other site 522772001788 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 522772001789 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 522772001790 non-specific DNA binding site [nucleotide binding]; other site 522772001791 salt bridge; other site 522772001792 sequence-specific DNA binding site [nucleotide binding]; other site 522772001793 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772001794 MULE transposase domain; Region: MULE; pfam10551 522772001795 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 522772001796 TraE protein; Region: TraE; cl05060 522772001797 TraK protein; Region: TraK; pfam06586 522772001798 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 522772001799 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 522772001800 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 522772001801 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 522772001802 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 522772001803 TraU protein; Region: TraU; pfam06834 522772001804 F plasmid transfer operon protein; Region: TraF; pfam13728 522772001805 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 522772001806 catalytic residues [active] 522772001807 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 522772001808 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 522772001809 Virulence protein [General function prediction only]; Region: COG3943 522772001810 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 522772001811 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 522772001812 active site 522772001813 catalytic site [active] 522772001814 substrate binding site [chemical binding]; other site 522772001815 Predicted transcriptional regulator [Transcription]; Region: COG2378 522772001816 WYL domain; Region: WYL; pfam13280 522772001817 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 522772001818 Active Sites [active] 522772001819 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 522772001820 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 522772001821 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 522772001822 Domain of unknown function (DUF955); Region: DUF955; cl01076 522772001823 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 522772001824 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522772001825 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 522772001826 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 522772001827 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14876 522772001828 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 522772001829 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 522772001830 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 522772001831 C-type lectin (CTL)/C-type lectin-like (CTLD) domain; Region: CLECT; cl02432 522772001832 ligand binding surface [chemical binding]; other site 522772001833 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 522772001834 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772001835 Zn2+ binding site [ion binding]; other site 522772001836 Mg2+ binding site [ion binding]; other site 522772001837 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 522772001838 AAA-like domain; Region: AAA_10; pfam12846 522772001839 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 522772001840 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 522772001841 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 522772001842 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 522772001843 non-specific DNA binding site [nucleotide binding]; other site 522772001844 salt bridge; other site 522772001845 sequence-specific DNA binding site [nucleotide binding]; other site 522772001846 transcription termination factor NusA; Region: NusA; TIGR01953 522772001847 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 522772001848 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 522772001849 dimer interface [polypeptide binding]; other site 522772001850 ssDNA binding site [nucleotide binding]; other site 522772001851 tetramer (dimer of dimers) interface [polypeptide binding]; other site 522772001852 Cadherin repeat-like domain; Region: CA_like; cl15786 522772001853 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 522772001854 Ca2+ binding site [ion binding]; other site 522772001855 Cadherin repeat-like domain; Region: CA_like; cl15786 522772001856 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 522772001857 Ca2+ binding site [ion binding]; other site 522772001858 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 522772001859 AAA domain; Region: AAA_14; pfam13173 522772001860 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 522772001861 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 522772001862 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 522772001863 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 522772001864 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 522772001865 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 522772001866 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 522772001867 active site 522772001868 DNA binding site [nucleotide binding] 522772001869 Int/Topo IB signature motif; other site 522772001870 Helix-turn-helix domain; Region: HTH_36; pfam13730 522772001871 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 522772001872 non-specific DNA binding site [nucleotide binding]; other site 522772001873 salt bridge; other site 522772001874 sequence-specific DNA binding site [nucleotide binding]; other site 522772001875 WYL domain; Region: WYL; pfam13280 522772001876 Uncharacterized conserved protein [Function unknown]; Region: COG3339 522772001877 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 522772001878 G1 box; other site 522772001879 GTP/Mg2+ binding site [chemical binding]; other site 522772001880 G2 box; other site 522772001881 Switch I region; other site 522772001882 G3 box; other site 522772001883 Switch II region; other site 522772001884 G4 box; other site 522772001885 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 522772001886 Dynamin family; Region: Dynamin_N; pfam00350 522772001887 G1 box; other site 522772001888 GTP/Mg2+ binding site [chemical binding]; other site 522772001889 G2 box; other site 522772001890 Switch I region; other site 522772001891 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 522772001892 G3 box; other site 522772001893 Switch II region; other site 522772001894 G4 box; other site 522772001895 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 522772001896 G3 box; other site 522772001897 Switch II region; other site 522772001898 G4 box; other site 522772001899 Transposase; Region: HTH_Tnp_1; pfam01527 522772001900 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 522772001901 putative active site [active] 522772001902 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 522772001903 active site 522772001904 cosubstrate binding site; other site 522772001905 substrate binding site [chemical binding]; other site 522772001906 catalytic site [active] 522772001907 pseudaminic acid synthase; Region: PseI; TIGR03586 522772001908 NeuB family; Region: NeuB; pfam03102 522772001909 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 522772001910 NeuB binding interface [polypeptide binding]; other site 522772001911 putative substrate binding site [chemical binding]; other site 522772001912 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772001913 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 522772001914 non-specific DNA binding site [nucleotide binding]; other site 522772001915 salt bridge; other site 522772001916 sequence-specific DNA binding site [nucleotide binding]; other site 522772001917 Domain of unknown function (DUF955); Region: DUF955; pfam06114 522772001918 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772001919 MULE transposase domain; Region: MULE; pfam10551 522772001920 AAA domain; Region: AAA_14; pfam13173 522772001921 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 522772001922 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 522772001923 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 522772001924 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 522772001925 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 522772001926 active site 522772001927 DNA binding site [nucleotide binding] 522772001928 Int/Topo IB signature motif; other site 522772001929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772001930 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 522772001931 DNA binding residues [nucleotide binding] 522772001932 Integrase core domain; Region: rve; pfam00665 522772001933 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522772001934 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772001935 Walker A motif; other site 522772001936 ATP binding site [chemical binding]; other site 522772001937 Walker B motif; other site 522772001938 Transposase; Region: HTH_Tnp_1; pfam01527 522772001939 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 522772001940 HTH-like domain; Region: HTH_21; pfam13276 522772001941 Integrase core domain; Region: rve; pfam00665 522772001942 Integrase core domain; Region: rve_3; pfam13683 522772001943 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 522772001944 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 522772001945 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 522772001946 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 522772001947 Transposase; Region: HTH_Tnp_1; cl17663 522772001948 putative transposase OrfB; Reviewed; Region: PHA02517 522772001949 HTH-like domain; Region: HTH_21; pfam13276 522772001950 Integrase core domain; Region: rve; pfam00665 522772001951 Integrase core domain; Region: rve_3; pfam13683 522772001952 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772001953 MULE transposase domain; Region: MULE; pfam10551 522772001954 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 522772001955 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 522772001956 active site 522772001957 catalytic triad [active] 522772001958 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772001959 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 522772001960 Walker A motif; other site 522772001961 ATP binding site [chemical binding]; other site 522772001962 Walker B motif; other site 522772001963 arginine finger; other site 522772001964 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 522772001965 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 522772001966 MULE transposase domain; Region: MULE; pfam10551 522772001967 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 522772001968 non-specific DNA binding site [nucleotide binding]; other site 522772001969 salt bridge; other site 522772001970 sequence-specific DNA binding site [nucleotide binding]; other site 522772001971 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 522772001972 PRTRC system protein D; Region: PRTRC_D; TIGR03739 522772001973 Mg binding site [ion binding]; other site 522772001974 nucleotide binding site [chemical binding]; other site 522772001975 putative protofilament interface [polypeptide binding]; other site 522772001976 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772001977 MULE transposase domain; Region: MULE; pfam10551 522772001978 putative transposase OrfB; Reviewed; Region: PHA02517 522772001979 HTH-like domain; Region: HTH_21; pfam13276 522772001980 Integrase core domain; Region: rve; pfam00665 522772001981 Integrase core domain; Region: rve_3; pfam13683 522772001982 Transposase; Region: HTH_Tnp_1; pfam01527 522772001983 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 522772001984 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772001985 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772001986 Integrase core domain; Region: rve; pfam00665 522772001987 transposase/IS protein; Provisional; Region: PRK09183 522772001988 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772001989 Walker A motif; other site 522772001990 ATP binding site [chemical binding]; other site 522772001991 Walker B motif; other site 522772001992 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 522772001993 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772001994 molybdopterin cofactor binding site; other site 522772001995 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 522772001996 molybdopterin cofactor binding site; other site 522772001997 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 522772001998 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 522772001999 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 522772002000 Radical SAM superfamily; Region: Radical_SAM; pfam04055 522772002001 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 522772002002 FeS/SAM binding site; other site 522772002003 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 522772002004 B12 binding site [chemical binding]; other site 522772002005 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 522772002006 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 522772002007 Radical SAM superfamily; Region: Radical_SAM; pfam04055 522772002008 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 522772002009 FeS/SAM binding site; other site 522772002010 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 522772002011 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 522772002012 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 522772002013 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772002014 MULE transposase domain; Region: MULE; pfam10551 522772002015 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 522772002016 Transposase; Region: HTH_Tnp_1; pfam01527 522772002017 putative transposase OrfB; Reviewed; Region: PHA02517 522772002018 HTH-like domain; Region: HTH_21; pfam13276 522772002019 Integrase core domain; Region: rve; pfam00665 522772002020 Integrase core domain; Region: rve_3; pfam13683 522772002021 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 522772002022 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522772002023 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 522772002024 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 522772002025 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 522772002026 dimer interface [polypeptide binding]; other site 522772002027 ssDNA binding site [nucleotide binding]; other site 522772002028 tetramer (dimer of dimers) interface [polypeptide binding]; other site 522772002029 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 522772002030 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 522772002031 Divergent AAA domain; Region: AAA_4; pfam04326 522772002032 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 522772002033 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 522772002034 putative DNA binding site [nucleotide binding]; other site 522772002035 putative Zn2+ binding site [ion binding]; other site 522772002036 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 522772002037 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 522772002038 active site 522772002039 DNA binding site [nucleotide binding] 522772002040 Int/Topo IB signature motif; other site 522772002041 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 522772002042 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 522772002043 sequence-specific DNA binding site [nucleotide binding]; other site 522772002044 salt bridge; other site 522772002045 SIR2-like domain; Region: SIR2_2; pfam13289 522772002046 Domain of unknown function DUF87; Region: DUF87; pfam01935 522772002047 AAA-like domain; Region: AAA_10; pfam12846 522772002048 KTSC domain; Region: KTSC; pfam13619 522772002049 Nuclease-related domain; Region: NERD; pfam08378 522772002050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772002051 Integrase core domain; Region: rve; pfam00665 522772002052 transposase/IS protein; Provisional; Region: PRK09183 522772002053 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772002054 Walker A motif; other site 522772002055 ATP binding site [chemical binding]; other site 522772002056 Walker B motif; other site 522772002057 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 522772002058 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 522772002059 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772002060 Integrase core domain; Region: rve; pfam00665 522772002061 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522772002062 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 522772002063 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772002064 Walker A motif; other site 522772002065 ATP binding site [chemical binding]; other site 522772002066 Walker B motif; other site 522772002067 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522772002068 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772002069 Walker A motif; other site 522772002070 ATP binding site [chemical binding]; other site 522772002071 Walker B motif; other site 522772002072 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 522772002073 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 522772002074 active site 522772002075 catalytic residues [active] 522772002076 DNA binding site [nucleotide binding] 522772002077 Int/Topo IB signature motif; other site 522772002078 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772002079 MULE transposase domain; Region: MULE; pfam10551 522772002080 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 522772002081 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 522772002082 multiple promoter invertase; Provisional; Region: mpi; PRK13413 522772002083 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 522772002084 catalytic residues [active] 522772002085 catalytic nucleophile [active] 522772002086 Presynaptic Site I dimer interface [polypeptide binding]; other site 522772002087 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 522772002088 Synaptic Flat tetramer interface [polypeptide binding]; other site 522772002089 Synaptic Site I dimer interface [polypeptide binding]; other site 522772002090 DNA binding site [nucleotide binding] 522772002091 Response regulator receiver domain; Region: Response_reg; pfam00072 522772002092 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 522772002093 active site 522772002094 phosphorylation site [posttranslational modification] 522772002095 intermolecular recognition site; other site 522772002096 dimerization interface [polypeptide binding]; other site 522772002097 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 522772002098 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 522772002099 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772002100 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772002101 dimer interface [polypeptide binding]; other site 522772002102 phosphorylation site [posttranslational modification] 522772002103 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 522772002104 ATP binding site [chemical binding]; other site 522772002105 Mg2+ binding site [ion binding]; other site 522772002106 G-X-G motif; other site 522772002107 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 522772002108 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 522772002109 active site 522772002110 phosphorylation site [posttranslational modification] 522772002111 intermolecular recognition site; other site 522772002112 dimerization interface [polypeptide binding]; other site 522772002113 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522772002114 DNA binding residues [nucleotide binding] 522772002115 dimerization interface [polypeptide binding]; other site 522772002116 PAS domain; Region: PAS_9; pfam13426 522772002117 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 522772002118 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 522772002119 ATP binding site [chemical binding]; other site 522772002120 Mg2+ binding site [ion binding]; other site 522772002121 G-X-G motif; other site 522772002122 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 522772002123 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 522772002124 S-adenosylmethionine binding site [chemical binding]; other site 522772002125 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522772002126 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 522772002127 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 522772002128 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522772002129 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 522772002130 HlyD family secretion protein; Region: HlyD_3; pfam13437 522772002131 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 522772002132 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 522772002133 dimerization interface [polypeptide binding]; other site 522772002134 putative DNA binding site [nucleotide binding]; other site 522772002135 putative Zn2+ binding site [ion binding]; other site 522772002136 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 522772002137 L-aspartate oxidase; Provisional; Region: PRK06175 522772002138 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 522772002139 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 522772002140 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 522772002141 Radical SAM superfamily; Region: Radical_SAM; pfam04055 522772002142 FeS/SAM binding site; other site 522772002143 PAS domain S-box; Region: sensory_box; TIGR00229 522772002144 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 522772002145 putative active site [active] 522772002146 heme pocket [chemical binding]; other site 522772002147 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772002148 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772002149 metal binding site [ion binding]; metal-binding site 522772002150 active site 522772002151 I-site; other site 522772002152 PAS domain; Region: PAS_9; pfam13426 522772002153 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 522772002154 putative active site [active] 522772002155 heme pocket [chemical binding]; other site 522772002156 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772002157 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772002158 metal binding site [ion binding]; metal-binding site 522772002159 active site 522772002160 I-site; other site 522772002161 enolase; Provisional; Region: eno; PRK00077 522772002162 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 522772002163 dimer interface [polypeptide binding]; other site 522772002164 metal binding site [ion binding]; metal-binding site 522772002165 substrate binding pocket [chemical binding]; other site 522772002166 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 522772002167 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 522772002168 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 522772002169 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 522772002170 putative dimer interface [polypeptide binding]; other site 522772002171 putative anticodon binding site; other site 522772002172 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 522772002173 homodimer interface [polypeptide binding]; other site 522772002174 motif 1; other site 522772002175 motif 2; other site 522772002176 active site 522772002177 motif 3; other site 522772002178 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772002179 MULE transposase domain; Region: MULE; pfam10551 522772002180 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 522772002181 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522772002182 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 522772002183 transposase/IS protein; Provisional; Region: PRK09183 522772002184 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772002185 Walker A motif; other site 522772002186 ATP binding site [chemical binding]; other site 522772002187 Walker B motif; other site 522772002188 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772002189 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 522772002190 salt bridge; other site 522772002191 non-specific DNA binding site [nucleotide binding]; other site 522772002192 sequence-specific DNA binding site [nucleotide binding]; other site 522772002193 Integrase core domain; Region: rve; pfam00665 522772002194 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 522772002195 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 522772002196 non-specific DNA binding site [nucleotide binding]; other site 522772002197 salt bridge; other site 522772002198 sequence-specific DNA binding site [nucleotide binding]; other site 522772002199 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 522772002200 active site 522772002201 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772002202 MULE transposase domain; Region: MULE; pfam10551 522772002203 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522772002204 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772002205 Walker A motif; other site 522772002206 ATP binding site [chemical binding]; other site 522772002207 Walker B motif; other site 522772002208 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 522772002209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772002210 Integrase core domain; Region: rve; pfam00665 522772002211 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 522772002212 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522772002213 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 522772002214 Response regulator receiver domain; Region: Response_reg; pfam00072 522772002215 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 522772002216 active site 522772002217 phosphorylation site [posttranslational modification] 522772002218 intermolecular recognition site; other site 522772002219 dimerization interface [polypeptide binding]; other site 522772002220 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 522772002221 non-specific DNA binding site [nucleotide binding]; other site 522772002222 salt bridge; other site 522772002223 sequence-specific DNA binding site [nucleotide binding]; other site 522772002224 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 522772002225 MarR family; Region: MarR_2; cl17246 522772002226 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 522772002227 NMT1/THI5 like; Region: NMT1; pfam09084 522772002228 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 522772002229 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772002230 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772002231 dimer interface [polypeptide binding]; other site 522772002232 phosphorylation site [posttranslational modification] 522772002233 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 522772002234 ATP binding site [chemical binding]; other site 522772002235 Mg2+ binding site [ion binding]; other site 522772002236 G-X-G motif; other site 522772002237 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772002238 dimerization interface [polypeptide binding]; other site 522772002239 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 522772002240 ATP binding site [chemical binding]; other site 522772002241 Mg2+ binding site [ion binding]; other site 522772002242 G-X-G motif; other site 522772002243 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 522772002244 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 522772002245 active site 522772002246 phosphorylation site [posttranslational modification] 522772002247 intermolecular recognition site; other site 522772002248 dimerization interface [polypeptide binding]; other site 522772002249 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 522772002250 DNA binding site [nucleotide binding] 522772002251 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772002252 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 522772002253 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522772002254 HlyD family secretion protein; Region: HlyD_3; pfam13437 522772002255 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 522772002256 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 522772002257 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 522772002258 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 522772002259 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 522772002260 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 522772002261 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 522772002262 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 522772002263 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 522772002264 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 522772002265 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 522772002266 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 522772002267 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 522772002268 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 522772002269 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 522772002270 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 522772002271 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 522772002272 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 522772002273 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 522772002274 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 522772002275 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 522772002276 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 522772002277 active site 522772002278 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 522772002279 substrate binding site [chemical binding]; other site 522772002280 catalytic residues [active] 522772002281 dimer interface [polypeptide binding]; other site 522772002282 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 522772002283 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772002284 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772002285 metal binding site [ion binding]; metal-binding site 522772002286 active site 522772002287 I-site; other site 522772002288 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772002289 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 522772002290 active site 522772002291 phosphorylation site [posttranslational modification] 522772002292 intermolecular recognition site; other site 522772002293 dimerization interface [polypeptide binding]; other site 522772002294 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772002295 Walker A motif; other site 522772002296 ATP binding site [chemical binding]; other site 522772002297 Walker B motif; other site 522772002298 arginine finger; other site 522772002299 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 522772002300 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 522772002301 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 522772002302 FeS/SAM binding site; other site 522772002303 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 522772002304 D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]; Region: DdlA; COG1181 522772002305 ATP-grasp domain; Region: ATP-grasp_4; cl17255 522772002306 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 522772002307 ATP-grasp domain; Region: ATP-grasp_4; cl17255 522772002308 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 522772002309 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 522772002310 Coenzyme A binding pocket [chemical binding]; other site 522772002311 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 522772002312 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 522772002313 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 522772002314 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 522772002315 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 522772002316 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 522772002317 Walker A/P-loop; other site 522772002318 ATP binding site [chemical binding]; other site 522772002319 Q-loop/lid; other site 522772002320 ABC transporter signature motif; other site 522772002321 Walker B; other site 522772002322 D-loop; other site 522772002323 H-loop/switch region; other site 522772002324 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 522772002325 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772002326 Walker A/P-loop; other site 522772002327 ATP binding site [chemical binding]; other site 522772002328 Q-loop/lid; other site 522772002329 ABC transporter signature motif; other site 522772002330 Walker B; other site 522772002331 D-loop; other site 522772002332 H-loop/switch region; other site 522772002333 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 522772002334 HlyD family secretion protein; Region: HlyD_3; pfam13437 522772002335 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522772002336 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 522772002337 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 522772002338 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 522772002339 PAS domain; Region: PAS_9; pfam13426 522772002340 putative active site [active] 522772002341 heme pocket [chemical binding]; other site 522772002342 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772002343 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772002344 metal binding site [ion binding]; metal-binding site 522772002345 active site 522772002346 I-site; other site 522772002347 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772002348 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 522772002349 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 522772002350 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522772002351 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 522772002352 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 522772002353 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 522772002354 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772002355 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772002356 metal binding site [ion binding]; metal-binding site 522772002357 active site 522772002358 I-site; other site 522772002359 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 522772002360 ABC-2 type transporter; Region: ABC2_membrane; cl17235 522772002361 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 522772002362 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772002363 Walker A/P-loop; other site 522772002364 ATP binding site [chemical binding]; other site 522772002365 Q-loop/lid; other site 522772002366 ABC transporter signature motif; other site 522772002367 Walker B; other site 522772002368 D-loop; other site 522772002369 H-loop/switch region; other site 522772002370 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 522772002371 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 522772002372 Walker A/P-loop; other site 522772002373 ATP binding site [chemical binding]; other site 522772002374 Q-loop/lid; other site 522772002375 ABC transporter signature motif; other site 522772002376 Walker B; other site 522772002377 D-loop; other site 522772002378 H-loop/switch region; other site 522772002379 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 522772002380 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 522772002381 ABC-ATPase subunit interface; other site 522772002382 dimer interface [polypeptide binding]; other site 522772002383 putative PBP binding regions; other site 522772002384 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 522772002385 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 522772002386 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 522772002387 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 522772002388 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 522772002389 FeS/SAM binding site; other site 522772002390 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 522772002391 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 522772002392 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 522772002393 N-terminal plug; other site 522772002394 ligand-binding site [chemical binding]; other site 522772002395 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 522772002396 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 522772002397 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 522772002398 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 522772002399 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 522772002400 PAS domain S-box; Region: sensory_box; TIGR00229 522772002401 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 522772002402 putative active site [active] 522772002403 heme pocket [chemical binding]; other site 522772002404 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772002405 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 522772002406 PII uridylyl-transferase; Provisional; Region: PRK05092 522772002407 metal binding triad; other site 522772002408 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 522772002409 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 522772002410 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 522772002411 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 522772002412 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 522772002413 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 522772002414 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 522772002415 FeS/SAM binding site; other site 522772002416 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 522772002417 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522772002418 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 522772002419 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 522772002420 active site residue [active] 522772002421 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 522772002422 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 522772002423 ATP binding site [chemical binding]; other site 522772002424 active site 522772002425 substrate binding site [chemical binding]; other site 522772002426 Predicted transcriptional regulators [Transcription]; Region: COG1733 522772002427 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 522772002428 putative DNA binding site [nucleotide binding]; other site 522772002429 dimerization interface [polypeptide binding]; other site 522772002430 putative Zn2+ binding site [ion binding]; other site 522772002431 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 522772002432 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 522772002433 NADP binding site [chemical binding]; other site 522772002434 dimer interface [polypeptide binding]; other site 522772002435 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 522772002436 HAMP domain; Region: HAMP; pfam00672 522772002437 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772002438 dimer interface [polypeptide binding]; other site 522772002439 putative CheW interface [polypeptide binding]; other site 522772002440 Hemerythrin; Region: Hemerythrin; cd12107 522772002441 Fe binding site [ion binding]; other site 522772002442 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772002443 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772002444 phosphorylation site [posttranslational modification] 522772002445 dimer interface [polypeptide binding]; other site 522772002446 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 522772002447 ATP binding site [chemical binding]; other site 522772002448 Mg2+ binding site [ion binding]; other site 522772002449 G-X-G motif; other site 522772002450 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 522772002451 Transglycosylase; Region: Transgly; pfam00912 522772002452 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 522772002453 excinuclease ABC subunit B; Provisional; Region: PRK05298 522772002454 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 522772002455 ATP binding site [chemical binding]; other site 522772002456 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 522772002457 nucleotide binding region [chemical binding]; other site 522772002458 ATP-binding site [chemical binding]; other site 522772002459 Ultra-violet resistance protein B; Region: UvrB; pfam12344 522772002460 UvrB/uvrC motif; Region: UVR; pfam02151 522772002461 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 522772002462 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 522772002463 G1 box; other site 522772002464 GTP/Mg2+ binding site [chemical binding]; other site 522772002465 G2 box; other site 522772002466 Switch I region; other site 522772002467 G3 box; other site 522772002468 Switch II region; other site 522772002469 G4 box; other site 522772002470 G5 box; other site 522772002471 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 522772002472 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 522772002473 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 522772002474 selenocysteine synthase; Provisional; Region: PRK04311 522772002475 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 522772002476 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522772002477 catalytic residue [active] 522772002478 Cache domain; Region: Cache_1; pfam02743 522772002479 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772002480 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772002481 dimer interface [polypeptide binding]; other site 522772002482 putative CheW interface [polypeptide binding]; other site 522772002483 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 522772002484 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 522772002485 metal binding site [ion binding]; metal-binding site 522772002486 dimer interface [polypeptide binding]; other site 522772002487 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 522772002488 DNA protecting protein DprA; Region: dprA; TIGR00732 522772002489 Protein of unknown function (DUF494); Region: DUF494; cl01103 522772002490 DNA topoisomerase I; Validated; Region: PRK06599 522772002491 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 522772002492 active site 522772002493 interdomain interaction site; other site 522772002494 putative metal-binding site [ion binding]; other site 522772002495 nucleotide binding site [chemical binding]; other site 522772002496 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 522772002497 domain I; other site 522772002498 DNA binding groove [nucleotide binding] 522772002499 phosphate binding site [ion binding]; other site 522772002500 domain II; other site 522772002501 domain III; other site 522772002502 nucleotide binding site [chemical binding]; other site 522772002503 catalytic site [active] 522772002504 domain IV; other site 522772002505 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 522772002506 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 522772002507 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 522772002508 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 522772002509 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 522772002510 Glucose inhibited division protein A; Region: GIDA; pfam01134 522772002511 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 522772002512 Uncharacterized conserved protein [Function unknown]; Region: COG1683 522772002513 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 522772002514 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 522772002515 active site 522772002516 Int/Topo IB signature motif; other site 522772002517 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 522772002518 active site clefts [active] 522772002519 zinc binding site [ion binding]; other site 522772002520 dimer interface [polypeptide binding]; other site 522772002521 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 522772002522 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 522772002523 active site 522772002524 substrate-binding site [chemical binding]; other site 522772002525 metal-binding site [ion binding] 522772002526 ATP binding site [chemical binding]; other site 522772002527 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 522772002528 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 522772002529 active site 522772002530 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 522772002531 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 522772002532 motif 1; other site 522772002533 active site 522772002534 motif 2; other site 522772002535 motif 3; other site 522772002536 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 522772002537 DHHA1 domain; Region: DHHA1; pfam02272 522772002538 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 522772002539 putative active site [active] 522772002540 putative CoA binding site [chemical binding]; other site 522772002541 nudix motif; other site 522772002542 metal binding site [ion binding]; metal-binding site 522772002543 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 522772002544 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 522772002545 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 522772002546 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 522772002547 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 522772002548 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 522772002549 AAA ATPase domain; Region: AAA_16; pfam13191 522772002550 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522772002551 Tetratricopeptide repeat; Region: TPR_10; pfam13374 522772002552 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522772002553 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522772002554 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 522772002555 binding surface 522772002556 TPR motif; other site 522772002557 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522772002558 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 522772002559 binding surface 522772002560 TPR motif; other site 522772002561 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522772002562 Superoxide reductase-like (SORL) domain, class II; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_classII; cd03172 522772002563 non-heme iron binding site [ion binding]; other site 522772002564 tetramer interface [polypeptide binding]; other site 522772002565 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 522772002566 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 522772002567 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 522772002568 substrate binding pocket [chemical binding]; other site 522772002569 dimer interface [polypeptide binding]; other site 522772002570 inhibitor binding site; inhibition site 522772002571 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 522772002572 B12 binding site [chemical binding]; other site 522772002573 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 522772002574 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 522772002575 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 522772002576 Coenzyme A binding pocket [chemical binding]; other site 522772002577 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 522772002578 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 522772002579 FeS/SAM binding site; other site 522772002580 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 522772002581 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 522772002582 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 522772002583 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 522772002584 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 522772002585 active site 522772002586 Zn binding site [ion binding]; other site 522772002587 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 522772002588 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 522772002589 ligand binding site [chemical binding]; other site 522772002590 flexible hinge region; other site 522772002591 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; cl17320 522772002592 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 522772002593 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 522772002594 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 522772002595 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 522772002596 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 522772002597 active site 522772002598 substrate binding site [chemical binding]; other site 522772002599 metal binding site [ion binding]; metal-binding site 522772002600 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 522772002601 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522772002602 Transcriptional regulators [Transcription]; Region: MarR; COG1846 522772002603 MarR family; Region: MarR_2; pfam12802 522772002604 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772002605 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772002606 metal binding site [ion binding]; metal-binding site 522772002607 active site 522772002608 I-site; other site 522772002609 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 522772002610 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 522772002611 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 522772002612 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 522772002613 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 522772002614 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 522772002615 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 522772002616 beta subunit interaction interface [polypeptide binding]; other site 522772002617 Walker A motif; other site 522772002618 ATP binding site [chemical binding]; other site 522772002619 Walker B motif; other site 522772002620 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 522772002621 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 522772002622 core domain interface [polypeptide binding]; other site 522772002623 delta subunit interface [polypeptide binding]; other site 522772002624 epsilon subunit interface [polypeptide binding]; other site 522772002625 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 522772002626 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 522772002627 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 522772002628 alpha subunit interaction interface [polypeptide binding]; other site 522772002629 Walker A motif; other site 522772002630 ATP binding site [chemical binding]; other site 522772002631 Walker B motif; other site 522772002632 inhibitor binding site; inhibition site 522772002633 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 522772002634 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 522772002635 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 522772002636 gamma subunit interface [polypeptide binding]; other site 522772002637 epsilon subunit interface [polypeptide binding]; other site 522772002638 LBP interface [polypeptide binding]; other site 522772002639 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 522772002640 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 522772002641 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522772002642 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 522772002643 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772002644 dimerization interface [polypeptide binding]; other site 522772002645 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772002646 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772002647 dimer interface [polypeptide binding]; other site 522772002648 putative CheW interface [polypeptide binding]; other site 522772002649 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 522772002650 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 522772002651 S-adenosylmethionine binding site [chemical binding]; other site 522772002652 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 522772002653 TRAM domain; Region: TRAM; pfam01938 522772002654 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 522772002655 S-adenosylmethionine binding site [chemical binding]; other site 522772002656 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 522772002657 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 522772002658 dimerization interface [polypeptide binding]; other site 522772002659 ligand binding site [chemical binding]; other site 522772002660 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 522772002661 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 522772002662 TM-ABC transporter signature motif; other site 522772002663 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 522772002664 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 522772002665 TM-ABC transporter signature motif; other site 522772002666 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 522772002667 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 522772002668 Walker A/P-loop; other site 522772002669 ATP binding site [chemical binding]; other site 522772002670 Q-loop/lid; other site 522772002671 ABC transporter signature motif; other site 522772002672 Walker B; other site 522772002673 D-loop; other site 522772002674 H-loop/switch region; other site 522772002675 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 522772002676 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 522772002677 Walker A/P-loop; other site 522772002678 ATP binding site [chemical binding]; other site 522772002679 Q-loop/lid; other site 522772002680 ABC transporter signature motif; other site 522772002681 Walker B; other site 522772002682 D-loop; other site 522772002683 H-loop/switch region; other site 522772002684 YibE/F-like protein; Region: YibE_F; pfam07907 522772002685 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 522772002686 Alkaline phosphatase homologues; Region: alkPPc; smart00098 522772002687 active site 522772002688 dimer interface [polypeptide binding]; other site 522772002689 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 522772002690 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 522772002691 heat shock protein 90; Provisional; Region: PRK05218 522772002692 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 522772002693 ATP binding site [chemical binding]; other site 522772002694 Mg2+ binding site [ion binding]; other site 522772002695 G-X-G motif; other site 522772002696 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 522772002697 Domain of unknown function (DUF814); Region: DUF814; pfam05670 522772002698 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772002699 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772002700 dimerization interface [polypeptide binding]; other site 522772002701 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 522772002702 ATP binding site [chemical binding]; other site 522772002703 Mg2+ binding site [ion binding]; other site 522772002704 G-X-G motif; other site 522772002705 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 522772002706 zinc binding site [ion binding]; other site 522772002707 putative ligand binding site [chemical binding]; other site 522772002708 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 522772002709 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522772002710 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 522772002711 ligand binding site [chemical binding]; other site 522772002712 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 522772002713 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 522772002714 motif II; other site 522772002715 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 522772002716 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772002717 Zn2+ binding site [ion binding]; other site 522772002718 Mg2+ binding site [ion binding]; other site 522772002719 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 522772002720 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772002721 Zn2+ binding site [ion binding]; other site 522772002722 Mg2+ binding site [ion binding]; other site 522772002723 Rubrerythrin [Energy production and conversion]; Region: COG1592 522772002724 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 522772002725 binuclear metal center [ion binding]; other site 522772002726 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 522772002727 iron binding site [ion binding]; other site 522772002728 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 522772002729 Predicted transcriptional regulator [Transcription]; Region: COG3655 522772002730 salt bridge; other site 522772002731 non-specific DNA binding site [nucleotide binding]; other site 522772002732 sequence-specific DNA binding site [nucleotide binding]; other site 522772002733 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 522772002734 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 522772002735 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 522772002736 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 522772002737 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 522772002738 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 522772002739 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 522772002740 N-terminal plug; other site 522772002741 ligand-binding site [chemical binding]; other site 522772002742 Methyltransferase domain; Region: Methyltransf_31; pfam13847 522772002743 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 522772002744 S-adenosylmethionine binding site [chemical binding]; other site 522772002745 Metal binding protein HemV-2. 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: HemV-2; cd01147 522772002746 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 522772002747 putative metal binding site [ion binding]; other site 522772002748 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 522772002749 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 522772002750 ABC-ATPase subunit interface; other site 522772002751 dimer interface [polypeptide binding]; other site 522772002752 putative PBP binding regions; other site 522772002753 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 522772002754 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 522772002755 Walker A/P-loop; other site 522772002756 ATP binding site [chemical binding]; other site 522772002757 Q-loop/lid; other site 522772002758 ABC transporter signature motif; other site 522772002759 Walker B; other site 522772002760 D-loop; other site 522772002761 H-loop/switch region; other site 522772002762 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 522772002763 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772002764 dimer interface [polypeptide binding]; other site 522772002765 phosphorylation site [posttranslational modification] 522772002766 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 522772002767 ATP binding site [chemical binding]; other site 522772002768 Mg2+ binding site [ion binding]; other site 522772002769 G-X-G motif; other site 522772002770 tetrathionate reductase subunit A; Provisional; Region: PRK14991 522772002771 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 522772002772 putative [Fe4-S4] binding site [ion binding]; other site 522772002773 putative molybdopterin cofactor binding site [chemical binding]; other site 522772002774 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 522772002775 putative molybdopterin cofactor binding site; other site 522772002776 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 522772002777 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772002778 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 522772002779 active site 522772002780 phosphorylation site [posttranslational modification] 522772002781 intermolecular recognition site; other site 522772002782 dimerization interface [polypeptide binding]; other site 522772002783 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772002784 Walker A motif; other site 522772002785 ATP binding site [chemical binding]; other site 522772002786 Walker B motif; other site 522772002787 arginine finger; other site 522772002788 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 522772002789 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 522772002790 dimerization interface [polypeptide binding]; other site 522772002791 putative DNA binding site [nucleotide binding]; other site 522772002792 putative Zn2+ binding site [ion binding]; other site 522772002793 Predicted permeases [General function prediction only]; Region: COG0701 522772002794 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 522772002795 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772002796 Walker A motif; other site 522772002797 ATP binding site [chemical binding]; other site 522772002798 Walker B motif; other site 522772002799 arginine finger; other site 522772002800 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 522772002801 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 522772002802 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 522772002803 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 522772002804 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 522772002805 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 522772002806 catalytic loop [active] 522772002807 iron binding site [ion binding]; other site 522772002808 Formate-dependent nitrite reductase, periplasmic cytochrome c552 subunit [Inorganic ion transport and metabolism]; Region: NrfA; COG3303 522772002809 Uncharacterized conserved protein [Function unknown]; Region: COG1433 522772002810 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 522772002811 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 522772002812 non-specific DNA binding site [nucleotide binding]; other site 522772002813 salt bridge; other site 522772002814 sequence-specific DNA binding site [nucleotide binding]; other site 522772002815 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 522772002816 Catalytic site [active] 522772002817 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 522772002818 heme-binding residues [chemical binding]; other site 522772002819 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 522772002820 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 522772002821 EspA-like secreted protein; Region: EspA; cl04069 522772002822 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 522772002823 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 522772002824 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 522772002825 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 522772002826 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 522772002827 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 522772002828 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 522772002829 Cytochrome c; Region: Cytochrom_C; cl11414 522772002830 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 522772002831 4Fe-4S binding domain; Region: Fer4_5; pfam12801 522772002832 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 522772002833 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 522772002834 Walker A/P-loop; other site 522772002835 ATP binding site [chemical binding]; other site 522772002836 Q-loop/lid; other site 522772002837 ABC transporter signature motif; other site 522772002838 Walker B; other site 522772002839 D-loop; other site 522772002840 H-loop/switch region; other site 522772002841 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 522772002842 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 522772002843 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 522772002844 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 522772002845 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 522772002846 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522772002847 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 522772002848 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 522772002849 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 522772002850 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 522772002851 Walker A/P-loop; other site 522772002852 ATP binding site [chemical binding]; other site 522772002853 Q-loop/lid; other site 522772002854 ABC transporter signature motif; other site 522772002855 Walker B; other site 522772002856 D-loop; other site 522772002857 H-loop/switch region; other site 522772002858 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 522772002859 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772002860 Walker A/P-loop; other site 522772002861 ATP binding site [chemical binding]; other site 522772002862 Q-loop/lid; other site 522772002863 ABC transporter signature motif; other site 522772002864 Walker B; other site 522772002865 D-loop; other site 522772002866 H-loop/switch region; other site 522772002867 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 522772002868 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 522772002869 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772002870 Walker A/P-loop; other site 522772002871 ATP binding site [chemical binding]; other site 522772002872 Q-loop/lid; other site 522772002873 ABC transporter signature motif; other site 522772002874 Walker B; other site 522772002875 D-loop; other site 522772002876 H-loop/switch region; other site 522772002877 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 522772002878 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 522772002879 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772002880 Walker A/P-loop; other site 522772002881 ATP binding site [chemical binding]; other site 522772002882 Q-loop/lid; other site 522772002883 ABC transporter signature motif; other site 522772002884 Walker B; other site 522772002885 D-loop; other site 522772002886 H-loop/switch region; other site 522772002887 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 522772002888 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 522772002889 N-terminal plug; other site 522772002890 ligand-binding site [chemical binding]; other site 522772002891 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 522772002892 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522772002893 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 522772002894 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 522772002895 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 522772002896 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 522772002897 Walker A/P-loop; other site 522772002898 ATP binding site [chemical binding]; other site 522772002899 Q-loop/lid; other site 522772002900 ABC transporter signature motif; other site 522772002901 Walker B; other site 522772002902 D-loop; other site 522772002903 H-loop/switch region; other site 522772002904 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 522772002905 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 522772002906 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 522772002907 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 522772002908 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 522772002909 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 522772002910 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 522772002911 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 522772002912 binding surface 522772002913 TPR motif; other site 522772002914 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 522772002915 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 522772002916 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 522772002917 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 522772002918 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 522772002919 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 522772002920 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 522772002921 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 522772002922 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 522772002923 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772002924 dimer interface [polypeptide binding]; other site 522772002925 conserved gate region; other site 522772002926 putative PBP binding loops; other site 522772002927 ABC-ATPase subunit interface; other site 522772002928 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 522772002929 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772002930 dimer interface [polypeptide binding]; other site 522772002931 conserved gate region; other site 522772002932 putative PBP binding loops; other site 522772002933 ABC-ATPase subunit interface; other site 522772002934 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 522772002935 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 522772002936 Walker A/P-loop; other site 522772002937 ATP binding site [chemical binding]; other site 522772002938 Q-loop/lid; other site 522772002939 ABC transporter signature motif; other site 522772002940 Walker B; other site 522772002941 D-loop; other site 522772002942 H-loop/switch region; other site 522772002943 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 522772002944 Walker A/P-loop; other site 522772002945 ATP binding site [chemical binding]; other site 522772002946 Q-loop/lid; other site 522772002947 ABC transporter signature motif; other site 522772002948 Walker B; other site 522772002949 D-loop; other site 522772002950 H-loop/switch region; other site 522772002951 DNA-J related protein; Region: DNAJ_related; pfam12339 522772002952 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 522772002953 HSP70 interaction site [polypeptide binding]; other site 522772002954 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 522772002955 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772002956 Walker A/P-loop; other site 522772002957 ATP binding site [chemical binding]; other site 522772002958 Q-loop/lid; other site 522772002959 ABC transporter signature motif; other site 522772002960 Walker B; other site 522772002961 D-loop; other site 522772002962 H-loop/switch region; other site 522772002963 ABC transporter; Region: ABC_tran_2; pfam12848 522772002964 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 522772002965 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 522772002966 glycogen binding site [chemical binding]; other site 522772002967 RNA polymerase sigma factor; Provisional; Region: PRK11924 522772002968 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522772002969 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 522772002970 DNA binding residues [nucleotide binding] 522772002971 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 522772002972 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 522772002973 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 522772002974 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 522772002975 Walker A/P-loop; other site 522772002976 ATP binding site [chemical binding]; other site 522772002977 Q-loop/lid; other site 522772002978 ABC transporter signature motif; other site 522772002979 Walker B; other site 522772002980 D-loop; other site 522772002981 H-loop/switch region; other site 522772002982 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 522772002983 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 522772002984 ABC-ATPase subunit interface; other site 522772002985 dimer interface [polypeptide binding]; other site 522772002986 putative PBP binding regions; other site 522772002987 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 522772002988 Metal binding protein HemV-2. 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: HemV-2; cd01147 522772002989 putative metal binding site [ion binding]; other site 522772002990 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 522772002991 S-adenosylmethionine binding site [chemical binding]; other site 522772002992 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 522772002993 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 522772002994 N-terminal plug; other site 522772002995 ligand-binding site [chemical binding]; other site 522772002996 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 522772002997 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 522772002998 ligand binding site [chemical binding]; other site 522772002999 flexible hinge region; other site 522772003000 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 522772003001 non-specific DNA interactions [nucleotide binding]; other site 522772003002 DNA binding site [nucleotide binding] 522772003003 sequence specific DNA binding site [nucleotide binding]; other site 522772003004 putative cAMP binding site [chemical binding]; other site 522772003005 Transposase IS200 like; Region: Y1_Tnp; pfam01797 522772003006 Transposase; Region: HTH_Tnp_1; pfam01527 522772003007 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 522772003008 HTH-like domain; Region: HTH_21; pfam13276 522772003009 Integrase core domain; Region: rve; pfam00665 522772003010 Integrase core domain; Region: rve_3; pfam13683 522772003011 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 522772003012 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 522772003013 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772003014 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772003015 dimer interface [polypeptide binding]; other site 522772003016 putative CheW interface [polypeptide binding]; other site 522772003017 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 522772003018 Response regulator receiver domain; Region: Response_reg; pfam00072 522772003019 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 522772003020 active site 522772003021 phosphorylation site [posttranslational modification] 522772003022 intermolecular recognition site; other site 522772003023 dimerization interface [polypeptide binding]; other site 522772003024 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 522772003025 dimerization interface [polypeptide binding]; other site 522772003026 putative DNA binding site [nucleotide binding]; other site 522772003027 putative Zn2+ binding site [ion binding]; other site 522772003028 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 522772003029 Predicted amidohydrolase [General function prediction only]; Region: COG0388 522772003030 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 522772003031 putative active site [active] 522772003032 catalytic triad [active] 522772003033 putative dimer interface [polypeptide binding]; other site 522772003034 DNA repair protein RadA; Provisional; Region: PRK11823 522772003035 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 522772003036 UbiA prenyltransferase family; Region: UbiA; pfam01040 522772003037 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 522772003038 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 522772003039 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 522772003040 Cytochrome c; Region: Cytochrom_C; cl11414 522772003041 Cytochrome c; Region: Cytochrom_C; pfam00034 522772003042 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 522772003043 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 of...; Region: NorE_like; cd02862 522772003044 Subunit I/III interface [polypeptide binding]; other site 522772003045 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 522772003046 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 522772003047 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 522772003048 Cu(I) binding site [ion binding]; other site 522772003049 Cytochrome c; Region: Cytochrom_C; cl11414 522772003050 Flagellin N-methylase; Region: FliB; pfam03692 522772003051 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 522772003052 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772003053 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772003054 dimerization interface [polypeptide binding]; other site 522772003055 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772003056 dimer interface [polypeptide binding]; other site 522772003057 phosphorylation site [posttranslational modification] 522772003058 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 522772003059 ATP binding site [chemical binding]; other site 522772003060 Mg2+ binding site [ion binding]; other site 522772003061 G-X-G motif; other site 522772003062 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 522772003063 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 522772003064 active site 522772003065 phosphorylation site [posttranslational modification] 522772003066 intermolecular recognition site; other site 522772003067 dimerization interface [polypeptide binding]; other site 522772003068 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 522772003069 DNA binding site [nucleotide binding] 522772003070 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 522772003071 heme-binding residues [chemical binding]; other site 522772003072 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 522772003073 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 522772003074 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 522772003075 dimerization interface [polypeptide binding]; other site 522772003076 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772003077 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772003078 dimer interface [polypeptide binding]; other site 522772003079 putative CheW interface [polypeptide binding]; other site 522772003080 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772003081 Zn2+ binding site [ion binding]; other site 522772003082 Mg2+ binding site [ion binding]; other site 522772003083 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772003084 Zn2+ binding site [ion binding]; other site 522772003085 Mg2+ binding site [ion binding]; other site 522772003086 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 522772003087 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 522772003088 HIGH motif; other site 522772003089 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 522772003090 active site 522772003091 KMSKS motif; other site 522772003092 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 522772003093 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522772003094 active site 522772003095 HIGH motif; other site 522772003096 nucleotide binding site [chemical binding]; other site 522772003097 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 522772003098 KMSKS motif; other site 522772003099 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 522772003100 Predicted membrane protein [Function unknown]; Region: COG4541 522772003101 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 522772003102 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 522772003103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522772003104 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 522772003105 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522772003106 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 522772003107 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 522772003108 FeS/SAM binding site; other site 522772003109 Radical SAM superfamily; Region: Radical_SAM; pfam04055 522772003110 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 522772003111 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 522772003112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 522772003113 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 522772003114 dimerization interface [polypeptide binding]; other site 522772003115 Lysine efflux permease [General function prediction only]; Region: COG1279 522772003116 photolyase PhrII; Region: phr2; TIGR00591 522772003117 DNA photolyase; Region: DNA_photolyase; pfam00875 522772003118 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 522772003119 MarR family; Region: MarR_2; pfam12802 522772003120 MarR family; Region: MarR_2; cl17246 522772003121 PAS domain; Region: PAS_9; pfam13426 522772003122 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 522772003123 dimer interface [polypeptide binding]; other site 522772003124 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 522772003125 active site 522772003126 metal binding site [ion binding]; metal-binding site 522772003127 glutathione binding site [chemical binding]; other site 522772003128 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 522772003129 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 522772003130 Cl binding site [ion binding]; other site 522772003131 oligomer interface [polypeptide binding]; other site 522772003132 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 522772003133 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 522772003134 catalytic residues [active] 522772003135 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 522772003136 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 522772003137 putative RNA binding site [nucleotide binding]; other site 522772003138 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 522772003139 S-adenosylmethionine binding site [chemical binding]; other site 522772003140 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 522772003141 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 522772003142 Predicted membrane protein [Function unknown]; Region: COG2855 522772003143 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 522772003144 active site 522772003145 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 522772003146 active site 522772003147 Nif-specific regulatory protein; Region: nifA; TIGR01817 522772003148 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 522772003149 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772003150 Walker A motif; other site 522772003151 ATP binding site [chemical binding]; other site 522772003152 Walker B motif; other site 522772003153 arginine finger; other site 522772003154 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 522772003155 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 522772003156 NifZ domain; Region: NifZ; pfam04319 522772003157 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 522772003158 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 522772003159 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 522772003160 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 522772003161 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 522772003162 Nucleotide-binding sites [chemical binding]; other site 522772003163 Walker A motif; other site 522772003164 Switch I region of nucleotide binding site; other site 522772003165 Fe4S4 binding sites [ion binding]; other site 522772003166 Switch II region of nucleotide binding site; other site 522772003167 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 522772003168 MoFe protein alpha/beta subunit interactions; other site 522772003169 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 522772003170 Alpha subunit P cluster binding residues; other site 522772003171 FeMoco binding residues [chemical binding]; other site 522772003172 MoFe protein alpha subunit/Fe protein contacts; other site 522772003173 MoFe protein dimer/ dimer interactions; other site 522772003174 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 522772003175 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 522772003176 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 522772003177 NifT/FixU protein; Region: NifT; cl02351 522772003178 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 522772003179 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 522772003180 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 522772003181 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 522772003182 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 522772003183 Protein of unknown function, DUF269; Region: DUF269; cl03973 522772003184 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 522772003185 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 522772003186 active site 522772003187 catalytic residues [active] 522772003188 metal binding site [ion binding]; metal-binding site 522772003189 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 522772003190 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 522772003191 FeS/SAM binding site; other site 522772003192 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 522772003193 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 522772003194 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 522772003195 domain interfaces; other site 522772003196 active site 522772003197 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 522772003198 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 522772003199 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 522772003200 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 522772003201 putative dimer interface [polypeptide binding]; other site 522772003202 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 522772003203 nucleotide binding site/active site [active] 522772003204 HIT family signature motif; other site 522772003205 catalytic residue [active] 522772003206 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 522772003207 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 522772003208 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 522772003209 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 522772003210 active site 522772003211 phosphorylation site [posttranslational modification] 522772003212 intermolecular recognition site; other site 522772003213 dimerization interface [polypeptide binding]; other site 522772003214 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 522772003215 DNA binding site [nucleotide binding] 522772003216 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772003217 dimer interface [polypeptide binding]; other site 522772003218 phosphorylation site [posttranslational modification] 522772003219 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 522772003220 ATP binding site [chemical binding]; other site 522772003221 Mg2+ binding site [ion binding]; other site 522772003222 G-X-G motif; other site 522772003223 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 522772003224 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522772003225 putative substrate translocation pore; other site 522772003226 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 522772003227 MarR family; Region: MarR_2; pfam12802 522772003228 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 522772003229 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 522772003230 NAD(P) binding site [chemical binding]; other site 522772003231 catalytic residues [active] 522772003232 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 522772003233 AAA domain; Region: AAA_14; pfam13173 522772003234 HipA N-terminal domain; Region: Couple_hipA; pfam13657 522772003235 AAA domain; Region: AAA_11; pfam13086 522772003236 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 522772003237 AAA domain; Region: AAA_12; pfam13087 522772003238 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 522772003239 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522772003240 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772003241 Walker A motif; other site 522772003242 ATP binding site [chemical binding]; other site 522772003243 Walker B motif; other site 522772003244 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772003245 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 522772003246 DNA binding residues [nucleotide binding] 522772003247 Integrase core domain; Region: rve; pfam00665 522772003248 HEAT repeats; Region: HEAT_2; pfam13646 522772003249 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772003250 Integrase core domain; Region: rve; pfam00665 522772003251 transposase/IS protein; Provisional; Region: PRK09183 522772003252 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772003253 Walker A motif; other site 522772003254 ATP binding site [chemical binding]; other site 522772003255 Walker B motif; other site 522772003256 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 522772003257 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772003258 Integrase core domain; Region: rve; pfam00665 522772003259 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522772003260 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772003261 Walker A motif; other site 522772003262 ATP binding site [chemical binding]; other site 522772003263 Walker B motif; other site 522772003264 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 522772003265 Transposase; Region: HTH_Tnp_1; cl17663 522772003266 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 522772003267 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 522772003268 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 522772003269 active site 522772003270 DNA binding site [nucleotide binding] 522772003271 Int/Topo IB signature motif; other site 522772003272 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 522772003273 CoA binding domain; Region: CoA_binding; cl17356 522772003274 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 522772003275 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 522772003276 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772003277 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 522772003278 ATP binding site [chemical binding]; other site 522772003279 Mg2+ binding site [ion binding]; other site 522772003280 G-X-G motif; other site 522772003281 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 522772003282 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 522772003283 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 522772003284 active site 522772003285 HIGH motif; other site 522772003286 KMSK motif region; other site 522772003287 tRNA binding surface [nucleotide binding]; other site 522772003288 DALR anticodon binding domain; Region: DALR_1; smart00836 522772003289 anticodon binding site; other site 522772003290 Sporulation related domain; Region: SPOR; pfam05036 522772003291 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 522772003292 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 522772003293 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 522772003294 conserved cys residue [active] 522772003295 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 522772003296 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 522772003297 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 522772003298 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 522772003299 Gram-negative bacterial tonB protein; Region: TonB; cl10048 522772003300 Uncharacterized conserved protein [Function unknown]; Region: COG1565 522772003301 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 522772003302 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 522772003303 AAA domain; Region: AAA_26; pfam13500 522772003304 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 522772003305 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 522772003306 inhibitor-cofactor binding pocket; inhibition site 522772003307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772003308 catalytic residue [active] 522772003309 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 522772003310 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522772003311 catalytic residue [active] 522772003312 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 522772003313 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 522772003314 S-adenosylmethionine binding site [chemical binding]; other site 522772003315 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 522772003316 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 522772003317 ATP binding site [chemical binding]; other site 522772003318 substrate interface [chemical binding]; other site 522772003319 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 522772003320 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 522772003321 Na binding site [ion binding]; other site 522772003322 Protein of unknown function, DUF485; Region: DUF485; pfam04341 522772003323 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 522772003324 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 522772003325 ligand binding site [chemical binding]; other site 522772003326 flexible hinge region; other site 522772003327 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 522772003328 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 522772003329 metal binding triad; other site 522772003330 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 522772003331 Domain of unknown function DUF77; Region: DUF77; pfam01910 522772003332 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 522772003333 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 522772003334 putative transposase OrfB; Reviewed; Region: PHA02517 522772003335 HTH-like domain; Region: HTH_21; pfam13276 522772003336 Integrase core domain; Region: rve; pfam00665 522772003337 Integrase core domain; Region: rve_3; pfam13683 522772003338 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 522772003339 Transposase; Region: HTH_Tnp_1; cl17663 522772003340 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 522772003341 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 522772003342 FeS/SAM binding site; other site 522772003343 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 522772003344 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 522772003345 ATP-grasp domain; Region: ATP-grasp_4; cl17255 522772003346 Putative ATP-dependant zinc protease; Region: Zn_protease; pfam05618 522772003347 Uncharacterized conserved protein [Function unknown]; Region: COG3791 522772003348 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 522772003349 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 522772003350 Domain of unknown function DUF20; Region: UPF0118; pfam01594 522772003351 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 522772003352 catalytic residue [active] 522772003353 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 522772003354 active site 1 [active] 522772003355 dimer interface [polypeptide binding]; other site 522772003356 hexamer interface [polypeptide binding]; other site 522772003357 active site 2 [active] 522772003358 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 522772003359 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522772003360 putative substrate translocation pore; other site 522772003361 Transcriptional regulator [Transcription]; Region: LysR; COG0583 522772003362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 522772003363 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 522772003364 dimerization interface [polypeptide binding]; other site 522772003365 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 522772003366 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 522772003367 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 522772003368 EamA-like transporter family; Region: EamA; pfam00892 522772003369 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 522772003370 NMT1-like family; Region: NMT1_2; pfam13379 522772003371 HAMP domain; Region: HAMP; pfam00672 522772003372 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 522772003373 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 522772003374 putative active site [active] 522772003375 heme pocket [chemical binding]; other site 522772003376 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772003377 dimer interface [polypeptide binding]; other site 522772003378 phosphorylation site [posttranslational modification] 522772003379 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 522772003380 ATP binding site [chemical binding]; other site 522772003381 Mg2+ binding site [ion binding]; other site 522772003382 G-X-G motif; other site 522772003383 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 522772003384 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 522772003385 hexamer interface [polypeptide binding]; other site 522772003386 ligand binding site [chemical binding]; other site 522772003387 putative active site [active] 522772003388 NAD(P) binding site [chemical binding]; other site 522772003389 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 522772003390 active site residue [active] 522772003391 Response regulator receiver domain; Region: Response_reg; pfam00072 522772003392 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 522772003393 active site 522772003394 phosphorylation site [posttranslational modification] 522772003395 intermolecular recognition site; other site 522772003396 dimerization interface [polypeptide binding]; other site 522772003397 PAS domain; Region: PAS_9; pfam13426 522772003398 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 522772003399 putative active site [active] 522772003400 heme pocket [chemical binding]; other site 522772003401 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772003402 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772003403 metal binding site [ion binding]; metal-binding site 522772003404 active site 522772003405 I-site; other site 522772003406 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 522772003407 dimer interface [polypeptide binding]; other site 522772003408 catalytic triad [active] 522772003409 peroxidatic and resolving cysteines [active] 522772003410 CHASE2 domain; Region: CHASE2; pfam05226 522772003411 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 522772003412 cyclase homology domain; Region: CHD; cd07302 522772003413 nucleotidyl binding site; other site 522772003414 metal binding site [ion binding]; metal-binding site 522772003415 dimer interface [polypeptide binding]; other site 522772003416 6-phosphofructokinase; Provisional; Region: PRK03202 522772003417 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 522772003418 active site 522772003419 ADP/pyrophosphate binding site [chemical binding]; other site 522772003420 dimerization interface [polypeptide binding]; other site 522772003421 allosteric effector site; other site 522772003422 fructose-1,6-bisphosphate binding site; other site 522772003423 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 522772003424 Yqey-like protein; Region: YqeY; pfam09424 522772003425 Colicin V production protein; Region: Colicin_V; pfam02674 522772003426 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 522772003427 MutS domain III; Region: MutS_III; pfam05192 522772003428 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772003429 Walker A/P-loop; other site 522772003430 ATP binding site [chemical binding]; other site 522772003431 Q-loop/lid; other site 522772003432 ABC transporter signature motif; other site 522772003433 Walker B; other site 522772003434 D-loop; other site 522772003435 H-loop/switch region; other site 522772003436 Smr domain; Region: Smr; pfam01713 522772003437 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 522772003438 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 522772003439 non-specific DNA binding site [nucleotide binding]; other site 522772003440 salt bridge; other site 522772003441 sequence-specific DNA binding site [nucleotide binding]; other site 522772003442 Cupin domain; Region: Cupin_2; pfam07883 522772003443 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 522772003444 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 522772003445 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 522772003446 active site 522772003447 dimerization interface [polypeptide binding]; other site 522772003448 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 522772003449 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522772003450 DNA binding residues [nucleotide binding] 522772003451 dimerization interface [polypeptide binding]; other site 522772003452 PAS domain S-box; Region: sensory_box; TIGR00229 522772003453 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772003454 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 522772003455 ATP binding site [chemical binding]; other site 522772003456 Mg2+ binding site [ion binding]; other site 522772003457 G-X-G motif; other site 522772003458 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522772003459 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 522772003460 Walker A/P-loop; other site 522772003461 ATP binding site [chemical binding]; other site 522772003462 Q-loop/lid; other site 522772003463 ABC transporter signature motif; other site 522772003464 Walker B; other site 522772003465 D-loop; other site 522772003466 H-loop/switch region; other site 522772003467 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 522772003468 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 522772003469 FtsX-like permease family; Region: FtsX; pfam02687 522772003470 NosL; Region: NosL; cl01769 522772003471 NosL; Region: NosL; cl01769 522772003472 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 522772003473 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 522772003474 PAS fold; Region: PAS_4; pfam08448 522772003475 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 522772003476 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 522772003477 putative active site [active] 522772003478 heme pocket [chemical binding]; other site 522772003479 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 522772003480 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 522772003481 putative active site [active] 522772003482 heme pocket [chemical binding]; other site 522772003483 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772003484 dimer interface [polypeptide binding]; other site 522772003485 phosphorylation site [posttranslational modification] 522772003486 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 522772003487 ATP binding site [chemical binding]; other site 522772003488 Mg2+ binding site [ion binding]; other site 522772003489 G-X-G motif; other site 522772003490 Response regulator receiver domain; Region: Response_reg; pfam00072 522772003491 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 522772003492 active site 522772003493 phosphorylation site [posttranslational modification] 522772003494 intermolecular recognition site; other site 522772003495 dimerization interface [polypeptide binding]; other site 522772003496 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 522772003497 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 522772003498 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 522772003499 active site 522772003500 phosphorylation site [posttranslational modification] 522772003501 intermolecular recognition site; other site 522772003502 dimerization interface [polypeptide binding]; other site 522772003503 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772003504 Zn2+ binding site [ion binding]; other site 522772003505 Mg2+ binding site [ion binding]; other site 522772003506 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772003507 Zn2+ binding site [ion binding]; other site 522772003508 Mg2+ binding site [ion binding]; other site 522772003509 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 522772003510 Radical SAM superfamily; Region: Radical_SAM; pfam04055 522772003511 FeS/SAM binding site; other site 522772003512 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 522772003513 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 522772003514 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 522772003515 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 522772003516 Glutamine amidotransferase class-I; Region: GATase; pfam00117 522772003517 glutamine binding [chemical binding]; other site 522772003518 catalytic triad [active] 522772003519 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 522772003520 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 522772003521 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 522772003522 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 522772003523 active site 522772003524 ribulose/triose binding site [chemical binding]; other site 522772003525 phosphate binding site [ion binding]; other site 522772003526 substrate (anthranilate) binding pocket [chemical binding]; other site 522772003527 product (indole) binding pocket [chemical binding]; other site 522772003528 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 522772003529 active site 522772003530 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 522772003531 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 522772003532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772003533 catalytic residue [active] 522772003534 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 522772003535 substrate binding site [chemical binding]; other site 522772003536 active site 522772003537 catalytic residues [active] 522772003538 heterodimer interface [polypeptide binding]; other site 522772003539 Transcriptional regulators [Transcription]; Region: MarR; COG1846 522772003540 MarR family; Region: MarR; pfam01047 522772003541 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 522772003542 metal binding site 2 [ion binding]; metal-binding site 522772003543 putative DNA binding helix; other site 522772003544 metal binding site 1 [ion binding]; metal-binding site 522772003545 dimer interface [polypeptide binding]; other site 522772003546 structural Zn2+ binding site [ion binding]; other site 522772003547 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 522772003548 DctM-like transporters; Region: DctM; pfam06808 522772003549 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 522772003550 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 522772003551 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 522772003552 Ligand Binding Site [chemical binding]; other site 522772003553 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 522772003554 active site 522772003555 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 522772003556 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 522772003557 S-adenosylmethionine binding site [chemical binding]; other site 522772003558 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 522772003559 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 522772003560 active site 522772003561 metal binding site [ion binding]; metal-binding site 522772003562 RNA methyltransferase, RsmE family; Region: TIGR00046 522772003563 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 522772003564 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 522772003565 nucleoside/Zn binding site; other site 522772003566 dimer interface [polypeptide binding]; other site 522772003567 catalytic motif [active] 522772003568 PilZ domain; Region: PilZ; pfam07238 522772003569 primosome assembly protein PriA; Validated; Region: PRK05580 522772003570 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 522772003571 ATP binding site [chemical binding]; other site 522772003572 putative Mg++ binding site [ion binding]; other site 522772003573 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 522772003574 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 522772003575 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 522772003576 acyl-activating enzyme (AAE) consensus motif; other site 522772003577 putative AMP binding site [chemical binding]; other site 522772003578 putative active site [active] 522772003579 putative CoA binding site [chemical binding]; other site 522772003580 Maf-like protein; Region: Maf; pfam02545 522772003581 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 522772003582 active site 522772003583 dimer interface [polypeptide binding]; other site 522772003584 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 522772003585 Protein of unknown function (DUF1312); Region: DUF1312; pfam07009 522772003586 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 522772003587 ApbE family; Region: ApbE; pfam02424 522772003588 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 522772003589 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 522772003590 FeS/SAM binding site; other site 522772003591 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 522772003592 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 522772003593 substrate binding pocket [chemical binding]; other site 522772003594 chain length determination region; other site 522772003595 substrate-Mg2+ binding site; other site 522772003596 catalytic residues [active] 522772003597 aspartate-rich region 1; other site 522772003598 active site lid residues [active] 522772003599 aspartate-rich region 2; other site 522772003600 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 522772003601 homotrimer interaction site [polypeptide binding]; other site 522772003602 putative active site [active] 522772003603 HflC protein; Region: hflC; TIGR01932 522772003604 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 522772003605 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 522772003606 HflK protein; Region: hflK; TIGR01933 522772003607 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 522772003608 elongation factor G; Reviewed; Region: PRK12740 522772003609 G1 box; other site 522772003610 putative GEF interaction site [polypeptide binding]; other site 522772003611 GTP/Mg2+ binding site [chemical binding]; other site 522772003612 Switch I region; other site 522772003613 G2 box; other site 522772003614 G3 box; other site 522772003615 Switch II region; other site 522772003616 G4 box; other site 522772003617 G5 box; other site 522772003618 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 522772003619 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 522772003620 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 522772003621 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 522772003622 IHF - DNA interface [nucleotide binding]; other site 522772003623 IHF dimer interface [polypeptide binding]; other site 522772003624 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 522772003625 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 522772003626 DNA binding residues [nucleotide binding] 522772003627 LPP20 lipoprotein; Region: LPP20; cl15824 522772003628 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 522772003629 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 522772003630 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 522772003631 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522772003632 catalytic residue [active] 522772003633 LPP20 lipoprotein; Region: LPP20; pfam02169 522772003634 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 522772003635 anti sigma factor interaction site; other site 522772003636 regulatory phosphorylation site [posttranslational modification]; other site 522772003637 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 522772003638 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772003639 Zn2+ binding site [ion binding]; other site 522772003640 Mg2+ binding site [ion binding]; other site 522772003641 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772003642 Zn2+ binding site [ion binding]; other site 522772003643 Mg2+ binding site [ion binding]; other site 522772003644 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772003645 Zn2+ binding site [ion binding]; other site 522772003646 Mg2+ binding site [ion binding]; other site 522772003647 EAL domain; Region: EAL; pfam00563 522772003648 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 522772003649 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 522772003650 Malic enzyme, N-terminal domain; Region: malic; pfam00390 522772003651 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 522772003652 NAD(P) binding pocket [chemical binding]; other site 522772003653 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 522772003654 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 522772003655 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 522772003656 DctM-like transporters; Region: DctM; pfam06808 522772003657 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 522772003658 putative substrate-binding site; other site 522772003659 nickel binding site [ion binding]; other site 522772003660 hydrogenase 2 large subunit; Provisional; Region: PRK10467 522772003661 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 522772003662 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 522772003663 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 522772003664 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 522772003665 4Fe-4S binding domain; Region: Fer4; cl02805 522772003666 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 522772003667 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 522772003668 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 522772003669 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 522772003670 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 522772003671 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 522772003672 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 522772003673 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 522772003674 ATP binding site [chemical binding]; other site 522772003675 putative Mg++ binding site [ion binding]; other site 522772003676 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 522772003677 nucleotide binding region [chemical binding]; other site 522772003678 ATP-binding site [chemical binding]; other site 522772003679 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 522772003680 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 522772003681 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 522772003682 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 522772003683 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 522772003684 PhoU domain; Region: PhoU; pfam01895 522772003685 PhoU domain; Region: PhoU; pfam01895 522772003686 HAMP domain; Region: HAMP; pfam00672 522772003687 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 522772003688 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772003689 dimer interface [polypeptide binding]; other site 522772003690 phosphorylation site [posttranslational modification] 522772003691 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 522772003692 ATP binding site [chemical binding]; other site 522772003693 Mg2+ binding site [ion binding]; other site 522772003694 G-X-G motif; other site 522772003695 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 522772003696 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 522772003697 active site 522772003698 phosphorylation site [posttranslational modification] 522772003699 intermolecular recognition site; other site 522772003700 dimerization interface [polypeptide binding]; other site 522772003701 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 522772003702 DNA binding site [nucleotide binding] 522772003703 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 522772003704 PhoU domain; Region: PhoU; pfam01895 522772003705 PhoU domain; Region: PhoU; pfam01895 522772003706 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 522772003707 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 522772003708 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 522772003709 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 522772003710 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522772003711 catalytic residue [active] 522772003712 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 522772003713 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 522772003714 Lipopolysaccharide-assembly; Region: LptE; pfam04390 522772003715 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 522772003716 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 522772003717 HIGH motif; other site 522772003718 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 522772003719 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522772003720 active site 522772003721 KMSKS motif; other site 522772003722 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 522772003723 tRNA binding surface [nucleotide binding]; other site 522772003724 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 522772003725 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772003726 Response regulator receiver domain; Region: Response_reg; pfam00072 522772003727 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 522772003728 active site 522772003729 phosphorylation site [posttranslational modification] 522772003730 intermolecular recognition site; other site 522772003731 dimerization interface [polypeptide binding]; other site 522772003732 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 522772003733 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 522772003734 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 522772003735 nucleotide binding site [chemical binding]; other site 522772003736 Type III pantothenate kinase; Region: Pan_kinase; cl17198 522772003737 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 522772003738 Helix-turn-helix domain; Region: HTH_25; pfam13413 522772003739 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 522772003740 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 522772003741 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 522772003742 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 522772003743 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522772003744 catalytic residue [active] 522772003745 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 522772003746 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 522772003747 trimerization site [polypeptide binding]; other site 522772003748 active site 522772003749 NifU-like domain; Region: NifU; pfam01106 522772003750 FOG: CBS domain [General function prediction only]; Region: COG0517 522772003751 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 522772003752 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 522772003753 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 522772003754 acyl-activating enzyme (AAE) consensus motif; other site 522772003755 AMP binding site [chemical binding]; other site 522772003756 active site 522772003757 CoA binding site [chemical binding]; other site 522772003758 FOG: CBS domain [General function prediction only]; Region: COG0517 522772003759 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 522772003760 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 522772003761 metal binding triad; other site 522772003762 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 522772003763 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 522772003764 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 522772003765 Na binding site [ion binding]; other site 522772003766 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 522772003767 aromatic acid decarboxylase; Validated; Region: PRK05920 522772003768 Flavoprotein; Region: Flavoprotein; pfam02441 522772003769 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 522772003770 UbiA prenyltransferase family; Region: UbiA; pfam01040 522772003771 Ferrochelatase; Region: Ferrochelatase; pfam00762 522772003772 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 522772003773 active site 522772003774 C-terminal domain interface [polypeptide binding]; other site 522772003775 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 522772003776 active site 522772003777 N-terminal domain interface [polypeptide binding]; other site 522772003778 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 522772003779 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 522772003780 substrate binding site [chemical binding]; other site 522772003781 active site 522772003782 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 522772003783 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 522772003784 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 522772003785 ligand binding site [chemical binding]; other site 522772003786 NAD binding site [chemical binding]; other site 522772003787 dimerization interface [polypeptide binding]; other site 522772003788 catalytic site [active] 522772003789 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 522772003790 putative L-serine binding site [chemical binding]; other site 522772003791 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 522772003792 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772003793 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772003794 metal binding site [ion binding]; metal-binding site 522772003795 active site 522772003796 I-site; other site 522772003797 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 522772003798 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 522772003799 dimer interface [polypeptide binding]; other site 522772003800 putative anticodon binding site; other site 522772003801 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 522772003802 motif 1; other site 522772003803 active site 522772003804 motif 2; other site 522772003805 motif 3; other site 522772003806 rod shape-determining protein MreB; Provisional; Region: PRK13927 522772003807 MreB and similar proteins; Region: MreB_like; cd10225 522772003808 nucleotide binding site [chemical binding]; other site 522772003809 Mg binding site [ion binding]; other site 522772003810 putative protofilament interaction site [polypeptide binding]; other site 522772003811 RodZ interaction site [polypeptide binding]; other site 522772003812 rod shape-determining protein MreC; Provisional; Region: PRK13922 522772003813 rod shape-determining protein MreC; Region: MreC; pfam04085 522772003814 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 522772003815 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 522772003816 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 522772003817 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 522772003818 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 522772003819 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 522772003820 B12 binding site [chemical binding]; other site 522772003821 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 522772003822 FeS/SAM binding site; other site 522772003823 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 522772003824 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 522772003825 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 522772003826 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 522772003827 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 522772003828 catalytic residues [active] 522772003829 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 522772003830 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 522772003831 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 522772003832 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 522772003833 G1 box; other site 522772003834 GTP/Mg2+ binding site [chemical binding]; other site 522772003835 Switch I region; other site 522772003836 G2 box; other site 522772003837 G3 box; other site 522772003838 Switch II region; other site 522772003839 G4 box; other site 522772003840 G5 box; other site 522772003841 Nucleoside recognition; Region: Gate; pfam07670 522772003842 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 522772003843 Nucleoside recognition; Region: Gate; pfam07670 522772003844 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522772003845 DNA binding residues [nucleotide binding] 522772003846 dimerization interface [polypeptide binding]; other site 522772003847 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 522772003848 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 522772003849 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 522772003850 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 522772003851 FeS/SAM binding site; other site 522772003852 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 522772003853 Predicted amidohydrolase [General function prediction only]; Region: COG0388 522772003854 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 522772003855 active site 522772003856 catalytic triad [active] 522772003857 dimer interface [polypeptide binding]; other site 522772003858 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 522772003859 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 522772003860 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 522772003861 Protein of unknown function, DUF486; Region: DUF486; cl01236 522772003862 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 522772003863 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 522772003864 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 522772003865 TrkA-N domain; Region: TrkA_N; pfam02254 522772003866 TrkA-C domain; Region: TrkA_C; pfam02080 522772003867 flavodoxin FldA; Validated; Region: PRK09267 522772003868 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 522772003869 TM2 domain; Region: TM2; cl00984 522772003870 hybrid cluster protein; Provisional; Region: PRK05290 522772003871 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 522772003872 ACS interaction site; other site 522772003873 CODH interaction site; other site 522772003874 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 522772003875 hybrid metal cluster; other site 522772003876 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772003877 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772003878 dimer interface [polypeptide binding]; other site 522772003879 putative CheW interface [polypeptide binding]; other site 522772003880 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 522772003881 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 522772003882 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 522772003883 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 522772003884 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 522772003885 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 522772003886 ATP binding site [chemical binding]; other site 522772003887 DEAD_2; Region: DEAD_2; pfam06733 522772003888 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 522772003889 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 522772003890 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 522772003891 active site 522772003892 dimer interface [polypeptide binding]; other site 522772003893 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 522772003894 dimer interface [polypeptide binding]; other site 522772003895 active site 522772003896 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 522772003897 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 522772003898 Ligand Binding Site [chemical binding]; other site 522772003899 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522772003900 active site 522772003901 FtsH Extracellular; Region: FtsH_ext; pfam06480 522772003902 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 522772003903 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772003904 Walker A motif; other site 522772003905 ATP binding site [chemical binding]; other site 522772003906 Walker B motif; other site 522772003907 arginine finger; other site 522772003908 Peptidase family M41; Region: Peptidase_M41; pfam01434 522772003909 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 522772003910 dihydropteroate synthase; Region: DHPS; TIGR01496 522772003911 substrate binding pocket [chemical binding]; other site 522772003912 dimer interface [polypeptide binding]; other site 522772003913 inhibitor binding site; inhibition site 522772003914 TIGR00159 family protein; Region: TIGR00159 522772003915 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 522772003916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 522772003917 YbbR-like protein; Region: YbbR; pfam07949 522772003918 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 522772003919 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 522772003920 active site 522772003921 substrate binding site [chemical binding]; other site 522772003922 metal binding site [ion binding]; metal-binding site 522772003923 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 522772003924 active site 522772003925 hydrophilic channel; other site 522772003926 dimerization interface [polypeptide binding]; other site 522772003927 catalytic residues [active] 522772003928 active site lid [active] 522772003929 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 522772003930 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 522772003931 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 522772003932 Ligand binding site; other site 522772003933 oligomer interface; other site 522772003934 CTP synthetase; Validated; Region: pyrG; PRK05380 522772003935 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 522772003936 Catalytic site [active] 522772003937 active site 522772003938 UTP binding site [chemical binding]; other site 522772003939 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 522772003940 active site 522772003941 putative oxyanion hole; other site 522772003942 catalytic triad [active] 522772003943 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 522772003944 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 522772003945 active site 522772003946 motif I; other site 522772003947 motif II; other site 522772003948 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 522772003949 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 522772003950 OstA-like protein; Region: OstA; pfam03968 522772003951 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 522772003952 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 522772003953 Walker A/P-loop; other site 522772003954 ATP binding site [chemical binding]; other site 522772003955 Q-loop/lid; other site 522772003956 ABC transporter signature motif; other site 522772003957 Walker B; other site 522772003958 D-loop; other site 522772003959 H-loop/switch region; other site 522772003960 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 522772003961 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 522772003962 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 522772003963 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 522772003964 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 522772003965 30S subunit binding site; other site 522772003966 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 522772003967 active site 522772003968 phosphorylation site [posttranslational modification] 522772003969 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 522772003970 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 522772003971 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 522772003972 Hpr binding site; other site 522772003973 active site 522772003974 homohexamer subunit interaction site [polypeptide binding]; other site 522772003975 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 522772003976 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 522772003977 active pocket/dimerization site; other site 522772003978 active site 522772003979 phosphorylation site [posttranslational modification] 522772003980 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 522772003981 active site 522772003982 phosphorylation site [posttranslational modification] 522772003983 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 522772003984 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 522772003985 dimerization domain swap beta strand [polypeptide binding]; other site 522772003986 regulatory protein interface [polypeptide binding]; other site 522772003987 active site 522772003988 regulatory phosphorylation site [posttranslational modification]; other site 522772003989 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 522772003990 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 522772003991 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 522772003992 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 522772003993 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 522772003994 Uncharacterized conserved protein [Function unknown]; Region: COG2006 522772003995 Domain of unknown function (DUF362); Region: DUF362; pfam04015 522772003996 4Fe-4S binding domain; Region: Fer4; pfam00037 522772003997 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 522772003998 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 522772003999 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 522772004000 catalytic motif [active] 522772004001 Zn binding site [ion binding]; other site 522772004002 RibD C-terminal domain; Region: RibD_C; cl17279 522772004003 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 522772004004 Lumazine binding domain; Region: Lum_binding; pfam00677 522772004005 Lumazine binding domain; Region: Lum_binding; pfam00677 522772004006 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 522772004007 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 522772004008 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 522772004009 dimerization interface [polypeptide binding]; other site 522772004010 active site 522772004011 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 522772004012 homopentamer interface [polypeptide binding]; other site 522772004013 active site 522772004014 transcription antitermination factor NusB; Region: nusB; TIGR01951 522772004015 putative RNA binding site [nucleotide binding]; other site 522772004016 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 522772004017 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 522772004018 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 522772004019 generic binding surface I; other site 522772004020 generic binding surface II; other site 522772004021 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772004022 Zn2+ binding site [ion binding]; other site 522772004023 Mg2+ binding site [ion binding]; other site 522772004024 Uncharacterized conserved protein [Function unknown]; Region: COG2928 522772004025 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 522772004026 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 522772004027 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 522772004028 shikimate binding site; other site 522772004029 NAD(P) binding site [chemical binding]; other site 522772004030 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 522772004031 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 522772004032 Walker A motif; other site 522772004033 ATP binding site [chemical binding]; other site 522772004034 Walker B motif; other site 522772004035 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 522772004036 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 522772004037 MarR family; Region: MarR_2; cl17246 522772004038 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 522772004039 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 522772004040 active site 522772004041 hypothetical protein; Provisional; Region: PRK06361 522772004042 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 522772004043 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 522772004044 dimer interface [polypeptide binding]; other site 522772004045 PYR/PP interface [polypeptide binding]; other site 522772004046 TPP binding site [chemical binding]; other site 522772004047 substrate binding site [chemical binding]; other site 522772004048 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 522772004049 TPP-binding site; other site 522772004050 4Fe-4S binding domain; Region: Fer4; pfam00037 522772004051 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 522772004052 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 522772004053 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 522772004054 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 522772004055 active site 522772004056 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 522772004057 ribosome maturation protein RimP; Reviewed; Region: PRK00092 522772004058 Sm and related proteins; Region: Sm_like; cl00259 522772004059 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 522772004060 putative oligomer interface [polypeptide binding]; other site 522772004061 putative RNA binding site [nucleotide binding]; other site 522772004062 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 522772004063 NusA N-terminal domain; Region: NusA_N; pfam08529 522772004064 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 522772004065 RNA binding site [nucleotide binding]; other site 522772004066 homodimer interface [polypeptide binding]; other site 522772004067 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 522772004068 G-X-X-G motif; other site 522772004069 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 522772004070 G-X-X-G motif; other site 522772004071 Protein of unknown function (DUF448); Region: DUF448; pfam04296 522772004072 putative RNA binding cleft [nucleotide binding]; other site 522772004073 translation initiation factor IF-2; Region: IF-2; TIGR00487 522772004074 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 522772004075 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 522772004076 G1 box; other site 522772004077 putative GEF interaction site [polypeptide binding]; other site 522772004078 GTP/Mg2+ binding site [chemical binding]; other site 522772004079 Switch I region; other site 522772004080 G2 box; other site 522772004081 G3 box; other site 522772004082 Switch II region; other site 522772004083 G4 box; other site 522772004084 G5 box; other site 522772004085 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 522772004086 Translation-initiation factor 2; Region: IF-2; pfam11987 522772004087 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 522772004088 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 522772004089 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 522772004090 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 522772004091 RNA binding site [nucleotide binding]; other site 522772004092 active site 522772004093 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 522772004094 16S/18S rRNA binding site [nucleotide binding]; other site 522772004095 S13e-L30e interaction site [polypeptide binding]; other site 522772004096 25S rRNA binding site [nucleotide binding]; other site 522772004097 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 522772004098 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 522772004099 RNase E interface [polypeptide binding]; other site 522772004100 trimer interface [polypeptide binding]; other site 522772004101 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 522772004102 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 522772004103 RNase E interface [polypeptide binding]; other site 522772004104 trimer interface [polypeptide binding]; other site 522772004105 active site 522772004106 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 522772004107 putative nucleic acid binding region [nucleotide binding]; other site 522772004108 G-X-X-G motif; other site 522772004109 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 522772004110 RNA binding site [nucleotide binding]; other site 522772004111 domain interface; other site 522772004112 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 522772004113 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 522772004114 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 522772004115 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 522772004116 trimer interface [polypeptide binding]; other site 522772004117 active site 522772004118 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 522772004119 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 522772004120 RNase III inhibitor; Provisional; Region: PRK00431 522772004121 ADP-ribose binding site [chemical binding]; other site 522772004122 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 522772004123 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522772004124 putative substrate translocation pore; other site 522772004125 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 522772004126 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 522772004127 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 522772004128 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 522772004129 catalytic residue [active] 522772004130 YGGT family; Region: YGGT; pfam02325 522772004131 Ion channel; Region: Ion_trans_2; pfam07885 522772004132 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 522772004133 TrkA-N domain; Region: TrkA_N; pfam02254 522772004134 TrkA-C domain; Region: TrkA_C; pfam02080 522772004135 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 522772004136 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 522772004137 putative active site [active] 522772004138 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 522772004139 substrate binding site; other site 522772004140 dimer interface; other site 522772004141 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 522772004142 Peptidase family M50; Region: Peptidase_M50; pfam02163 522772004143 active site 522772004144 putative substrate binding region [chemical binding]; other site 522772004145 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 522772004146 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 522772004147 active site 522772004148 HIGH motif; other site 522772004149 dimer interface [polypeptide binding]; other site 522772004150 KMSKS motif; other site 522772004151 ScpA/B protein; Region: ScpA_ScpB; cl00598 522772004152 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 522772004153 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 522772004154 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 522772004155 RNA binding surface [nucleotide binding]; other site 522772004156 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 522772004157 active site 522772004158 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 522772004159 active site 522772004160 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 522772004161 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772004162 dimerization interface [polypeptide binding]; other site 522772004163 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772004164 dimer interface [polypeptide binding]; other site 522772004165 phosphorylation site [posttranslational modification] 522772004166 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 522772004167 ATP binding site [chemical binding]; other site 522772004168 Mg2+ binding site [ion binding]; other site 522772004169 G-X-G motif; other site 522772004170 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772004171 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 522772004172 active site 522772004173 phosphorylation site [posttranslational modification] 522772004174 intermolecular recognition site; other site 522772004175 dimerization interface [polypeptide binding]; other site 522772004176 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772004177 Walker A motif; other site 522772004178 ATP binding site [chemical binding]; other site 522772004179 Walker B motif; other site 522772004180 arginine finger; other site 522772004181 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 522772004182 Transposase; Region: HTH_Tnp_1; pfam01527 522772004183 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 522772004184 HTH-like domain; Region: HTH_21; pfam13276 522772004185 Integrase core domain; Region: rve; pfam00665 522772004186 Integrase core domain; Region: rve_3; pfam13683 522772004187 Cupin domain; Region: Cupin_2; cl17218 522772004188 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 522772004189 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 522772004190 LexA repressor; Validated; Region: PRK00215 522772004191 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 522772004192 Catalytic site [active] 522772004193 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 522772004194 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 522772004195 active site 522772004196 DNA binding site [nucleotide binding] 522772004197 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 522772004198 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 522772004199 tetramer interface [polypeptide binding]; other site 522772004200 active site 522772004201 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 522772004202 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 522772004203 active site 522772004204 putative substrate binding pocket [chemical binding]; other site 522772004205 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 522772004206 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 522772004207 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 522772004208 active site 522772004209 metal binding site [ion binding]; metal-binding site 522772004210 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 522772004211 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 522772004212 active site 522772004213 catalytic site [active] 522772004214 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 522772004215 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 522772004216 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 522772004217 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 522772004218 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 522772004219 switch II; other site 522772004220 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 522772004221 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 522772004222 switch II; other site 522772004223 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 522772004224 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 522772004225 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 522772004226 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 522772004227 active site 522772004228 phosphorylation site [posttranslational modification] 522772004229 intermolecular recognition site; other site 522772004230 dimerization interface [polypeptide binding]; other site 522772004231 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 522772004232 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 522772004233 ATP binding site [chemical binding]; other site 522772004234 Mg2+ binding site [ion binding]; other site 522772004235 G-X-G motif; other site 522772004236 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522772004237 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 522772004238 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 522772004239 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 522772004240 folate binding site [chemical binding]; other site 522772004241 NADP+ binding site [chemical binding]; other site 522772004242 thymidylate synthase; Reviewed; Region: thyA; PRK01827 522772004243 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 522772004244 dimerization interface [polypeptide binding]; other site 522772004245 active site 522772004246 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 522772004247 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 522772004248 Probable Catalytic site; other site 522772004249 Uncharacterized conserved protein [Function unknown]; Region: COG0398 522772004250 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 522772004251 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 522772004252 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 522772004253 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522772004254 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 522772004255 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 522772004256 Phospholipid methyltransferase; Region: PEMT; cl17370 522772004257 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 522772004258 GAF domain; Region: GAF; pfam01590 522772004259 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 522772004260 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 522772004261 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 522772004262 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 522772004263 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 522772004264 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 522772004265 mce related protein; Region: MCE; pfam02470 522772004266 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 522772004267 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 522772004268 Walker A/P-loop; other site 522772004269 ATP binding site [chemical binding]; other site 522772004270 Q-loop/lid; other site 522772004271 ABC transporter signature motif; other site 522772004272 Walker B; other site 522772004273 D-loop; other site 522772004274 H-loop/switch region; other site 522772004275 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 522772004276 Permease; Region: Permease; pfam02405 522772004277 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 522772004278 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 522772004279 active site 522772004280 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 522772004281 dimer interface [polypeptide binding]; other site 522772004282 substrate binding site [chemical binding]; other site 522772004283 catalytic residues [active] 522772004284 peptide chain release factor 2; Validated; Region: prfB; PRK00578 522772004285 This domain is found in peptide chain release factors; Region: PCRF; smart00937 522772004286 RF-1 domain; Region: RF-1; pfam00472 522772004287 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 522772004288 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 522772004289 Coenzyme A binding pocket [chemical binding]; other site 522772004290 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 522772004291 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522772004292 active site 522772004293 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 522772004294 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 522772004295 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 522772004296 dihydroorotase; Validated; Region: pyrC; PRK09357 522772004297 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 522772004298 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 522772004299 active site 522772004300 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 522772004301 Metal binding protein HemV-2. 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: HemV-2; cd01147 522772004302 putative metal binding site [ion binding]; other site 522772004303 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 522772004304 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 522772004305 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 522772004306 active site 522772004307 catalytic residues [active] 522772004308 metal binding site [ion binding]; metal-binding site 522772004309 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 522772004310 aspartate kinase; Reviewed; Region: PRK06635 522772004311 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 522772004312 putative catalytic residues [active] 522772004313 putative nucleotide binding site [chemical binding]; other site 522772004314 putative aspartate binding site [chemical binding]; other site 522772004315 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 522772004316 putative allosteric regulatory site; other site 522772004317 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 522772004318 putative allosteric regulatory residue; other site 522772004319 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 522772004320 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 522772004321 homoserine dehydrogenase; Provisional; Region: PRK06349 522772004322 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 522772004323 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 522772004324 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 522772004325 Cache domain; Region: Cache_1; pfam02743 522772004326 Cache domain; Region: Cache_2; cl07034 522772004327 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772004328 dimer interface [polypeptide binding]; other site 522772004329 phosphorylation site [posttranslational modification] 522772004330 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 522772004331 ATP binding site [chemical binding]; other site 522772004332 Mg2+ binding site [ion binding]; other site 522772004333 G-X-G motif; other site 522772004334 Response regulator receiver domain; Region: Response_reg; pfam00072 522772004335 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 522772004336 active site 522772004337 phosphorylation site [posttranslational modification] 522772004338 intermolecular recognition site; other site 522772004339 dimerization interface [polypeptide binding]; other site 522772004340 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 522772004341 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 522772004342 heterodimer interface [polypeptide binding]; other site 522772004343 active site 522772004344 FMN binding site [chemical binding]; other site 522772004345 homodimer interface [polypeptide binding]; other site 522772004346 substrate binding site [chemical binding]; other site 522772004347 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 522772004348 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 522772004349 FAD binding pocket [chemical binding]; other site 522772004350 FAD binding motif [chemical binding]; other site 522772004351 phosphate binding motif [ion binding]; other site 522772004352 beta-alpha-beta structure motif; other site 522772004353 NAD binding pocket [chemical binding]; other site 522772004354 Iron coordination center [ion binding]; other site 522772004355 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 522772004356 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 522772004357 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 522772004358 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 522772004359 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 522772004360 ATP-grasp domain; Region: ATP-grasp_4; cl17255 522772004361 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 522772004362 IMP binding site; other site 522772004363 dimer interface [polypeptide binding]; other site 522772004364 partial ornithine binding site; other site 522772004365 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 522772004366 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522772004367 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 522772004368 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522772004369 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 522772004370 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 522772004371 dimer interface [polypeptide binding]; other site 522772004372 active site 522772004373 metal binding site [ion binding]; metal-binding site 522772004374 Y-family of DNA polymerases; Region: PolY; cl12025 522772004375 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 522772004376 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 522772004377 ssDNA binding site; other site 522772004378 generic binding surface II; other site 522772004379 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 522772004380 ATP binding site [chemical binding]; other site 522772004381 putative Mg++ binding site [ion binding]; other site 522772004382 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 522772004383 nucleotide binding region [chemical binding]; other site 522772004384 ATP-binding site [chemical binding]; other site 522772004385 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 522772004386 putative CheA interaction surface; other site 522772004387 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 522772004388 tetramerization interface [polypeptide binding]; other site 522772004389 active site 522772004390 pantoate--beta-alanine ligase; Region: panC; TIGR00018 522772004391 Pantoate-beta-alanine ligase; Region: PanC; cd00560 522772004392 active site 522772004393 ATP-binding site [chemical binding]; other site 522772004394 pantoate-binding site; other site 522772004395 HXXH motif; other site 522772004396 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 522772004397 oligomerization interface [polypeptide binding]; other site 522772004398 active site 522772004399 metal binding site [ion binding]; metal-binding site 522772004400 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 522772004401 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 522772004402 non-specific DNA binding site [nucleotide binding]; other site 522772004403 salt bridge; other site 522772004404 sequence-specific DNA binding site [nucleotide binding]; other site 522772004405 Cupin domain; Region: Cupin_2; pfam07883 522772004406 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 522772004407 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 522772004408 trimer interface [polypeptide binding]; other site 522772004409 putative metal binding site [ion binding]; other site 522772004410 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 522772004411 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 522772004412 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 522772004413 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 522772004414 dimer interface [polypeptide binding]; other site 522772004415 anticodon binding site; other site 522772004416 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 522772004417 homodimer interface [polypeptide binding]; other site 522772004418 motif 1; other site 522772004419 active site 522772004420 motif 2; other site 522772004421 GAD domain; Region: GAD; pfam02938 522772004422 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 522772004423 motif 3; other site 522772004424 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 522772004425 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 522772004426 dimer interface [polypeptide binding]; other site 522772004427 motif 1; other site 522772004428 active site 522772004429 motif 2; other site 522772004430 motif 3; other site 522772004431 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 522772004432 anticodon binding site; other site 522772004433 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 522772004434 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 522772004435 catalytic center binding site [active] 522772004436 ATP binding site [chemical binding]; other site 522772004437 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 522772004438 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 522772004439 putative acyl-acceptor binding pocket; other site 522772004440 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 522772004441 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 522772004442 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522772004443 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 522772004444 Adenosylhomocysteinase; Provisional; Region: PTZ00075 522772004445 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 522772004446 homotetramer interface [polypeptide binding]; other site 522772004447 ligand binding site [chemical binding]; other site 522772004448 catalytic site [active] 522772004449 NAD binding site [chemical binding]; other site 522772004450 S-adenosylmethionine synthetase; Validated; Region: PRK05250 522772004451 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 522772004452 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 522772004453 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 522772004454 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 522772004455 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 522772004456 Coenzyme A binding pocket [chemical binding]; other site 522772004457 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 522772004458 Glycoprotease family; Region: Peptidase_M22; pfam00814 522772004459 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 522772004460 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 522772004461 putative active site [active] 522772004462 dimerization interface [polypeptide binding]; other site 522772004463 putative tRNAtyr binding site [nucleotide binding]; other site 522772004464 integral membrane protein MviN; Region: mviN; TIGR01695 522772004465 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 522772004466 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 522772004467 IHF dimer interface [polypeptide binding]; other site 522772004468 IHF - DNA interface [nucleotide binding]; other site 522772004469 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 522772004470 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 522772004471 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 522772004472 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 522772004473 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 522772004474 motif II; other site 522772004475 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 522772004476 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 522772004477 active site 522772004478 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 522772004479 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772004480 Transposase; Region: HTH_Tnp_1; pfam01527 522772004481 HTH-like domain; Region: HTH_21; pfam13276 522772004482 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 522772004483 Integrase core domain; Region: rve; pfam00665 522772004484 Integrase core domain; Region: rve_3; pfam13683 522772004485 AAA domain; Region: AAA_30; pfam13604 522772004486 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 522772004487 HsdM N-terminal domain; Region: HsdM_N; pfam12161 522772004488 Virulence protein [General function prediction only]; Region: COG3943 522772004489 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 522772004490 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 522772004491 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522772004492 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522772004493 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 522772004494 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 522772004495 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 522772004496 ATP binding site [chemical binding]; other site 522772004497 putative Mg++ binding site [ion binding]; other site 522772004498 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 522772004499 Transposase; Region: DDE_Tnp_ISL3; pfam01610 522772004500 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772004501 dimerization interface [polypeptide binding]; other site 522772004502 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772004503 dimer interface [polypeptide binding]; other site 522772004504 phosphorylation site [posttranslational modification] 522772004505 transposase/IS protein; Provisional; Region: PRK09183 522772004506 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772004507 Walker A motif; other site 522772004508 ATP binding site [chemical binding]; other site 522772004509 Walker B motif; other site 522772004510 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772004511 Integrase core domain; Region: rve; pfam00665 522772004512 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772004513 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 522772004514 ATP binding site [chemical binding]; other site 522772004515 Mg2+ binding site [ion binding]; other site 522772004516 G-X-G motif; other site 522772004517 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 522772004518 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 522772004519 active site 522772004520 phosphorylation site [posttranslational modification] 522772004521 intermolecular recognition site; other site 522772004522 dimerization interface [polypeptide binding]; other site 522772004523 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 522772004524 DNA binding site [nucleotide binding] 522772004525 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 522772004526 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 522772004527 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522772004528 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 522772004529 HlyD family secretion protein; Region: HlyD_3; pfam13437 522772004530 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522772004531 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 522772004532 Transposase; Region: HTH_Tnp_1; cl17663 522772004533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 522772004534 putative transposase OrfB; Reviewed; Region: PHA02517 522772004535 HTH-like domain; Region: HTH_21; pfam13276 522772004536 Integrase core domain; Region: rve; pfam00665 522772004537 Integrase core domain; Region: rve_3; pfam13683 522772004538 HTH-like domain; Region: HTH_21; pfam13276 522772004539 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 522772004540 Integrase core domain; Region: rve; pfam00665 522772004541 Integrase core domain; Region: rve_3; pfam13683 522772004542 Transposase; Region: HTH_Tnp_1; pfam01527 522772004543 Transposase; Region: HTH_Tnp_1; cl17663 522772004544 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 522772004545 HTH-like domain; Region: HTH_21; pfam13276 522772004546 Integrase core domain; Region: rve; pfam00665 522772004547 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772004548 MULE transposase domain; Region: MULE; pfam10551 522772004549 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 522772004550 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 522772004551 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 522772004552 nucleotide binding site [chemical binding]; other site 522772004553 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 522772004554 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 522772004555 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 522772004556 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 522772004557 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 522772004558 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772004559 Zn2+ binding site [ion binding]; other site 522772004560 Mg2+ binding site [ion binding]; other site 522772004561 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522772004562 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 522772004563 Glutaminase; Region: Glutaminase; cl00907 522772004564 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772004565 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 522772004566 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772004567 dimerization interface [polypeptide binding]; other site 522772004568 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772004569 dimer interface [polypeptide binding]; other site 522772004570 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 522772004571 putative CheW interface [polypeptide binding]; other site 522772004572 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772004573 MULE transposase domain; Region: MULE; pfam10551 522772004574 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 522772004575 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 522772004576 putative dimer interface [polypeptide binding]; other site 522772004577 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 522772004578 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 522772004579 putative dimer interface [polypeptide binding]; other site 522772004580 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772004581 dimerization interface [polypeptide binding]; other site 522772004582 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772004583 dimer interface [polypeptide binding]; other site 522772004584 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 522772004585 putative CheW interface [polypeptide binding]; other site 522772004586 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772004587 Nitrate and nitrite sensing; Region: NIT; pfam08376 522772004588 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772004589 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772004590 dimer interface [polypeptide binding]; other site 522772004591 putative CheW interface [polypeptide binding]; other site 522772004592 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 522772004593 Membrane protein of unknown function; Region: DUF360; pfam04020 522772004594 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 522772004595 Predicted permeases [General function prediction only]; Region: COG0795 522772004596 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 522772004597 Predicted permeases [General function prediction only]; Region: COG0795 522772004598 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 522772004599 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 522772004600 tartrate dehydrogenase; Region: TTC; TIGR02089 522772004601 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 522772004602 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 522772004603 non-specific DNA binding site [nucleotide binding]; other site 522772004604 salt bridge; other site 522772004605 sequence-specific DNA binding site [nucleotide binding]; other site 522772004606 Cupin domain; Region: Cupin_2; pfam07883 522772004607 Proline dehydrogenase; Region: Pro_dh; cl03282 522772004608 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 522772004609 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 522772004610 NAD(P) binding site [chemical binding]; other site 522772004611 catalytic residues [active] 522772004612 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 522772004613 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 522772004614 dimerization interface [polypeptide binding]; other site 522772004615 ligand binding site [chemical binding]; other site 522772004616 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 522772004617 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 522772004618 TM-ABC transporter signature motif; other site 522772004619 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 522772004620 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 522772004621 TM-ABC transporter signature motif; other site 522772004622 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 522772004623 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 522772004624 Walker A/P-loop; other site 522772004625 ATP binding site [chemical binding]; other site 522772004626 Q-loop/lid; other site 522772004627 ABC transporter signature motif; other site 522772004628 Walker B; other site 522772004629 D-loop; other site 522772004630 H-loop/switch region; other site 522772004631 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 522772004632 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 522772004633 Walker A/P-loop; other site 522772004634 ATP binding site [chemical binding]; other site 522772004635 Q-loop/lid; other site 522772004636 ABC transporter signature motif; other site 522772004637 Walker B; other site 522772004638 D-loop; other site 522772004639 H-loop/switch region; other site 522772004640 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 522772004641 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 522772004642 FeS/SAM binding site; other site 522772004643 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 522772004644 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 522772004645 dimer interface [polypeptide binding]; other site 522772004646 active site 522772004647 glycine loop; other site 522772004648 pyrroline-5-carboxylate reductase; Region: PLN02688 522772004649 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 522772004650 Esterase/lipase [General function prediction only]; Region: COG1647 522772004651 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 522772004652 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 522772004653 AAA domain; Region: AAA_33; pfam13671 522772004654 endonuclease IV; Provisional; Region: PRK01060 522772004655 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 522772004656 AP (apurinic/apyrimidinic) site pocket; other site 522772004657 DNA interaction; other site 522772004658 Metal-binding active site; metal-binding site 522772004659 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 522772004660 AMP binding site [chemical binding]; other site 522772004661 metal binding site [ion binding]; metal-binding site 522772004662 active site 522772004663 Recombination protein O N terminal; Region: RecO_N; pfam11967 522772004664 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 522772004665 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 522772004666 MgtE intracellular N domain; Region: MgtE_N; smart00924 522772004667 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 522772004668 Divalent cation transporter; Region: MgtE; pfam01769 522772004669 GTPase Era; Reviewed; Region: era; PRK00089 522772004670 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 522772004671 G1 box; other site 522772004672 GTP/Mg2+ binding site [chemical binding]; other site 522772004673 Switch I region; other site 522772004674 G2 box; other site 522772004675 Switch II region; other site 522772004676 G3 box; other site 522772004677 G4 box; other site 522772004678 G5 box; other site 522772004679 KH domain; Region: KH_2; pfam07650 522772004680 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 522772004681 Domain of unknown function DUF21; Region: DUF21; pfam01595 522772004682 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 522772004683 Transporter associated domain; Region: CorC_HlyC; smart01091 522772004684 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 522772004685 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 522772004686 PhoH-like protein; Region: PhoH; pfam02562 522772004687 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 522772004688 DHH family; Region: DHH; pfam01368 522772004689 FOG: CBS domain [General function prediction only]; Region: COG0517 522772004690 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 522772004691 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 522772004692 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 522772004693 active site 522772004694 NTP binding site [chemical binding]; other site 522772004695 metal binding triad [ion binding]; metal-binding site 522772004696 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 522772004697 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 522772004698 active site 522772004699 DNA binding site [nucleotide binding] 522772004700 Int/Topo IB signature motif; other site 522772004701 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 522772004702 Malic enzyme, N-terminal domain; Region: malic; pfam00390 522772004703 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 522772004704 putative NAD(P) binding site [chemical binding]; other site 522772004705 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 522772004706 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 522772004707 Low molecular weight phosphatase family; Region: LMWPc; cl00105 522772004708 active site 522772004709 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 522772004710 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 522772004711 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 522772004712 catalytic residues [active] 522772004713 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 522772004714 A new structural DNA glycosylase; Region: AlkD_like; cd06561 522772004715 active site 522772004716 Cysteine-rich small domain; Region: zf-like; cl00946 522772004717 Rrf2 family protein; Region: rrf2_super; TIGR00738 522772004718 Transcriptional regulator; Region: Rrf2; pfam02082 522772004719 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 522772004720 Low-spin heme binding site [chemical binding]; other site 522772004721 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 522772004722 D-pathway; other site 522772004723 Putative water exit pathway; other site 522772004724 Binuclear center (active site) [active] 522772004725 K-pathway; other site 522772004726 Putative proton exit pathway; other site 522772004727 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional; Region: PRK14486 522772004728 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 522772004729 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 522772004730 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 522772004731 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 522772004732 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 522772004733 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 522772004734 FixH; Region: FixH; pfam05751 522772004735 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 522772004736 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 522772004737 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522772004738 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 522772004739 metal-binding site [ion binding] 522772004740 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522772004741 Soluble P-type ATPase [General function prediction only]; Region: COG4087 522772004742 EamA-like transporter family; Region: EamA; pfam00892 522772004743 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 522772004744 EamA-like transporter family; Region: EamA; pfam00892 522772004745 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 522772004746 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 522772004747 Ligand Binding Site [chemical binding]; other site 522772004748 aspartate aminotransferase; Provisional; Region: PRK05764 522772004749 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 522772004750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772004751 homodimer interface [polypeptide binding]; other site 522772004752 catalytic residue [active] 522772004753 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 522772004754 Sodium Bile acid symporter family; Region: SBF; cl17470 522772004755 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 522772004756 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 522772004757 Fe-S cluster binding site [ion binding]; other site 522772004758 active site 522772004759 Flavoprotein; Region: Flavoprotein; pfam02441 522772004760 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 522772004761 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 522772004762 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 522772004763 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 522772004764 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 522772004765 catalytic site [active] 522772004766 G-X2-G-X-G-K; other site 522772004767 hypothetical protein; Provisional; Region: PRK11820 522772004768 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 522772004769 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 522772004770 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 522772004771 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 522772004772 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 522772004773 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 522772004774 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 522772004775 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 522772004776 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 522772004777 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 522772004778 catalytic site [active] 522772004779 subunit interface [polypeptide binding]; other site 522772004780 YceG-like family; Region: YceG; pfam02618 522772004781 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 522772004782 dimerization interface [polypeptide binding]; other site 522772004783 exopolyphosphatase; Region: exo_poly_only; TIGR03706 522772004784 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 522772004785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 522772004786 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 522772004787 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 522772004788 substrate binding pocket [chemical binding]; other site 522772004789 membrane-bound complex binding site; other site 522772004790 hinge residues; other site 522772004791 PAS domain S-box; Region: sensory_box; TIGR00229 522772004792 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 522772004793 putative active site [active] 522772004794 heme pocket [chemical binding]; other site 522772004795 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 522772004796 dimer interface [polypeptide binding]; other site 522772004797 phosphorylation site [posttranslational modification] 522772004798 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 522772004799 ATP binding site [chemical binding]; other site 522772004800 Mg2+ binding site [ion binding]; other site 522772004801 G-X-G motif; other site 522772004802 nickel import ATP-binding protein NikE; Region: nickel_nikE; TIGR02769 522772004803 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 522772004804 Walker A/P-loop; other site 522772004805 ATP binding site [chemical binding]; other site 522772004806 Q-loop/lid; other site 522772004807 ABC transporter signature motif; other site 522772004808 Walker B; other site 522772004809 D-loop; other site 522772004810 H-loop/switch region; other site 522772004811 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 522772004812 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 522772004813 Walker A/P-loop; other site 522772004814 ATP binding site [chemical binding]; other site 522772004815 Q-loop/lid; other site 522772004816 ABC transporter signature motif; other site 522772004817 Walker B; other site 522772004818 D-loop; other site 522772004819 H-loop/switch region; other site 522772004820 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 522772004821 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772004822 dimer interface [polypeptide binding]; other site 522772004823 conserved gate region; other site 522772004824 putative PBP binding loops; other site 522772004825 ABC-ATPase subunit interface; other site 522772004826 nickel transporter permease NikB; Provisional; Region: PRK10352 522772004827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772004828 dimer interface [polypeptide binding]; other site 522772004829 conserved gate region; other site 522772004830 putative PBP binding loops; other site 522772004831 ABC-ATPase subunit interface; other site 522772004832 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 522772004833 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 522772004834 substrate binding site [chemical binding]; other site 522772004835 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 522772004836 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 522772004837 hypothetical protein; Validated; Region: PRK07121 522772004838 Predicted oxidoreductase [General function prediction only]; Region: COG3573 522772004839 Activator of aromatic catabolism; Region: XylR_N; pfam06505 522772004840 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 522772004841 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 522772004842 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772004843 Walker A motif; other site 522772004844 ATP binding site [chemical binding]; other site 522772004845 Walker B motif; other site 522772004846 arginine finger; other site 522772004847 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 522772004848 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 522772004849 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522772004850 putative substrate translocation pore; other site 522772004851 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 522772004852 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772004853 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772004854 dimer interface [polypeptide binding]; other site 522772004855 putative CheW interface [polypeptide binding]; other site 522772004856 PAS domain; Region: PAS_9; pfam13426 522772004857 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 522772004858 PAS fold; Region: PAS_4; pfam08448 522772004859 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 522772004860 putative active site [active] 522772004861 heme pocket [chemical binding]; other site 522772004862 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 522772004863 Histidine kinase; Region: HisKA_3; pfam07730 522772004864 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 522772004865 ATP binding site [chemical binding]; other site 522772004866 Mg2+ binding site [ion binding]; other site 522772004867 G-X-G motif; other site 522772004868 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 522772004869 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 522772004870 active site 522772004871 phosphorylation site [posttranslational modification] 522772004872 intermolecular recognition site; other site 522772004873 dimerization interface [polypeptide binding]; other site 522772004874 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 522772004875 DNA binding residues [nucleotide binding] 522772004876 dimerization interface [polypeptide binding]; other site 522772004877 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 522772004878 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 522772004879 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 522772004880 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 522772004881 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 522772004882 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 522772004883 trimer interface [polypeptide binding]; other site 522772004884 putative Zn binding site [ion binding]; other site 522772004885 citrate lyase subunit gamma; Provisional; Region: PRK13253 522772004886 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 522772004887 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522772004888 active site 522772004889 nucleotide binding site [chemical binding]; other site 522772004890 HIGH motif; other site 522772004891 KMSKS motif; other site 522772004892 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772004893 MULE transposase domain; Region: MULE; pfam10551 522772004894 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 522772004895 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 522772004896 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 522772004897 S-adenosylmethionine binding site [chemical binding]; other site 522772004898 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 522772004899 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 522772004900 NTPase; Region: NTPase_1; cl17478 522772004901 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 522772004902 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 522772004903 N-terminal plug; other site 522772004904 ligand-binding site [chemical binding]; other site 522772004905 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 522772004906 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 522772004907 putative substrate translocation pore; other site 522772004908 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 522772004909 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522772004910 putative substrate translocation pore; other site 522772004911 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 522772004912 muropeptide transporter; Validated; Region: ampG; cl17669 522772004913 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 522772004914 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 522772004915 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 522772004916 Walker A/P-loop; other site 522772004917 ATP binding site [chemical binding]; other site 522772004918 Q-loop/lid; other site 522772004919 ABC transporter signature motif; other site 522772004920 Walker B; other site 522772004921 D-loop; other site 522772004922 H-loop/switch region; other site 522772004923 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 522772004924 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 522772004925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772004926 Walker A/P-loop; other site 522772004927 ATP binding site [chemical binding]; other site 522772004928 Q-loop/lid; other site 522772004929 ABC transporter signature motif; other site 522772004930 Walker B; other site 522772004931 D-loop; other site 522772004932 H-loop/switch region; other site 522772004933 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 522772004934 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 522772004935 N-terminal plug; other site 522772004936 ligand-binding site [chemical binding]; other site 522772004937 Hemin uptake protein hemP; Region: hemP; cl10043 522772004938 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 522772004939 TPR motif; other site 522772004940 binding surface 522772004941 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 522772004942 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 522772004943 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 522772004944 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 522772004945 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 522772004946 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 522772004947 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 522772004948 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 522772004949 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 522772004950 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 522772004951 Protein export membrane protein; Region: SecD_SecF; cl14618 522772004952 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 522772004953 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522772004954 6-phosphofructo-2-kinase; Region: 6PF2K; pfam01591 522772004955 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 522772004956 catalytic core [active] 522772004957 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772004958 MULE transposase domain; Region: MULE; pfam10551 522772004959 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 522772004960 non-specific DNA binding site [nucleotide binding]; other site 522772004961 salt bridge; other site 522772004962 sequence-specific DNA binding site [nucleotide binding]; other site 522772004963 Domain of unknown function (DUF955); Region: DUF955; pfam06114 522772004964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772004965 HAMP domain; Region: HAMP; pfam00672 522772004966 dimerization interface [polypeptide binding]; other site 522772004967 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772004968 dimer interface [polypeptide binding]; other site 522772004969 phosphorylation site [posttranslational modification] 522772004970 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 522772004971 ATP binding site [chemical binding]; other site 522772004972 Mg2+ binding site [ion binding]; other site 522772004973 G-X-G motif; other site 522772004974 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772004975 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 522772004976 active site 522772004977 phosphorylation site [posttranslational modification] 522772004978 intermolecular recognition site; other site 522772004979 dimerization interface [polypeptide binding]; other site 522772004980 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772004981 Walker A motif; other site 522772004982 ATP binding site [chemical binding]; other site 522772004983 Walker B motif; other site 522772004984 arginine finger; other site 522772004985 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 522772004986 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 522772004987 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 522772004988 NAD(P) binding site [chemical binding]; other site 522772004989 catalytic residues [active] 522772004990 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 522772004991 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 522772004992 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 522772004993 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 522772004994 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 522772004995 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772004996 dimer interface [polypeptide binding]; other site 522772004997 conserved gate region; other site 522772004998 putative PBP binding loops; other site 522772004999 ABC-ATPase subunit interface; other site 522772005000 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 522772005001 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 522772005002 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772005003 dimer interface [polypeptide binding]; other site 522772005004 conserved gate region; other site 522772005005 putative PBP binding loops; other site 522772005006 ABC-ATPase subunit interface; other site 522772005007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 522772005008 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 522772005009 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 522772005010 Walker A/P-loop; other site 522772005011 ATP binding site [chemical binding]; other site 522772005012 Q-loop/lid; other site 522772005013 ABC transporter signature motif; other site 522772005014 Walker B; other site 522772005015 D-loop; other site 522772005016 H-loop/switch region; other site 522772005017 Cache domain; Region: Cache_1; pfam02743 522772005018 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772005019 dimerization interface [polypeptide binding]; other site 522772005020 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772005021 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772005022 dimer interface [polypeptide binding]; other site 522772005023 putative CheW interface [polypeptide binding]; other site 522772005024 EamA-like transporter family; Region: EamA; pfam00892 522772005025 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 522772005026 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 522772005027 CIMS - Cobalamine-independent methonine synthase, or MetE, 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...; Region: CIMS_N_terminal_like; cd03312 522772005028 THF binding site; other site 522772005029 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 522772005030 substrate binding site [chemical binding]; other site 522772005031 THF binding site; other site 522772005032 zinc-binding site [ion binding]; other site 522772005033 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 522772005034 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 522772005035 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 522772005036 dimer interface [polypeptide binding]; other site 522772005037 acyl-activating enzyme (AAE) consensus motif; other site 522772005038 putative active site [active] 522772005039 AMP binding site [chemical binding]; other site 522772005040 putative CoA binding site [chemical binding]; other site 522772005041 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 522772005042 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 522772005043 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 522772005044 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772005045 dimer interface [polypeptide binding]; other site 522772005046 conserved gate region; other site 522772005047 putative PBP binding loops; other site 522772005048 ABC-ATPase subunit interface; other site 522772005049 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 522772005050 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772005051 Walker A/P-loop; other site 522772005052 ATP binding site [chemical binding]; other site 522772005053 Q-loop/lid; other site 522772005054 ABC transporter signature motif; other site 522772005055 Walker B; other site 522772005056 D-loop; other site 522772005057 H-loop/switch region; other site 522772005058 TOBE domain; Region: TOBE; cl01440 522772005059 transposase/IS protein; Provisional; Region: PRK09183 522772005060 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772005061 Walker A motif; other site 522772005062 ATP binding site [chemical binding]; other site 522772005063 Walker B motif; other site 522772005064 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772005065 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 522772005066 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 522772005067 Histidine kinase; Region: HisKA_2; pfam07568 522772005068 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 522772005069 ATP binding site [chemical binding]; other site 522772005070 Mg2+ binding site [ion binding]; other site 522772005071 G-X-G motif; other site 522772005072 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 522772005073 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 522772005074 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772005075 dimerization interface [polypeptide binding]; other site 522772005076 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772005077 dimer interface [polypeptide binding]; other site 522772005078 putative CheW interface [polypeptide binding]; other site 522772005079 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 522772005080 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 522772005081 active site 522772005082 phosphorylation site [posttranslational modification] 522772005083 intermolecular recognition site; other site 522772005084 dimerization interface [polypeptide binding]; other site 522772005085 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 522772005086 DNA binding site [nucleotide binding] 522772005087 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772005088 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772005089 dimer interface [polypeptide binding]; other site 522772005090 phosphorylation site [posttranslational modification] 522772005091 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 522772005092 ATP binding site [chemical binding]; other site 522772005093 Mg2+ binding site [ion binding]; other site 522772005094 G-X-G motif; other site 522772005095 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772005096 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 522772005097 molybdopterin cofactor binding site; other site 522772005098 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 522772005099 molybdopterin cofactor binding site; other site 522772005100 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 522772005101 outer membrane porin, OprD family; Region: OprD; pfam03573 522772005102 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 522772005103 putative substrate translocation pore; other site 522772005104 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522772005105 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 522772005106 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 522772005107 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772005108 molybdopterin cofactor binding site; other site 522772005109 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 522772005110 molybdopterin cofactor binding site; other site 522772005111 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522772005112 DNA-binding site [nucleotide binding]; DNA binding site 522772005113 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 522772005114 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 522772005115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772005116 homodimer interface [polypeptide binding]; other site 522772005117 catalytic residue [active] 522772005118 Response regulator receiver domain; Region: Response_reg; pfam00072 522772005119 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 522772005120 active site 522772005121 phosphorylation site [posttranslational modification] 522772005122 intermolecular recognition site; other site 522772005123 dimerization interface [polypeptide binding]; other site 522772005124 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 522772005125 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 522772005126 Sporulation related domain; Region: SPOR; pfam05036 522772005127 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 522772005128 NlpC/P60 family; Region: NLPC_P60; pfam00877 522772005129 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 522772005130 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 522772005131 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 522772005132 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 522772005133 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 522772005134 legume lectins; Region: lectin_L-type; cl14058 522772005135 metal binding site [ion binding]; metal-binding site 522772005136 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 522772005137 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 522772005138 S-adenosylmethionine binding site [chemical binding]; other site 522772005139 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 522772005140 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 522772005141 Ligand Binding Site [chemical binding]; other site 522772005142 TIGR00269 family protein; Region: TIGR00269 522772005143 Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ThiS; COG2104 522772005144 charged pocket; other site 522772005145 hydrophobic patch; other site 522772005146 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 522772005147 putative active site [active] 522772005148 4Fe-4S binding domain; Region: Fer4_6; pfam12837 522772005149 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 522772005150 4Fe-4S binding domain; Region: Fer4; pfam00037 522772005151 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 522772005152 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 522772005153 active site 522772005154 FMN binding site [chemical binding]; other site 522772005155 substrate binding site [chemical binding]; other site 522772005156 3Fe-4S cluster binding site [ion binding]; other site 522772005157 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 522772005158 domain_subunit interface; other site 522772005159 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 522772005160 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 522772005161 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 522772005162 NAD(P) binding site [chemical binding]; other site 522772005163 4Fe-4S binding domain; Region: Fer4; pfam00037 522772005164 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 522772005165 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 522772005166 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 522772005167 GTP binding site; other site 522772005168 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 522772005169 Walker A motif; other site 522772005170 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 522772005171 active site residue [active] 522772005172 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 522772005173 active site residue [active] 522772005174 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 522772005175 active site residue [active] 522772005176 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 522772005177 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 522772005178 thiosulfate reductase PhsA; Provisional; Region: PRK15488 522772005179 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 522772005180 putative [Fe4-S4] binding site [ion binding]; other site 522772005181 putative molybdopterin cofactor binding site [chemical binding]; other site 522772005182 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772005183 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 522772005184 putative molybdopterin cofactor binding site; other site 522772005185 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 522772005186 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 522772005187 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 522772005188 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 522772005189 Cytochrome c; Region: Cytochrom_C; cl11414 522772005190 Cytochrome c; Region: Cytochrom_C; cl11414 522772005191 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 522772005192 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 522772005193 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 522772005194 putative active site [active] 522772005195 glutamine synthetase, type I; Region: GlnA; TIGR00653 522772005196 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 522772005197 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 522772005198 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 522772005199 Nitrogen regulatory protein P-II; Region: P-II; smart00938 522772005200 conjugal transfer protein TrbH; Provisional; Region: PRK13883 522772005201 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 522772005202 mce related protein; Region: MCE; pfam02470 522772005203 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772005204 Q-loop/lid; other site 522772005205 Permease; Region: Permease; pfam02405 522772005206 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 522772005207 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 522772005208 dimer interface [polypeptide binding]; other site 522772005209 PYR/PP interface [polypeptide binding]; other site 522772005210 TPP binding site [chemical binding]; other site 522772005211 substrate binding site [chemical binding]; other site 522772005212 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 522772005213 Domain of unknown function; Region: EKR; pfam10371 522772005214 4Fe-4S binding domain; Region: Fer4_6; pfam12837 522772005215 4Fe-4S binding domain; Region: Fer4_6; pfam12837 522772005216 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 522772005217 TPP-binding site [chemical binding]; other site 522772005218 dimer interface [polypeptide binding]; other site 522772005219 Cache domain; Region: Cache_1; pfam02743 522772005220 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772005221 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772005222 dimer interface [polypeptide binding]; other site 522772005223 putative CheW interface [polypeptide binding]; other site 522772005224 Methyltransferase domain; Region: Methyltransf_31; pfam13847 522772005225 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 522772005226 S-adenosylmethionine binding site [chemical binding]; other site 522772005227 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522772005228 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 522772005229 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 522772005230 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 522772005231 substrate binding pocket [chemical binding]; other site 522772005232 membrane-bound complex binding site; other site 522772005233 hinge residues; other site 522772005234 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 522772005235 ABC1 family; Region: ABC1; cl17513 522772005236 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 522772005237 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 522772005238 ABC transporter; Region: ABC_tran_2; pfam12848 522772005239 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 522772005240 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772005241 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772005242 dimer interface [polypeptide binding]; other site 522772005243 putative CheW interface [polypeptide binding]; other site 522772005244 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 522772005245 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 522772005246 putative active site [active] 522772005247 PhoH-like protein; Region: PhoH; pfam02562 522772005248 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 522772005249 TrkA-N domain; Region: TrkA_N; pfam02254 522772005250 TrkA-C domain; Region: TrkA_C; pfam02080 522772005251 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 522772005252 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 522772005253 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 522772005254 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 522772005255 putative dimer interface [polypeptide binding]; other site 522772005256 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 522772005257 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 522772005258 HSP70 interaction site [polypeptide binding]; other site 522772005259 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 522772005260 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 522772005261 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 522772005262 dimer interface [polypeptide binding]; other site 522772005263 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 522772005264 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 522772005265 DNA binding residues [nucleotide binding] 522772005266 putative dimer interface [polypeptide binding]; other site 522772005267 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 522772005268 Clp amino terminal domain; Region: Clp_N; pfam02861 522772005269 Clp amino terminal domain; Region: Clp_N; pfam02861 522772005270 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772005271 Walker A motif; other site 522772005272 ATP binding site [chemical binding]; other site 522772005273 Walker B motif; other site 522772005274 arginine finger; other site 522772005275 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772005276 Walker A motif; other site 522772005277 ATP binding site [chemical binding]; other site 522772005278 Walker B motif; other site 522772005279 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 522772005280 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 522772005281 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 522772005282 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522772005283 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 522772005284 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 522772005285 DNA binding residues [nucleotide binding] 522772005286 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 522772005287 biotin synthase; Region: bioB; TIGR00433 522772005288 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 522772005289 FeS/SAM binding site; other site 522772005290 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 522772005291 Flagella accessory protein C (FlaC); Region: FlaC_arch; cl10488 522772005292 Bacterial SH3 domain; Region: SH3_3; cl17532 522772005293 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 522772005294 Bacterial SH3 domain; Region: SH3_3; pfam08239 522772005295 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 522772005296 IHF dimer interface [polypeptide binding]; other site 522772005297 IHF - DNA interface [nucleotide binding]; other site 522772005298 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 522772005299 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 522772005300 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 522772005301 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 522772005302 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 522772005303 S-adenosylmethionine binding site [chemical binding]; other site 522772005304 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 522772005305 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 522772005306 tetramer interface [polypeptide binding]; other site 522772005307 heme binding pocket [chemical binding]; other site 522772005308 NADPH binding site [chemical binding]; other site 522772005309 Response regulator receiver domain; Region: Response_reg; pfam00072 522772005310 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 522772005311 active site 522772005312 phosphorylation site [posttranslational modification] 522772005313 intermolecular recognition site; other site 522772005314 dimerization interface [polypeptide binding]; other site 522772005315 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772005316 dimer interface [polypeptide binding]; other site 522772005317 putative CheW interface [polypeptide binding]; other site 522772005318 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 522772005319 Response regulator receiver domain; Region: Response_reg; pfam00072 522772005320 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 522772005321 active site 522772005322 phosphorylation site [posttranslational modification] 522772005323 intermolecular recognition site; other site 522772005324 dimerization interface [polypeptide binding]; other site 522772005325 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 522772005326 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 522772005327 putative active site [active] 522772005328 heme pocket [chemical binding]; other site 522772005329 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772005330 dimer interface [polypeptide binding]; other site 522772005331 phosphorylation site [posttranslational modification] 522772005332 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 522772005333 ATP binding site [chemical binding]; other site 522772005334 Mg2+ binding site [ion binding]; other site 522772005335 G-X-G motif; other site 522772005336 Cache domain; Region: Cache_1; pfam02743 522772005337 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772005338 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772005339 metal binding site [ion binding]; metal-binding site 522772005340 active site 522772005341 I-site; other site 522772005342 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 522772005343 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 522772005344 non-specific DNA binding site [nucleotide binding]; other site 522772005345 salt bridge; other site 522772005346 sequence-specific DNA binding site [nucleotide binding]; other site 522772005347 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 522772005348 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 522772005349 non-specific DNA binding site [nucleotide binding]; other site 522772005350 salt bridge; other site 522772005351 sequence-specific DNA binding site [nucleotide binding]; other site 522772005352 Predicted transcriptional regulator [Transcription]; Region: COG2932 522772005353 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772005354 dimer interface [polypeptide binding]; other site 522772005355 phosphorylation site [posttranslational modification] 522772005356 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 522772005357 ATP binding site [chemical binding]; other site 522772005358 Mg2+ binding site [ion binding]; other site 522772005359 G-X-G motif; other site 522772005360 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 522772005361 Response regulator receiver domain; Region: Response_reg; pfam00072 522772005362 active site 522772005363 phosphorylation site [posttranslational modification] 522772005364 intermolecular recognition site; other site 522772005365 dimerization interface [polypeptide binding]; other site 522772005366 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 522772005367 catalytic residues [active] 522772005368 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 522772005369 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 522772005370 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 522772005371 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 522772005372 FeS/SAM binding site; other site 522772005373 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 522772005374 PAS domain; Region: PAS_9; pfam13426 522772005375 putative active site [active] 522772005376 heme pocket [chemical binding]; other site 522772005377 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772005378 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772005379 metal binding site [ion binding]; metal-binding site 522772005380 active site 522772005381 I-site; other site 522772005382 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 522772005383 Trm112p-like protein; Region: Trm112p; cl01066 522772005384 Uncharacterized conserved protein [Function unknown]; Region: COG0062 522772005385 putative carbohydrate kinase; Provisional; Region: PRK10565 522772005386 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 522772005387 putative substrate binding site [chemical binding]; other site 522772005388 putative ATP binding site [chemical binding]; other site 522772005389 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 522772005390 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 522772005391 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 522772005392 HIGH motif; other site 522772005393 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 522772005394 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 522772005395 active site 522772005396 KMSKS motif; other site 522772005397 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 522772005398 tRNA binding surface [nucleotide binding]; other site 522772005399 anticodon binding site; other site 522772005400 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 522772005401 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 522772005402 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 522772005403 dimerization interface [polypeptide binding]; other site 522772005404 active site 522772005405 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 522772005406 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 522772005407 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 522772005408 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522772005409 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 522772005410 Predicted methyltransferases [General function prediction only]; Region: COG0313 522772005411 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 522772005412 putative SAM binding site [chemical binding]; other site 522772005413 putative homodimer interface [polypeptide binding]; other site 522772005414 TPR repeat; Region: TPR_11; pfam13414 522772005415 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 522772005416 binding surface 522772005417 TPR motif; other site 522772005418 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522772005419 TPR repeat; Region: TPR_11; pfam13414 522772005420 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 522772005421 binding surface 522772005422 TPR motif; other site 522772005423 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 522772005424 binding surface 522772005425 TPR motif; other site 522772005426 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 522772005427 binding surface 522772005428 TPR motif; other site 522772005429 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 522772005430 RNA/DNA hybrid binding site [nucleotide binding]; other site 522772005431 active site 522772005432 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 522772005433 Putative zinc ribbon domain; Region: DUF164; pfam02591 522772005434 Uncharacterized conserved protein [Function unknown]; Region: COG0327 522772005435 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 522772005436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 522772005437 Uncharacterized conserved protein [Function unknown]; Region: COG0327 522772005438 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 522772005439 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 522772005440 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 522772005441 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522772005442 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 522772005443 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 522772005444 DNA binding residues [nucleotide binding] 522772005445 DNA primase; Validated; Region: dnaG; PRK05667 522772005446 CHC2 zinc finger; Region: zf-CHC2; pfam01807 522772005447 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 522772005448 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 522772005449 active site 522772005450 metal binding site [ion binding]; metal-binding site 522772005451 interdomain interaction site; other site 522772005452 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 522772005453 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 522772005454 Walker A/P-loop; other site 522772005455 ATP binding site [chemical binding]; other site 522772005456 Q-loop/lid; other site 522772005457 ABC transporter signature motif; other site 522772005458 Walker B; other site 522772005459 D-loop; other site 522772005460 H-loop/switch region; other site 522772005461 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 522772005462 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 522772005463 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 522772005464 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 522772005465 active site 522772005466 catalytic site [active] 522772005467 substrate binding site [chemical binding]; other site 522772005468 Stringent starvation protein B; Region: SspB; cl01120 522772005469 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 522772005470 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 522772005471 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 522772005472 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 522772005473 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 522772005474 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 522772005475 generic binding surface II; other site 522772005476 generic binding surface I; other site 522772005477 Septum formation initiator; Region: DivIC; cl17659 522772005478 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 522772005479 bacterial Hfq-like; Region: Hfq; cd01716 522772005480 hexamer interface [polypeptide binding]; other site 522772005481 Sm1 motif; other site 522772005482 RNA binding site [nucleotide binding]; other site 522772005483 Sm2 motif; other site 522772005484 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 522772005485 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 522772005486 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 522772005487 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 522772005488 ATP binding site [chemical binding]; other site 522772005489 Mg2+ binding site [ion binding]; other site 522772005490 G-X-G motif; other site 522772005491 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 522772005492 ATP binding site [chemical binding]; other site 522772005493 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 522772005494 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 522772005495 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 522772005496 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 522772005497 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 522772005498 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 522772005499 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 522772005500 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 522772005501 active site 522772005502 HIGH motif; other site 522772005503 nucleotide binding site [chemical binding]; other site 522772005504 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 522772005505 active site 522772005506 KMSKS motif; other site 522772005507 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 522772005508 tRNA binding surface [nucleotide binding]; other site 522772005509 anticodon binding site; other site 522772005510 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 522772005511 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 522772005512 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 522772005513 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 522772005514 purine monophosphate binding site [chemical binding]; other site 522772005515 dimer interface [polypeptide binding]; other site 522772005516 putative catalytic residues [active] 522772005517 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 522772005518 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 522772005519 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 522772005520 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 522772005521 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 522772005522 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 522772005523 AIR carboxylase; Region: AIRC; pfam00731 522772005524 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 522772005525 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 522772005526 heme-binding residues [chemical binding]; other site 522772005527 PilZ domain; Region: PilZ; pfam07238 522772005528 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772005529 dimerization interface [polypeptide binding]; other site 522772005530 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772005531 dimer interface [polypeptide binding]; other site 522772005532 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 522772005533 putative CheW interface [polypeptide binding]; other site 522772005534 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 522772005535 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 522772005536 Walker A/P-loop; other site 522772005537 ATP binding site [chemical binding]; other site 522772005538 Q-loop/lid; other site 522772005539 ABC transporter signature motif; other site 522772005540 Walker B; other site 522772005541 D-loop; other site 522772005542 H-loop/switch region; other site 522772005543 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 522772005544 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 522772005545 active site 522772005546 HIGH motif; other site 522772005547 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 522772005548 KMSKS motif; other site 522772005549 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 522772005550 tRNA binding surface [nucleotide binding]; other site 522772005551 anticodon binding site; other site 522772005552 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 522772005553 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 522772005554 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772005555 Zn2+ binding site [ion binding]; other site 522772005556 Mg2+ binding site [ion binding]; other site 522772005557 Transcriptional regulators [Transcription]; Region: GntR; COG1802 522772005558 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522772005559 DNA-binding site [nucleotide binding]; DNA binding site 522772005560 FCD domain; Region: FCD; pfam07729 522772005561 Transcriptional regulators [Transcription]; Region: GntR; COG1802 522772005562 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522772005563 DNA-binding site [nucleotide binding]; DNA binding site 522772005564 FCD domain; Region: FCD; pfam07729 522772005565 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 522772005566 active site residue [active] 522772005567 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 522772005568 active site residue [active] 522772005569 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 522772005570 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 522772005571 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 522772005572 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772005573 MULE transposase domain; Region: MULE; pfam10551 522772005574 thiosulfate reductase PhsA; Provisional; Region: PRK15488 522772005575 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 522772005576 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 522772005577 putative [Fe4-S4] binding site [ion binding]; other site 522772005578 putative molybdopterin cofactor binding site [chemical binding]; other site 522772005579 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 522772005580 putative molybdopterin cofactor binding site; other site 522772005581 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 522772005582 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 522772005583 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 522772005584 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 522772005585 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 522772005586 iron-sulfur cluster [ion binding]; other site 522772005587 [2Fe-2S] cluster binding site [ion binding]; other site 522772005588 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 522772005589 heme bH binding site [chemical binding]; other site 522772005590 Qi binding site; other site 522772005591 intrachain domain interface; other site 522772005592 heme bL binding site [chemical binding]; other site 522772005593 interchain domain interface [polypeptide binding]; other site 522772005594 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N_2; pfam13631 522772005595 Qo binding site; other site 522772005596 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 522772005597 Cysteine-rich domain; Region: CCG; pfam02754 522772005598 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 522772005599 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522772005600 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 522772005601 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 522772005602 DNA binding site [nucleotide binding] 522772005603 active site 522772005604 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 522772005605 EamA-like transporter family; Region: EamA; pfam00892 522772005606 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 522772005607 type I citrate synthase; Reviewed; Region: PRK09569 522772005608 citrate (Si)-synthase, eukaryotic; Region: cit_synth_euk; TIGR01793 522772005609 oxalacetate binding site [chemical binding]; other site 522772005610 citrylCoA binding site [chemical binding]; other site 522772005611 coenzyme A binding site [chemical binding]; other site 522772005612 catalytic triad [active] 522772005613 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 522772005614 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 522772005615 S-adenosylmethionine binding site [chemical binding]; other site 522772005616 RmuC family; Region: RmuC; pfam02646 522772005617 CobD/Cbib protein; Region: CobD_Cbib; cl00561 522772005618 Predicted permeases [General function prediction only]; Region: COG0679 522772005619 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 522772005620 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772005621 Walker A/P-loop; other site 522772005622 ATP binding site [chemical binding]; other site 522772005623 Q-loop/lid; other site 522772005624 ABC transporter signature motif; other site 522772005625 Walker B; other site 522772005626 D-loop; other site 522772005627 H-loop/switch region; other site 522772005628 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 522772005629 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 522772005630 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 522772005631 Peptidase family M23; Region: Peptidase_M23; pfam01551 522772005632 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 522772005633 C-terminal peptidase (prc); Region: prc; TIGR00225 522772005634 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 522772005635 protein binding site [polypeptide binding]; other site 522772005636 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 522772005637 Catalytic dyad [active] 522772005638 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 522772005639 NodB motif; other site 522772005640 putative active site [active] 522772005641 putative catalytic site [active] 522772005642 Zn binding site [ion binding]; other site 522772005643 UGMP family protein; Validated; Region: PRK09604 522772005644 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 522772005645 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 522772005646 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 522772005647 FMN binding site [chemical binding]; other site 522772005648 active site 522772005649 catalytic residues [active] 522772005650 substrate binding site [chemical binding]; other site 522772005651 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 522772005652 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 522772005653 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522772005654 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 522772005655 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 522772005656 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 522772005657 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 522772005658 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 522772005659 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 522772005660 RNA binding site [nucleotide binding]; other site 522772005661 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 522772005662 MarR family; Region: MarR_2; pfam12802 522772005663 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772005664 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772005665 metal binding site [ion binding]; metal-binding site 522772005666 active site 522772005667 I-site; other site 522772005668 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 522772005669 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 522772005670 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 522772005671 Catalytic dyad [active] 522772005672 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522772005673 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 522772005674 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 522772005675 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 522772005676 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 522772005677 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 522772005678 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 522772005679 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 522772005680 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 522772005681 carboxyltransferase (CT) interaction site; other site 522772005682 biotinylation site [posttranslational modification]; other site 522772005683 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 522772005684 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522772005685 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 522772005686 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 522772005687 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 522772005688 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 522772005689 active site 522772005690 catalytic tetrad [active] 522772005691 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 522772005692 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 522772005693 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 522772005694 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 522772005695 Tetramer interface [polypeptide binding]; other site 522772005696 active site 522772005697 FMN-binding site [chemical binding]; other site 522772005698 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 522772005699 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 522772005700 Moco binding site; other site 522772005701 metal coordination site [ion binding]; other site 522772005702 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 522772005703 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 522772005704 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 522772005705 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522772005706 metal-binding site [ion binding] 522772005707 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522772005708 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 522772005709 motif II; other site 522772005710 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 522772005711 Found in ATP-dependent protease La (LON); Region: LON; smart00464 522772005712 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772005713 Walker A motif; other site 522772005714 ATP binding site [chemical binding]; other site 522772005715 Walker B motif; other site 522772005716 arginine finger; other site 522772005717 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 522772005718 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 522772005719 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 522772005720 putative dimer interface [polypeptide binding]; other site 522772005721 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 522772005722 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 522772005723 active site 522772005724 tetramer interface; other site 522772005725 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 522772005726 putative ligand binding pocket/active site [active] 522772005727 putative metal binding site [ion binding]; other site 522772005728 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 522772005729 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 522772005730 FeS/SAM binding site; other site 522772005731 Response regulator receiver domain; Region: Response_reg; pfam00072 522772005732 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 522772005733 active site 522772005734 phosphorylation site [posttranslational modification] 522772005735 intermolecular recognition site; other site 522772005736 dimerization interface [polypeptide binding]; other site 522772005737 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772005738 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772005739 metal binding site [ion binding]; metal-binding site 522772005740 active site 522772005741 I-site; other site 522772005742 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 522772005743 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 522772005744 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 522772005745 dimer interface [polypeptide binding]; other site 522772005746 putative functional site; other site 522772005747 putative MPT binding site; other site 522772005748 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 522772005749 putative MPT binding site; other site 522772005750 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 522772005751 active site residue [active] 522772005752 Bifunctional nuclease; Region: DNase-RNase; cl00553 522772005753 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 522772005754 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 522772005755 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 522772005756 FeS/SAM binding site; other site 522772005757 TRAM domain; Region: TRAM; pfam01938 522772005758 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 522772005759 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 522772005760 putative active site [active] 522772005761 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 522772005762 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 522772005763 NADP binding site [chemical binding]; other site 522772005764 homopentamer interface [polypeptide binding]; other site 522772005765 substrate binding site [chemical binding]; other site 522772005766 active site 522772005767 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 522772005768 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 522772005769 putative ribose interaction site [chemical binding]; other site 522772005770 putative ADP binding site [chemical binding]; other site 522772005771 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 522772005772 active site 522772005773 HIGH motif; other site 522772005774 nucleotide binding site [chemical binding]; other site 522772005775 Tetratricopeptide repeat; Region: TPR_16; pfam13432 522772005776 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 522772005777 FAD binding domain; Region: FAD_binding_4; pfam01565 522772005778 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 522772005779 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 522772005780 Cysteine-rich domain; Region: CCG; pfam02754 522772005781 Cysteine-rich domain; Region: CCG; pfam02754 522772005782 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 522772005783 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 522772005784 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 522772005785 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 522772005786 S-adenosylmethionine binding site [chemical binding]; other site 522772005787 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 522772005788 active site 522772005789 catalytic site [active] 522772005790 substrate binding site [chemical binding]; other site 522772005791 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 522772005792 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 522772005793 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 522772005794 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 522772005795 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 522772005796 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 522772005797 OstA-like protein; Region: OstA; cl00844 522772005798 Organic solvent tolerance protein; Region: OstA_C; pfam04453 522772005799 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 522772005800 DHH family; Region: DHH; pfam01368 522772005801 DHHA1 domain; Region: DHHA1; pfam02272 522772005802 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 522772005803 Rubredoxin; Region: Rubredoxin; pfam00301 522772005804 iron binding site [ion binding]; other site 522772005805 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 522772005806 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 522772005807 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 522772005808 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772005809 MULE transposase domain; Region: MULE; pfam10551 522772005810 Transposase; Region: HTH_Tnp_1; cl17663 522772005811 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 522772005812 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 522772005813 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 522772005814 HD domain; Region: HD_3; pfam13023 522772005815 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 522772005816 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 522772005817 acyl-activating enzyme (AAE) consensus motif; other site 522772005818 AMP binding site [chemical binding]; other site 522772005819 active site 522772005820 CoA binding site [chemical binding]; other site 522772005821 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 522772005822 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 522772005823 Walker A/P-loop; other site 522772005824 ATP binding site [chemical binding]; other site 522772005825 Q-loop/lid; other site 522772005826 ABC transporter signature motif; other site 522772005827 Walker B; other site 522772005828 D-loop; other site 522772005829 H-loop/switch region; other site 522772005830 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 522772005831 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 522772005832 Walker A/P-loop; other site 522772005833 ATP binding site [chemical binding]; other site 522772005834 Q-loop/lid; other site 522772005835 ABC transporter signature motif; other site 522772005836 Walker B; other site 522772005837 D-loop; other site 522772005838 H-loop/switch region; other site 522772005839 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 522772005840 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 522772005841 TM-ABC transporter signature motif; other site 522772005842 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 522772005843 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 522772005844 TM-ABC transporter signature motif; other site 522772005845 ACT domain-containing protein [General function prediction only]; Region: COG4747 522772005846 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 522772005847 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 522772005848 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 522772005849 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 522772005850 acyl-activating enzyme (AAE) consensus motif; other site 522772005851 AMP binding site [chemical binding]; other site 522772005852 active site 522772005853 CoA binding site [chemical binding]; other site 522772005854 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 522772005855 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 522772005856 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 522772005857 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 522772005858 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 522772005859 Ligand binding site; other site 522772005860 Putative Catalytic site; other site 522772005861 DXD motif; other site 522772005862 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 522772005863 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 522772005864 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 522772005865 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]; Region: COG3357 522772005866 Oligomerisation domain; Region: Oligomerisation; pfam02410 522772005867 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 522772005868 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 522772005869 active site 522772005870 (T/H)XGH motif; other site 522772005871 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 522772005872 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 522772005873 putative catalytic cysteine [active] 522772005874 gamma-glutamyl kinase; Provisional; Region: PRK05429 522772005875 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 522772005876 nucleotide binding site [chemical binding]; other site 522772005877 homotetrameric interface [polypeptide binding]; other site 522772005878 putative phosphate binding site [ion binding]; other site 522772005879 putative allosteric binding site; other site 522772005880 PUA domain; Region: PUA; pfam01472 522772005881 Rrf2 family protein; Region: rrf2_super; TIGR00738 522772005882 Transcriptional regulator; Region: Rrf2; pfam02082 522772005883 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 522772005884 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 522772005885 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 522772005886 active site 522772005887 dimer interface [polypeptide binding]; other site 522772005888 effector binding site; other site 522772005889 TSCPD domain; Region: TSCPD; pfam12637 522772005890 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 522772005891 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522772005892 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 522772005893 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 522772005894 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 522772005895 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 522772005896 putative active site [active] 522772005897 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 522772005898 Peptidase family M23; Region: Peptidase_M23; pfam01551 522772005899 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 522772005900 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 522772005901 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 522772005902 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 522772005903 Walker A/P-loop; other site 522772005904 ATP binding site [chemical binding]; other site 522772005905 Q-loop/lid; other site 522772005906 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 522772005907 ABC transporter signature motif; other site 522772005908 Walker B; other site 522772005909 D-loop; other site 522772005910 H-loop/switch region; other site 522772005911 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 522772005912 ATP-NAD kinase; Region: NAD_kinase; pfam01513 522772005913 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 522772005914 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 522772005915 RNA binding surface [nucleotide binding]; other site 522772005916 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 522772005917 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 522772005918 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 522772005919 TPP-binding site; other site 522772005920 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 522772005921 PYR/PP interface [polypeptide binding]; other site 522772005922 dimer interface [polypeptide binding]; other site 522772005923 TPP binding site [chemical binding]; other site 522772005924 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 522772005925 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 522772005926 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 522772005927 substrate binding pocket [chemical binding]; other site 522772005928 chain length determination region; other site 522772005929 substrate-Mg2+ binding site; other site 522772005930 catalytic residues [active] 522772005931 aspartate-rich region 1; other site 522772005932 active site lid residues [active] 522772005933 aspartate-rich region 2; other site 522772005934 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 522772005935 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 522772005936 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 522772005937 FeS/SAM binding site; other site 522772005938 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 522772005939 anti sigma factor interaction site; other site 522772005940 regulatory phosphorylation site [posttranslational modification]; other site 522772005941 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 522772005942 anti sigma factor interaction site; other site 522772005943 regulatory phosphorylation site [posttranslational modification]; other site 522772005944 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 522772005945 Flagellar protein YcgR; Region: YcgR_2; pfam12945 522772005946 PilZ domain; Region: PilZ; pfam07238 522772005947 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522772005948 active site 522772005949 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 522772005950 active site 522772005951 dimer interface [polypeptide binding]; other site 522772005952 ferredoxin; Validated; Region: PRK07118 522772005953 Putative Fe-S cluster; Region: FeS; cl17515 522772005954 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 522772005955 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 522772005956 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 522772005957 electron transport complex RsxE subunit; Provisional; Region: PRK12405 522772005958 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 522772005959 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 522772005960 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 522772005961 SLBB domain; Region: SLBB; pfam10531 522772005962 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 522772005963 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 522772005964 catalytic motif [active] 522772005965 Zn binding site [ion binding]; other site 522772005966 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 522772005967 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 522772005968 dimer interface [polypeptide binding]; other site 522772005969 active site 522772005970 glycine-pyridoxal phosphate binding site [chemical binding]; other site 522772005971 folate binding site [chemical binding]; other site 522772005972 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 522772005973 Quinolinate synthetase A protein; Region: NadA; pfam02445 522772005974 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 522772005975 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 522772005976 putative active site [active] 522772005977 metal binding site [ion binding]; metal-binding site 522772005978 homodimer binding site [polypeptide binding]; other site 522772005979 phosphodiesterase; Provisional; Region: PRK12704 522772005980 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772005981 Zn2+ binding site [ion binding]; other site 522772005982 Mg2+ binding site [ion binding]; other site 522772005983 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 522772005984 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 522772005985 recombination factor protein RarA; Reviewed; Region: PRK13342 522772005986 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772005987 Walker A motif; other site 522772005988 ATP binding site [chemical binding]; other site 522772005989 Walker B motif; other site 522772005990 arginine finger; other site 522772005991 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 522772005992 Cell division protein ZapA; Region: ZapA; pfam05164 522772005993 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 522772005994 TPR motif; other site 522772005995 binding surface 522772005996 TPR repeat; Region: TPR_11; pfam13414 522772005997 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 522772005998 binding surface 522772005999 TPR motif; other site 522772006000 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 522772006001 TPR repeat; Region: TPR_11; pfam13414 522772006002 binding surface 522772006003 TPR motif; other site 522772006004 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 522772006005 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 522772006006 FeS/SAM binding site; other site 522772006007 membrane ATPase/protein kinase; Provisional; Region: PRK09435 522772006008 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 522772006009 Walker A; other site 522772006010 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 522772006011 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 522772006012 active site 522772006013 substrate binding site [chemical binding]; other site 522772006014 coenzyme B12 binding site [chemical binding]; other site 522772006015 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 522772006016 B12 binding site [chemical binding]; other site 522772006017 cobalt ligand [ion binding]; other site 522772006018 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 522772006019 carboxyltransferase (CT) interaction site; other site 522772006020 biotinylation site [posttranslational modification]; other site 522772006021 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 522772006022 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 522772006023 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 522772006024 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 522772006025 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 522772006026 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 522772006027 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 522772006028 futalosine nucleosidase; Region: fut_nucase; TIGR03664 522772006029 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 522772006030 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 522772006031 FeS/SAM binding site; other site 522772006032 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 522772006033 FAD binding site [chemical binding]; other site 522772006034 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 522772006035 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 522772006036 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522772006037 catalytic residue [active] 522772006038 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 522772006039 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 522772006040 active site 522772006041 NAD binding site [chemical binding]; other site 522772006042 metal binding site [ion binding]; metal-binding site 522772006043 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 522772006044 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 522772006045 homodimer interface [polypeptide binding]; other site 522772006046 substrate-cofactor binding pocket; other site 522772006047 catalytic residue [active] 522772006048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 522772006049 TrkA-C domain; Region: TrkA_C; pfam02080 522772006050 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 522772006051 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 522772006052 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 522772006053 Mechanosensitive ion channel; Region: MS_channel; pfam00924 522772006054 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 522772006055 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 522772006056 Na2 binding site [ion binding]; other site 522772006057 putative substrate binding site 1 [chemical binding]; other site 522772006058 Na binding site 1 [ion binding]; other site 522772006059 putative substrate binding site 2 [chemical binding]; other site 522772006060 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 522772006061 putative FMN binding site [chemical binding]; other site 522772006062 Predicted transcriptional regulators [Transcription]; Region: COG1733 522772006063 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 522772006064 Uncharacterized conserved protein [Function unknown]; Region: COG1284 522772006065 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 522772006066 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 522772006067 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 522772006068 DNA binding residues [nucleotide binding] 522772006069 dimer interface [polypeptide binding]; other site 522772006070 putative metal binding site [ion binding]; other site 522772006071 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 522772006072 Heavy-metal-associated domain; Region: HMA; pfam00403 522772006073 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522772006074 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522772006075 Soluble P-type ATPase [General function prediction only]; Region: COG4087 522772006076 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 522772006077 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 522772006078 DNA binding residues [nucleotide binding] 522772006079 dimer interface [polypeptide binding]; other site 522772006080 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 522772006081 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 522772006082 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 522772006083 outer membrane porin, OprD family; Region: OprD; pfam03573 522772006084 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 522772006085 Uncharacterized conserved protein [Function unknown]; Region: COG1633 522772006086 dinuclear metal binding motif [ion binding]; other site 522772006087 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 522772006088 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 522772006089 active site 522772006090 homotetramer interface [polypeptide binding]; other site 522772006091 homodimer interface [polypeptide binding]; other site 522772006092 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 522772006093 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 522772006094 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 522772006095 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 522772006096 active site 522772006097 dimer interface [polypeptide binding]; other site 522772006098 motif 1; other site 522772006099 motif 2; other site 522772006100 motif 3; other site 522772006101 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 522772006102 anticodon binding site; other site 522772006103 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 522772006104 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 522772006105 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 522772006106 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 522772006107 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 522772006108 23S rRNA binding site [nucleotide binding]; other site 522772006109 L21 binding site [polypeptide binding]; other site 522772006110 L13 binding site [polypeptide binding]; other site 522772006111 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 522772006112 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 522772006113 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 522772006114 dimer interface [polypeptide binding]; other site 522772006115 motif 1; other site 522772006116 active site 522772006117 motif 2; other site 522772006118 motif 3; other site 522772006119 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 522772006120 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 522772006121 putative tRNA-binding site [nucleotide binding]; other site 522772006122 B3/4 domain; Region: B3_4; pfam03483 522772006123 tRNA synthetase B5 domain; Region: B5; smart00874 522772006124 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 522772006125 dimer interface [polypeptide binding]; other site 522772006126 motif 1; other site 522772006127 motif 3; other site 522772006128 motif 2; other site 522772006129 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 522772006130 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 522772006131 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 522772006132 FtsX-like permease family; Region: FtsX; pfam02687 522772006133 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522772006134 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 522772006135 Walker A/P-loop; other site 522772006136 ATP binding site [chemical binding]; other site 522772006137 Q-loop/lid; other site 522772006138 ABC transporter signature motif; other site 522772006139 Walker B; other site 522772006140 D-loop; other site 522772006141 H-loop/switch region; other site 522772006142 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772006143 dimer interface [polypeptide binding]; other site 522772006144 phosphorylation site [posttranslational modification] 522772006145 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 522772006146 ATP binding site [chemical binding]; other site 522772006147 Mg2+ binding site [ion binding]; other site 522772006148 G-X-G motif; other site 522772006149 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772006150 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 522772006151 active site 522772006152 phosphorylation site [posttranslational modification] 522772006153 intermolecular recognition site; other site 522772006154 dimerization interface [polypeptide binding]; other site 522772006155 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772006156 Walker A motif; other site 522772006157 ATP binding site [chemical binding]; other site 522772006158 Walker B motif; other site 522772006159 arginine finger; other site 522772006160 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 522772006161 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 522772006162 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 522772006163 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 522772006164 protein binding site [polypeptide binding]; other site 522772006165 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 522772006166 protein binding site [polypeptide binding]; other site 522772006167 Putative zinc-finger; Region: zf-HC2; pfam13490 522772006168 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 522772006169 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522772006170 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 522772006171 DNA binding residues [nucleotide binding] 522772006172 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 522772006173 cleavage site 522772006174 active site 522772006175 substrate binding sites [chemical binding]; other site 522772006176 SurA N-terminal domain; Region: SurA_N_3; cl07813 522772006177 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 522772006178 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 522772006179 HsdM N-terminal domain; Region: HsdM_N; pfam12161 522772006180 Virulence protein [General function prediction only]; Region: COG3943 522772006181 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 522772006182 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 522772006183 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522772006184 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522772006185 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 522772006186 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 522772006187 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 522772006188 ATP binding site [chemical binding]; other site 522772006189 putative Mg++ binding site [ion binding]; other site 522772006190 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 522772006191 Transposase; Region: DDE_Tnp_ISL3; pfam01610 522772006192 amidophosphoribosyltransferase; Provisional; Region: PRK09123 522772006193 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 522772006194 active site 522772006195 tetramer interface [polypeptide binding]; other site 522772006196 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522772006197 active site 522772006198 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 522772006199 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 522772006200 dimerization interface [polypeptide binding]; other site 522772006201 ATP binding site [chemical binding]; other site 522772006202 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 522772006203 dimerization interface [polypeptide binding]; other site 522772006204 ATP binding site [chemical binding]; other site 522772006205 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 522772006206 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 522772006207 putative active site [active] 522772006208 catalytic triad [active] 522772006209 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 522772006210 Response regulator receiver domain; Region: Response_reg; pfam00072 522772006211 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 522772006212 active site 522772006213 phosphorylation site [posttranslational modification] 522772006214 intermolecular recognition site; other site 522772006215 dimerization interface [polypeptide binding]; other site 522772006216 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 522772006217 Chemotaxis phosphatase CheX; Region: CheX; cl15816 522772006218 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 522772006219 PAS domain; Region: PAS_9; pfam13426 522772006220 putative active site [active] 522772006221 heme pocket [chemical binding]; other site 522772006222 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772006223 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772006224 metal binding site [ion binding]; metal-binding site 522772006225 active site 522772006226 I-site; other site 522772006227 Peptidase family M23; Region: Peptidase_M23; pfam01551 522772006228 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 522772006229 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 522772006230 TPP-binding site [chemical binding]; other site 522772006231 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 522772006232 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 522772006233 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 522772006234 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 522772006235 dimer interface [polypeptide binding]; other site 522772006236 PYR/PP interface [polypeptide binding]; other site 522772006237 TPP binding site [chemical binding]; other site 522772006238 substrate binding site [chemical binding]; other site 522772006239 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 522772006240 AMMECR1; Region: AMMECR1; pfam01871 522772006241 succinate dehydrogenase, cytochrome b556 subunit; Region: succ_dehyd_cytB; TIGR02970 522772006242 Iron-sulfur protein interface; other site 522772006243 proximal heme binding site [chemical binding]; other site 522772006244 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 522772006245 Iron-sulfur protein interface; other site 522772006246 proximal heme binding site [chemical binding]; other site 522772006247 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 522772006248 L-aspartate oxidase; Provisional; Region: PRK06175 522772006249 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 522772006250 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 522772006251 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 522772006252 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 522772006253 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 522772006254 putative active site [active] 522772006255 putative metal binding site [ion binding]; other site 522772006256 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 522772006257 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 522772006258 Predicted permeases [General function prediction only]; Region: RarD; COG2962 522772006259 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 522772006260 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 522772006261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522772006262 NAD(P) binding site [chemical binding]; other site 522772006263 active site 522772006264 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 522772006265 active site 1 [active] 522772006266 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 522772006267 active site 2 [active] 522772006268 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 522772006269 Response regulator receiver domain; Region: Response_reg; pfam00072 522772006270 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 522772006271 active site 522772006272 phosphorylation site [posttranslational modification] 522772006273 intermolecular recognition site; other site 522772006274 dimerization interface [polypeptide binding]; other site 522772006275 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 522772006276 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 522772006277 PAS domain; Region: PAS_9; pfam13426 522772006278 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772006279 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 522772006280 ATP binding site [chemical binding]; other site 522772006281 Mg2+ binding site [ion binding]; other site 522772006282 G-X-G motif; other site 522772006283 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 522772006284 Cache domain; Region: Cache_2; cl07034 522772006285 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 522772006286 PAS domain; Region: PAS_9; pfam13426 522772006287 putative active site [active] 522772006288 heme pocket [chemical binding]; other site 522772006289 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772006290 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772006291 metal binding site [ion binding]; metal-binding site 522772006292 active site 522772006293 I-site; other site 522772006294 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 522772006295 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 522772006296 dimer interface [polypeptide binding]; other site 522772006297 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 522772006298 ligand binding site [chemical binding]; other site 522772006299 Cytochrome P450; Region: p450; cl12078 522772006300 PAS domain S-box; Region: sensory_box; TIGR00229 522772006301 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 522772006302 putative active site [active] 522772006303 heme pocket [chemical binding]; other site 522772006304 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772006305 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 522772006306 dimer interface [polypeptide binding]; other site 522772006307 phosphorylation site [posttranslational modification] 522772006308 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 522772006309 ATP binding site [chemical binding]; other site 522772006310 Mg2+ binding site [ion binding]; other site 522772006311 G-X-G motif; other site 522772006312 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 522772006313 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 522772006314 catalytic loop [active] 522772006315 iron binding site [ion binding]; other site 522772006316 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 522772006317 FAD binding pocket [chemical binding]; other site 522772006318 FAD binding motif [chemical binding]; other site 522772006319 phosphate binding motif [ion binding]; other site 522772006320 beta-alpha-beta structure motif; other site 522772006321 NAD binding pocket [chemical binding]; other site 522772006322 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 522772006323 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 522772006324 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 522772006325 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 522772006326 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 522772006327 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 522772006328 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 522772006329 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 522772006330 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 522772006331 EamA-like transporter family; Region: EamA; pfam00892 522772006332 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 522772006333 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772006334 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 522772006335 Walker A/P-loop; other site 522772006336 ATP binding site [chemical binding]; other site 522772006337 Q-loop/lid; other site 522772006338 ABC transporter signature motif; other site 522772006339 Walker B; other site 522772006340 D-loop; other site 522772006341 H-loop/switch region; other site 522772006342 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 522772006343 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 522772006344 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 522772006345 aconitate hydratase; Validated; Region: PRK09277 522772006346 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 522772006347 substrate binding site [chemical binding]; other site 522772006348 ligand binding site [chemical binding]; other site 522772006349 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 522772006350 substrate binding site [chemical binding]; other site 522772006351 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 522772006352 putative hydrophobic ligand binding site [chemical binding]; other site 522772006353 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 522772006354 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 522772006355 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772006356 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772006357 metal binding site [ion binding]; metal-binding site 522772006358 active site 522772006359 I-site; other site 522772006360 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 522772006361 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 522772006362 DRTGG domain; Region: DRTGG; pfam07085 522772006363 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 522772006364 DHH family; Region: DHH; pfam01368 522772006365 DHHA2 domain; Region: DHHA2; pfam02833 522772006366 peroxiredoxin; Provisional; Region: PRK13189 522772006367 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 522772006368 dimer interface [polypeptide binding]; other site 522772006369 decamer (pentamer of dimers) interface [polypeptide binding]; other site 522772006370 catalytic triad [active] 522772006371 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 522772006372 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522772006373 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 522772006374 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 522772006375 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 522772006376 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 522772006377 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772006378 dimer interface [polypeptide binding]; other site 522772006379 conserved gate region; other site 522772006380 putative PBP binding loops; other site 522772006381 ABC-ATPase subunit interface; other site 522772006382 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 522772006383 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 522772006384 Walker A/P-loop; other site 522772006385 ATP binding site [chemical binding]; other site 522772006386 Q-loop/lid; other site 522772006387 ABC transporter signature motif; other site 522772006388 Walker B; other site 522772006389 D-loop; other site 522772006390 H-loop/switch region; other site 522772006391 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 522772006392 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 522772006393 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 522772006394 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 522772006395 FMN binding site [chemical binding]; other site 522772006396 substrate binding site [chemical binding]; other site 522772006397 putative catalytic residue [active] 522772006398 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 522772006399 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 522772006400 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 522772006401 Coenzyme A binding pocket [chemical binding]; other site 522772006402 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 522772006403 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 522772006404 active site 522772006405 phosphorylation site [posttranslational modification] 522772006406 intermolecular recognition site; other site 522772006407 dimerization interface [polypeptide binding]; other site 522772006408 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 522772006409 DNA binding site [nucleotide binding] 522772006410 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772006411 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772006412 dimerization interface [polypeptide binding]; other site 522772006413 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772006414 dimer interface [polypeptide binding]; other site 522772006415 phosphorylation site [posttranslational modification] 522772006416 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 522772006417 ATP binding site [chemical binding]; other site 522772006418 Mg2+ binding site [ion binding]; other site 522772006419 G-X-G motif; other site 522772006420 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 522772006421 EF-hand domain pair; Region: EF_hand_5; pfam13499 522772006422 Ca2+ binding site [ion binding]; other site 522772006423 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 522772006424 GIY-YIG motif/motif A; other site 522772006425 putative active site [active] 522772006426 putative metal binding site [ion binding]; other site 522772006427 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 522772006428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522772006429 NAD(P) binding site [chemical binding]; other site 522772006430 active site 522772006431 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 522772006432 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 522772006433 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 522772006434 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 522772006435 G1 box; other site 522772006436 putative GEF interaction site [polypeptide binding]; other site 522772006437 GTP/Mg2+ binding site [chemical binding]; other site 522772006438 Switch I region; other site 522772006439 G2 box; other site 522772006440 G3 box; other site 522772006441 Switch II region; other site 522772006442 G4 box; other site 522772006443 G5 box; other site 522772006444 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 522772006445 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 522772006446 Cupin domain; Region: Cupin_2; pfam07883 522772006447 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 522772006448 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 522772006449 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 522772006450 DctM-like transporters; Region: DctM; pfam06808 522772006451 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 522772006452 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 522772006453 FeS/SAM binding site; other site 522772006454 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772006455 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772006456 dimerization interface [polypeptide binding]; other site 522772006457 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772006458 dimer interface [polypeptide binding]; other site 522772006459 phosphorylation site [posttranslational modification] 522772006460 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 522772006461 ATP binding site [chemical binding]; other site 522772006462 Mg2+ binding site [ion binding]; other site 522772006463 G-X-G motif; other site 522772006464 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 522772006465 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 522772006466 active site 522772006467 phosphorylation site [posttranslational modification] 522772006468 intermolecular recognition site; other site 522772006469 dimerization interface [polypeptide binding]; other site 522772006470 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 522772006471 DNA binding site [nucleotide binding] 522772006472 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 522772006473 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 522772006474 membrane-bound complex binding site; other site 522772006475 hinge residues; other site 522772006476 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772006477 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772006478 dimer interface [polypeptide binding]; other site 522772006479 phosphorylation site [posttranslational modification] 522772006480 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 522772006481 ATP binding site [chemical binding]; other site 522772006482 Mg2+ binding site [ion binding]; other site 522772006483 G-X-G motif; other site 522772006484 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 522772006485 Response regulator receiver domain; Region: Response_reg; pfam00072 522772006486 active site 522772006487 phosphorylation site [posttranslational modification] 522772006488 intermolecular recognition site; other site 522772006489 dimerization interface [polypeptide binding]; other site 522772006490 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 522772006491 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 522772006492 active site 522772006493 phosphorylation site [posttranslational modification] 522772006494 intermolecular recognition site; other site 522772006495 dimerization interface [polypeptide binding]; other site 522772006496 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 522772006497 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 522772006498 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 522772006499 active site 522772006500 phosphorylation site [posttranslational modification] 522772006501 intermolecular recognition site; other site 522772006502 dimerization interface [polypeptide binding]; other site 522772006503 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 522772006504 PAS domain; Region: PAS_9; pfam13426 522772006505 putative active site [active] 522772006506 heme pocket [chemical binding]; other site 522772006507 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772006508 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 522772006509 dimer interface [polypeptide binding]; other site 522772006510 phosphorylation site [posttranslational modification] 522772006511 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 522772006512 ATP binding site [chemical binding]; other site 522772006513 Mg2+ binding site [ion binding]; other site 522772006514 G-X-G motif; other site 522772006515 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 522772006516 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 522772006517 putative metal binding site [ion binding]; other site 522772006518 dimer interface [polypeptide binding]; other site 522772006519 allantoate amidohydrolase; Reviewed; Region: PRK09290 522772006520 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 522772006521 active site 522772006522 metal binding site [ion binding]; metal-binding site 522772006523 dimer interface [polypeptide binding]; other site 522772006524 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 522772006525 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 522772006526 Aspartase; Region: Aspartase; cd01357 522772006527 active sites [active] 522772006528 tetramer interface [polypeptide binding]; other site 522772006529 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772006530 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 522772006531 active site 522772006532 phosphorylation site [posttranslational modification] 522772006533 intermolecular recognition site; other site 522772006534 dimerization interface [polypeptide binding]; other site 522772006535 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772006536 Walker A motif; other site 522772006537 ATP binding site [chemical binding]; other site 522772006538 Walker B motif; other site 522772006539 arginine finger; other site 522772006540 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 522772006541 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 522772006542 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 522772006543 substrate binding pocket [chemical binding]; other site 522772006544 membrane-bound complex binding site; other site 522772006545 hinge residues; other site 522772006546 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 522772006547 dimer interface [polypeptide binding]; other site 522772006548 phosphorylation site [posttranslational modification] 522772006549 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 522772006550 ATP binding site [chemical binding]; other site 522772006551 Mg2+ binding site [ion binding]; other site 522772006552 G-X-G motif; other site 522772006553 PAS domain S-box; Region: sensory_box; TIGR00229 522772006554 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 522772006555 putative active site [active] 522772006556 heme pocket [chemical binding]; other site 522772006557 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 522772006558 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 522772006559 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 522772006560 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 522772006561 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 522772006562 [4Fe-4S] binding site [ion binding]; other site 522772006563 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772006564 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772006565 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772006566 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 522772006567 molybdopterin cofactor binding site; other site 522772006568 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 522772006569 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 522772006570 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 522772006571 N-terminal plug; other site 522772006572 ligand-binding site [chemical binding]; other site 522772006573 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 522772006574 S-adenosylmethionine binding site [chemical binding]; other site 522772006575 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 522772006576 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 522772006577 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 522772006578 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522772006579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772006580 Walker A/P-loop; other site 522772006581 ATP binding site [chemical binding]; other site 522772006582 Q-loop/lid; other site 522772006583 ABC transporter signature motif; other site 522772006584 Walker B; other site 522772006585 D-loop; other site 522772006586 H-loop/switch region; other site 522772006587 Helix-turn-helix domain; Region: HTH_18; pfam12833 522772006588 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 522772006589 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 522772006590 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772006591 dimer interface [polypeptide binding]; other site 522772006592 conserved gate region; other site 522772006593 ABC-ATPase subunit interface; other site 522772006594 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 522772006595 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 522772006596 Walker A/P-loop; other site 522772006597 ATP binding site [chemical binding]; other site 522772006598 Q-loop/lid; other site 522772006599 ABC transporter signature motif; other site 522772006600 Walker B; other site 522772006601 D-loop; other site 522772006602 H-loop/switch region; other site 522772006603 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 522772006604 putative inner membrane protein; Provisional; Region: PRK11099 522772006605 Sulphur transport; Region: Sulf_transp; pfam04143 522772006606 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 522772006607 active site residue [active] 522772006608 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 522772006609 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 522772006610 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522772006611 catalytic residue [active] 522772006612 Transcriptional regulators [Transcription]; Region: FadR; COG2186 522772006613 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522772006614 DNA-binding site [nucleotide binding]; DNA binding site 522772006615 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 522772006616 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 522772006617 Putative esterase; Region: Esterase; pfam00756 522772006618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 522772006619 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 522772006620 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 522772006621 ligand binding site [chemical binding]; other site 522772006622 flexible hinge region; other site 522772006623 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 522772006624 non-specific DNA interactions [nucleotide binding]; other site 522772006625 DNA binding site [nucleotide binding] 522772006626 sequence specific DNA binding site [nucleotide binding]; other site 522772006627 putative cAMP binding site [chemical binding]; other site 522772006628 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 522772006629 L-aspartate oxidase; Provisional; Region: PRK06175 522772006630 outer membrane porin, OprD family; Region: OprD; pfam03573 522772006631 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 522772006632 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522772006633 putative substrate translocation pore; other site 522772006634 H+ Antiporter protein; Region: 2A0121; TIGR00900 522772006635 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 522772006636 putative substrate translocation pore; other site 522772006637 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772006638 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 522772006639 MarR family; Region: MarR; pfam01047 522772006640 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 522772006641 Predicted transcriptional regulators [Transcription]; Region: COG1733 522772006642 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 522772006643 outer membrane porin, OprD family; Region: OprD; pfam03573 522772006644 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 522772006645 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 522772006646 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 522772006647 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772006648 molybdopterin cofactor binding site; other site 522772006649 Molydopterin dinucleotide binding domain; Region: Molydop_binding; pfam01568 522772006650 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 522772006651 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522772006652 DNA-binding site [nucleotide binding]; DNA binding site 522772006653 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 522772006654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772006655 homodimer interface [polypeptide binding]; other site 522772006656 catalytic residue [active] 522772006657 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 522772006658 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522772006659 DNA-binding site [nucleotide binding]; DNA binding site 522772006660 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 522772006661 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 522772006662 Phosphotransferase enzyme family; Region: APH; pfam01636 522772006663 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 522772006664 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 522772006665 Walker A/P-loop; other site 522772006666 ATP binding site [chemical binding]; other site 522772006667 Q-loop/lid; other site 522772006668 ABC transporter signature motif; other site 522772006669 Walker B; other site 522772006670 D-loop; other site 522772006671 H-loop/switch region; other site 522772006672 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 522772006673 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 522772006674 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 522772006675 TM-ABC transporter signature motif; other site 522772006676 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 522772006677 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 522772006678 putative ligand binding site [chemical binding]; other site 522772006679 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 522772006680 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 522772006681 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 522772006682 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 522772006683 active site 522772006684 intersubunit interface [polypeptide binding]; other site 522772006685 Zn2+ binding site [ion binding]; other site 522772006686 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 522772006687 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 522772006688 active site 522772006689 catalytic tetrad [active] 522772006690 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 522772006691 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 522772006692 Low molecular weight phosphatase family; Region: LMWPc; cd00115 522772006693 active site 522772006694 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 522772006695 arsenical-resistance protein; Region: acr3; TIGR00832 522772006696 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 522772006697 dimerization interface [polypeptide binding]; other site 522772006698 putative DNA binding site [nucleotide binding]; other site 522772006699 putative Zn2+ binding site [ion binding]; other site 522772006700 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 522772006701 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772006702 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772006703 dimer interface [polypeptide binding]; other site 522772006704 phosphorylation site [posttranslational modification] 522772006705 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 522772006706 ATP binding site [chemical binding]; other site 522772006707 Mg2+ binding site [ion binding]; other site 522772006708 G-X-G motif; other site 522772006709 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772006710 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 522772006711 active site 522772006712 phosphorylation site [posttranslational modification] 522772006713 intermolecular recognition site; other site 522772006714 dimerization interface [polypeptide binding]; other site 522772006715 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772006716 Walker A motif; other site 522772006717 ATP binding site [chemical binding]; other site 522772006718 Walker B motif; other site 522772006719 arginine finger; other site 522772006720 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 522772006721 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 522772006722 This CD includes the respiratory arsenate reductase, As(V), catalytic subunit (ArrA) and other related proteins. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_Arsenate-R; cd02757 522772006723 putative [Fe4-S4] binding site [ion binding]; other site 522772006724 putative molybdopterin cofactor binding site [chemical binding]; other site 522772006725 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 522772006726 putative molybdopterin cofactor binding site; other site 522772006727 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 522772006728 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 522772006729 Uncharacterized conserved protein [Function unknown]; Region: COG3379 522772006730 Sulfatase; Region: Sulfatase; cl17466 522772006731 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 522772006732 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 522772006733 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 522772006734 catalytic residues [active] 522772006735 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 522772006736 Uncharacterized conserved protein [Function unknown]; Region: COG2966 522772006737 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 522772006738 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522772006739 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522772006740 Soluble P-type ATPase [General function prediction only]; Region: COG4087 522772006741 complex II; Region: PLN02720 522772006742 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 522772006743 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 522772006744 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 522772006745 Soluble P-type ATPase [General function prediction only]; Region: COG4087 522772006746 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 522772006747 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 522772006748 FMN binding site [chemical binding]; other site 522772006749 dimer interface [polypeptide binding]; other site 522772006750 hypothetical protein; Provisional; Region: PRK13795 522772006751 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 522772006752 metal binding site 2 [ion binding]; metal-binding site 522772006753 putative DNA binding helix; other site 522772006754 metal binding site 1 [ion binding]; metal-binding site 522772006755 dimer interface [polypeptide binding]; other site 522772006756 structural Zn2+ binding site [ion binding]; other site 522772006757 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 522772006758 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 522772006759 intersubunit interface [polypeptide binding]; other site 522772006760 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 522772006761 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 522772006762 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 522772006763 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 522772006764 dimer interface [polypeptide binding]; other site 522772006765 putative PBP binding regions; other site 522772006766 ABC-ATPase subunit interface; other site 522772006767 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 522772006768 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 522772006769 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 522772006770 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 522772006771 putative ligand binding site [chemical binding]; other site 522772006772 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 522772006773 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 522772006774 Walker A/P-loop; other site 522772006775 ATP binding site [chemical binding]; other site 522772006776 Q-loop/lid; other site 522772006777 ABC transporter signature motif; other site 522772006778 Walker B; other site 522772006779 D-loop; other site 522772006780 H-loop/switch region; other site 522772006781 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 522772006782 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 522772006783 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 522772006784 TM-ABC transporter signature motif; other site 522772006785 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 522772006786 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 522772006787 TM-ABC transporter signature motif; other site 522772006788 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522772006789 active site 522772006790 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 522772006791 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 522772006792 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 522772006793 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 522772006794 Walker A/P-loop; other site 522772006795 ATP binding site [chemical binding]; other site 522772006796 Q-loop/lid; other site 522772006797 ABC transporter signature motif; other site 522772006798 Walker B; other site 522772006799 D-loop; other site 522772006800 H-loop/switch region; other site 522772006801 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 522772006802 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772006803 dimer interface [polypeptide binding]; other site 522772006804 conserved gate region; other site 522772006805 putative PBP binding loops; other site 522772006806 ABC-ATPase subunit interface; other site 522772006807 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 522772006808 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 522772006809 substrate binding pocket [chemical binding]; other site 522772006810 membrane-bound complex binding site; other site 522772006811 hinge residues; other site 522772006812 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 522772006813 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 522772006814 tetramer interface [polypeptide binding]; other site 522772006815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772006816 catalytic residue [active] 522772006817 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 522772006818 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 522772006819 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772006820 dimerization interface [polypeptide binding]; other site 522772006821 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772006822 dimer interface [polypeptide binding]; other site 522772006823 putative CheW interface [polypeptide binding]; other site 522772006824 uracil-xanthine permease; Region: ncs2; TIGR00801 522772006825 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 522772006826 active site 522772006827 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 522772006828 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772006829 dimerization interface [polypeptide binding]; other site 522772006830 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772006831 dimer interface [polypeptide binding]; other site 522772006832 putative CheW interface [polypeptide binding]; other site 522772006833 Methyltransferase domain; Region: Methyltransf_31; pfam13847 522772006834 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 522772006835 S-adenosylmethionine binding site [chemical binding]; other site 522772006836 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; cl17608 522772006837 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 522772006838 L-aspartate oxidase; Provisional; Region: PRK06175 522772006839 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 522772006840 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 522772006841 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 522772006842 putative active site [active] 522772006843 heme pocket [chemical binding]; other site 522772006844 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 522772006845 ATP binding site [chemical binding]; other site 522772006846 Mg2+ binding site [ion binding]; other site 522772006847 G-X-G motif; other site 522772006848 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 522772006849 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 522772006850 active site 522772006851 phosphorylation site [posttranslational modification] 522772006852 intermolecular recognition site; other site 522772006853 dimerization interface [polypeptide binding]; other site 522772006854 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 522772006855 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 522772006856 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 522772006857 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 522772006858 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772006859 molybdopterin cofactor binding site; other site 522772006860 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 522772006861 molybdopterin cofactor binding site; other site 522772006862 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 522772006863 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 522772006864 active site 522772006865 phosphorylation site [posttranslational modification] 522772006866 intermolecular recognition site; other site 522772006867 dimerization interface [polypeptide binding]; other site 522772006868 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 522772006869 DNA binding site [nucleotide binding] 522772006870 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 522772006871 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 522772006872 molybdopterin cofactor binding site [chemical binding]; other site 522772006873 substrate binding site [chemical binding]; other site 522772006874 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 522772006875 molybdopterin cofactor binding site; other site 522772006876 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772006877 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772006878 dimer interface [polypeptide binding]; other site 522772006879 phosphorylation site [posttranslational modification] 522772006880 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 522772006881 ATP binding site [chemical binding]; other site 522772006882 Mg2+ binding site [ion binding]; other site 522772006883 G-X-G motif; other site 522772006884 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 522772006885 glutamate dehydrogenase; Provisional; Region: PRK09414 522772006886 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 522772006887 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 522772006888 NAD(P) binding site [chemical binding]; other site 522772006889 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 522772006890 PAS domain; Region: PAS_10; pfam13596 522772006891 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 522772006892 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772006893 dimer interface [polypeptide binding]; other site 522772006894 conserved gate region; other site 522772006895 putative PBP binding loops; other site 522772006896 ABC-ATPase subunit interface; other site 522772006897 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 522772006898 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 522772006899 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 522772006900 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 522772006901 ligand binding site [chemical binding]; other site 522772006902 flexible hinge region; other site 522772006903 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 522772006904 putative switch regulator; other site 522772006905 non-specific DNA interactions [nucleotide binding]; other site 522772006906 DNA binding site [nucleotide binding] 522772006907 sequence specific DNA binding site [nucleotide binding]; other site 522772006908 putative cAMP binding site [chemical binding]; other site 522772006909 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 522772006910 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 522772006911 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 522772006912 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 522772006913 Walker A/P-loop; other site 522772006914 ATP binding site [chemical binding]; other site 522772006915 Q-loop/lid; other site 522772006916 ABC transporter signature motif; other site 522772006917 Walker B; other site 522772006918 D-loop; other site 522772006919 H-loop/switch region; other site 522772006920 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 522772006921 Uncharacterized conserved protein [Function unknown]; Region: COG2461 522772006922 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 522772006923 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 522772006924 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 522772006925 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522772006926 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 522772006927 Uncharacterized conserved protein [Function unknown]; Region: COG1284 522772006928 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 522772006929 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 522772006930 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 522772006931 Fic family protein [Function unknown]; Region: COG3177 522772006932 Fic/DOC family; Region: Fic; pfam02661 522772006933 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 522772006934 cell division protein FtsZ; Validated; Region: PRK09330 522772006935 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 522772006936 nucleotide binding site [chemical binding]; other site 522772006937 SulA interaction site; other site 522772006938 cell division protein FtsA; Region: ftsA; TIGR01174 522772006939 Cell division protein FtsA; Region: FtsA; smart00842 522772006940 Cell division protein FtsA; Region: FtsA; pfam14450 522772006941 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 522772006942 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 522772006943 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 522772006944 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 522772006945 ATP-grasp domain; Region: ATP-grasp_4; cl17255 522772006946 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 522772006947 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 522772006948 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 522772006949 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 522772006950 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 522772006951 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 522772006952 active site 522772006953 homodimer interface [polypeptide binding]; other site 522772006954 cell division protein FtsW; Region: ftsW; TIGR02614 522772006955 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 522772006956 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 522772006957 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 522772006958 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 522772006959 Mg++ binding site [ion binding]; other site 522772006960 putative catalytic motif [active] 522772006961 putative substrate binding site [chemical binding]; other site 522772006962 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 522772006963 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 522772006964 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 522772006965 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 522772006966 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 522772006967 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 522772006968 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 522772006969 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 522772006970 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 522772006971 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 522772006972 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 522772006973 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 522772006974 MraW methylase family; Region: Methyltransf_5; cl17771 522772006975 cell division protein MraZ; Reviewed; Region: PRK00326 522772006976 MraZ protein; Region: MraZ; pfam02381 522772006977 MraZ protein; Region: MraZ; pfam02381 522772006978 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772006979 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772006980 dimer interface [polypeptide binding]; other site 522772006981 putative CheW interface [polypeptide binding]; other site 522772006982 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 522772006983 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 522772006984 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 522772006985 homodimer interface [polypeptide binding]; other site 522772006986 metal binding site [ion binding]; metal-binding site 522772006987 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 522772006988 homodimer interface [polypeptide binding]; other site 522772006989 active site 522772006990 putative chemical substrate binding site [chemical binding]; other site 522772006991 metal binding site [ion binding]; metal-binding site 522772006992 Fic family protein [Function unknown]; Region: COG3177 522772006993 Fic/DOC family; Region: Fic; pfam02661 522772006994 Protein of unknown function (DUF342); Region: DUF342; pfam03961 522772006995 PAS fold; Region: PAS_4; pfam08448 522772006996 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 522772006997 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 522772006998 Walker A/P-loop; other site 522772006999 ATP binding site [chemical binding]; other site 522772007000 Q-loop/lid; other site 522772007001 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 522772007002 ABC transporter signature motif; other site 522772007003 Walker B; other site 522772007004 D-loop; other site 522772007005 H-loop/switch region; other site 522772007006 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 522772007007 active site residue [active] 522772007008 Protein of unknown function (DUF935); Region: DUF935; pfam06074 522772007009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 522772007010 Terminase-like family; Region: Terminase_6; pfam03237 522772007011 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 522772007012 Fic family protein [Function unknown]; Region: COG3177 522772007013 Fic/DOC family; Region: Fic; pfam02661 522772007014 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 522772007015 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 522772007016 nucleotide binding site [chemical binding]; other site 522772007017 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 522772007018 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 522772007019 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 522772007020 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 522772007021 P loop; other site 522772007022 GTP binding site [chemical binding]; other site 522772007023 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 522772007024 DNA binding residues [nucleotide binding] 522772007025 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 522772007026 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 522772007027 non-specific DNA binding site [nucleotide binding]; other site 522772007028 salt bridge; other site 522772007029 sequence-specific DNA binding site [nucleotide binding]; other site 522772007030 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 522772007031 active site 522772007032 catalytic triad [active] 522772007033 TPR repeat; Region: TPR_11; pfam13414 522772007034 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 522772007035 binding surface 522772007036 TPR motif; other site 522772007037 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 522772007038 binding surface 522772007039 Tetratricopeptide repeat; Region: TPR_12; pfam13424 522772007040 TPR motif; other site 522772007041 TPR repeat; Region: TPR_11; pfam13414 522772007042 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 522772007043 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 522772007044 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772007045 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 522772007046 Nitrogen regulatory protein P-II; Region: P-II; smart00938 522772007047 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 522772007048 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 522772007049 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 522772007050 sequence-specific DNA binding site [nucleotide binding]; other site 522772007051 salt bridge; other site 522772007052 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 522772007053 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 522772007054 non-specific DNA binding site [nucleotide binding]; other site 522772007055 salt bridge; other site 522772007056 sequence-specific DNA binding site [nucleotide binding]; other site 522772007057 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 522772007058 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 522772007059 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 522772007060 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 522772007061 putative CheA interaction surface; other site 522772007062 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 522772007063 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 522772007064 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 522772007065 acyl-activating enzyme (AAE) consensus motif; other site 522772007066 AMP binding site [chemical binding]; other site 522772007067 active site 522772007068 CoA binding site [chemical binding]; other site 522772007069 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 522772007070 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 522772007071 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 522772007072 Zn binding site [ion binding]; other site 522772007073 Protein of unknown function, DUF399; Region: DUF399; pfam04187 522772007074 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 522772007075 protein binding site [polypeptide binding]; other site 522772007076 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 522772007077 threonine dehydratase; Provisional; Region: PRK08198 522772007078 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 522772007079 tetramer interface [polypeptide binding]; other site 522772007080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772007081 catalytic residue [active] 522772007082 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 522772007083 Predicted permease; Region: DUF318; cl17795 522772007084 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 522772007085 mechanosensitive channel MscS; Provisional; Region: PRK10334 522772007086 Mechanosensitive ion channel; Region: MS_channel; pfam00924 522772007087 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 522772007088 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 522772007089 dimerization interface [polypeptide binding]; other site 522772007090 ligand binding site [chemical binding]; other site 522772007091 NADP binding site [chemical binding]; other site 522772007092 catalytic site [active] 522772007093 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 522772007094 active site 522772007095 catalytic residues [active] 522772007096 metal binding site [ion binding]; metal-binding site 522772007097 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 522772007098 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 522772007099 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 522772007100 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 522772007101 Clp amino terminal domain; Region: Clp_N; pfam02861 522772007102 Clp amino terminal domain; Region: Clp_N; pfam02861 522772007103 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772007104 Walker A motif; other site 522772007105 ATP binding site [chemical binding]; other site 522772007106 Walker B motif; other site 522772007107 arginine finger; other site 522772007108 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772007109 Walker A motif; other site 522772007110 ATP binding site [chemical binding]; other site 522772007111 Walker B motif; other site 522772007112 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 522772007113 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 522772007114 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 522772007115 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 522772007116 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 522772007117 nudix motif; other site 522772007118 PilZ domain; Region: PilZ; pfam07238 522772007119 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 522772007120 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 522772007121 dimer interface [polypeptide binding]; other site 522772007122 decamer (pentamer of dimers) interface [polypeptide binding]; other site 522772007123 catalytic triad [active] 522772007124 peroxidatic and resolving cysteines [active] 522772007125 C-terminal domain of 1-Cys peroxiredoxin; Region: 1-cysPrx_C; pfam10417 522772007126 High-affinity nickel-transport protein; Region: NicO; cl00964 522772007127 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 522772007128 Isochorismatase family; Region: Isochorismatase; pfam00857 522772007129 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 522772007130 catalytic triad [active] 522772007131 dimer interface [polypeptide binding]; other site 522772007132 conserved cis-peptide bond; other site 522772007133 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 522772007134 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 522772007135 motif II; other site 522772007136 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 522772007137 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 522772007138 Ligand Binding Site [chemical binding]; other site 522772007139 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 522772007140 Ligand Binding Site [chemical binding]; other site 522772007141 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 522772007142 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 522772007143 23S rRNA interface [nucleotide binding]; other site 522772007144 L3 interface [polypeptide binding]; other site 522772007145 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 522772007146 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 522772007147 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 522772007148 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 522772007149 RimM N-terminal domain; Region: RimM; pfam01782 522772007150 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 522772007151 hypothetical protein; Provisional; Region: PRK00468 522772007152 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 522772007153 signal recognition particle protein; Provisional; Region: PRK10867 522772007154 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 522772007155 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 522772007156 P loop; other site 522772007157 GTP binding site [chemical binding]; other site 522772007158 Signal peptide binding domain; Region: SRP_SPB; pfam02978 522772007159 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 522772007160 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 522772007161 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 522772007162 ligand binding site [chemical binding]; other site 522772007163 flexible hinge region; other site 522772007164 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 522772007165 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 522772007166 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 522772007167 Uncharacterized conserved protein [Function unknown]; Region: COG4198 522772007168 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 522772007169 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 522772007170 active site 522772007171 HIGH motif; other site 522772007172 dimer interface [polypeptide binding]; other site 522772007173 KMSKS motif; other site 522772007174 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 522772007175 RNA binding surface [nucleotide binding]; other site 522772007176 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 522772007177 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 522772007178 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 522772007179 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 522772007180 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 522772007181 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 522772007182 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 522772007183 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 522772007184 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 522772007185 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 522772007186 active site 522772007187 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 522772007188 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 522772007189 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 522772007190 trimer interface [polypeptide binding]; other site 522772007191 active site 522772007192 UDP-GlcNAc binding site [chemical binding]; other site 522772007193 lipid binding site [chemical binding]; lipid-binding site 522772007194 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 522772007195 periplasmic chaperone; Provisional; Region: PRK10780 522772007196 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 522772007197 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 522772007198 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 522772007199 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 522772007200 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 522772007201 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 522772007202 Surface antigen; Region: Bac_surface_Ag; pfam01103 522772007203 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 522772007204 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 522772007205 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 522772007206 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 522772007207 hinge; other site 522772007208 active site 522772007209 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 522772007210 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 522772007211 S-adenosylmethionine binding site [chemical binding]; other site 522772007212 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 522772007213 peptide chain release factor 1; Validated; Region: prfA; PRK00591 522772007214 This domain is found in peptide chain release factors; Region: PCRF; smart00937 522772007215 RF-1 domain; Region: RF-1; pfam00472 522772007216 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 522772007217 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 522772007218 transcription termination factor Rho; Provisional; Region: rho; PRK09376 522772007219 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 522772007220 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 522772007221 RNA binding site [nucleotide binding]; other site 522772007222 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 522772007223 multimer interface [polypeptide binding]; other site 522772007224 Walker A motif; other site 522772007225 ATP binding site [chemical binding]; other site 522772007226 Walker B motif; other site 522772007227 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 522772007228 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 522772007229 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 522772007230 nucleotide binding pocket [chemical binding]; other site 522772007231 K-X-D-G motif; other site 522772007232 catalytic site [active] 522772007233 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 522772007234 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 522772007235 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 522772007236 Dimer interface [polypeptide binding]; other site 522772007237 BRCT sequence motif; other site 522772007238 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 522772007239 Peptidase family U32; Region: Peptidase_U32; pfam01136 522772007240 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 522772007241 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 522772007242 S-adenosylmethionine binding site [chemical binding]; other site 522772007243 Uncharacterized conserved protein [Function unknown]; Region: COG3334 522772007244 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 522772007245 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 522772007246 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 522772007247 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 522772007248 Walker A motif/ATP binding site; other site 522772007249 Walker B motif; other site 522772007250 Flagellar assembly protein FliH; Region: FliH; pfam02108 522772007251 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 522772007252 FliG C-terminal domain; Region: FliG_C; pfam01706 522772007253 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 522772007254 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 522772007255 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 522772007256 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 522772007257 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 522772007258 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 522772007259 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 522772007260 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 522772007261 PAS domain; Region: PAS_9; pfam13426 522772007262 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 522772007263 putative active site [active] 522772007264 heme pocket [chemical binding]; other site 522772007265 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 522772007266 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 522772007267 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 522772007268 Walker A/P-loop; other site 522772007269 ATP binding site [chemical binding]; other site 522772007270 Q-loop/lid; other site 522772007271 ABC transporter signature motif; other site 522772007272 Walker B; other site 522772007273 D-loop; other site 522772007274 H-loop/switch region; other site 522772007275 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772007276 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 522772007277 active site 522772007278 phosphorylation site [posttranslational modification] 522772007279 intermolecular recognition site; other site 522772007280 dimerization interface [polypeptide binding]; other site 522772007281 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772007282 Walker A motif; other site 522772007283 ATP binding site [chemical binding]; other site 522772007284 Walker B motif; other site 522772007285 arginine finger; other site 522772007286 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 522772007287 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 522772007288 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772007289 dimer interface [polypeptide binding]; other site 522772007290 phosphorylation site [posttranslational modification] 522772007291 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 522772007292 ATP binding site [chemical binding]; other site 522772007293 Mg2+ binding site [ion binding]; other site 522772007294 G-X-G motif; other site 522772007295 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 522772007296 binding surface 522772007297 TPR motif; other site 522772007298 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 522772007299 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 522772007300 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 522772007301 active site 522772007302 phosphorylation site [posttranslational modification] 522772007303 intermolecular recognition site; other site 522772007304 dimerization interface [polypeptide binding]; other site 522772007305 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 522772007306 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 522772007307 binding surface 522772007308 TPR motif; other site 522772007309 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 522772007310 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 522772007311 dimer interface [polypeptide binding]; other site 522772007312 active site 522772007313 glycine-pyridoxal phosphate binding site [chemical binding]; other site 522772007314 folate binding site [chemical binding]; other site 522772007315 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772007316 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 522772007317 active site 522772007318 phosphorylation site [posttranslational modification] 522772007319 intermolecular recognition site; other site 522772007320 dimerization interface [polypeptide binding]; other site 522772007321 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772007322 Walker A motif; other site 522772007323 ATP binding site [chemical binding]; other site 522772007324 Walker B motif; other site 522772007325 arginine finger; other site 522772007326 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 522772007327 ribonuclease R; Region: RNase_R; TIGR02063 522772007328 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 522772007329 RNB domain; Region: RNB; pfam00773 522772007330 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 522772007331 RNA binding site [nucleotide binding]; other site 522772007332 Cache domain; Region: Cache_2; cl07034 522772007333 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 522772007334 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772007335 metal binding site [ion binding]; metal-binding site 522772007336 active site 522772007337 I-site; other site 522772007338 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 522772007339 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 522772007340 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 522772007341 pyruvate carboxylase; Reviewed; Region: PRK12999 522772007342 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 522772007343 ATP-grasp domain; Region: ATP-grasp_4; cl17255 522772007344 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 522772007345 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 522772007346 active site 522772007347 catalytic residues [active] 522772007348 metal binding site [ion binding]; metal-binding site 522772007349 homodimer binding site [polypeptide binding]; other site 522772007350 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 522772007351 carboxyltransferase (CT) interaction site; other site 522772007352 biotinylation site [posttranslational modification]; other site 522772007353 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 522772007354 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 522772007355 GIY-YIG motif/motif A; other site 522772007356 active site 522772007357 catalytic site [active] 522772007358 putative DNA binding site [nucleotide binding]; other site 522772007359 metal binding site [ion binding]; metal-binding site 522772007360 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 522772007361 DsrE/DsrF-like family; Region: DrsE; cl00672 522772007362 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 522772007363 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 522772007364 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 522772007365 putative metal binding site [ion binding]; other site 522772007366 putative homodimer interface [polypeptide binding]; other site 522772007367 putative homotetramer interface [polypeptide binding]; other site 522772007368 putative homodimer-homodimer interface [polypeptide binding]; other site 522772007369 putative allosteric switch controlling residues; other site 522772007370 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 522772007371 Ferritin-like domain; Region: Ferritin; pfam00210 522772007372 heme binding site [chemical binding]; other site 522772007373 ferroxidase pore; other site 522772007374 ferroxidase diiron center [ion binding]; other site 522772007375 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 522772007376 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 522772007377 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 522772007378 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 522772007379 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 522772007380 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 522772007381 TPP-binding site [chemical binding]; other site 522772007382 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 522772007383 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 522772007384 dimer interface [polypeptide binding]; other site 522772007385 PYR/PP interface [polypeptide binding]; other site 522772007386 TPP binding site [chemical binding]; other site 522772007387 substrate binding site [chemical binding]; other site 522772007388 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 522772007389 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 522772007390 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 522772007391 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 522772007392 CoA binding domain; Region: CoA_binding; smart00881 522772007393 CoA-ligase; Region: Ligase_CoA; pfam00549 522772007394 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 522772007395 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 522772007396 CoA-ligase; Region: Ligase_CoA; pfam00549 522772007397 malate dehydrogenase; Reviewed; Region: PRK06223 522772007398 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 522772007399 NAD(P) binding site [chemical binding]; other site 522772007400 dimer interface [polypeptide binding]; other site 522772007401 tetramer (dimer of dimers) interface [polypeptide binding]; other site 522772007402 substrate binding site [chemical binding]; other site 522772007403 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 522772007404 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 522772007405 Caspase domain; Region: Peptidase_C14; pfam00656 522772007406 proteolytic cleavage site; other site 522772007407 dimer interface [polypeptide binding]; other site 522772007408 substrate pocket [chemical binding]; other site 522772007409 Uncharacterized conserved protein [Function unknown]; Region: COG1262 522772007410 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 522772007411 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 522772007412 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 522772007413 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 522772007414 substrate binding site [chemical binding]; other site 522772007415 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 522772007416 substrate binding site [chemical binding]; other site 522772007417 ligand binding site [chemical binding]; other site 522772007418 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 522772007419 Helix-turn-helix domain; Region: HTH_17; pfam12728 522772007420 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; cl00163 522772007421 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 522772007422 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 522772007423 Sulfate transporter family; Region: Sulfate_transp; pfam00916 522772007424 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 522772007425 fumarate hydratase; Reviewed; Region: fumC; PRK00485 522772007426 Class II fumarases; Region: Fumarase_classII; cd01362 522772007427 active site 522772007428 tetramer interface [polypeptide binding]; other site 522772007429 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 522772007430 Fumarase C-terminus; Region: Fumerase_C; pfam05683 522772007431 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 522772007432 Ligand Binding Site [chemical binding]; other site 522772007433 Response regulator receiver domain; Region: Response_reg; pfam00072 522772007434 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 522772007435 active site 522772007436 phosphorylation site [posttranslational modification] 522772007437 intermolecular recognition site; other site 522772007438 dimerization interface [polypeptide binding]; other site 522772007439 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 522772007440 active site 522772007441 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 522772007442 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 522772007443 active site 522772007444 HIGH motif; other site 522772007445 KMSKS motif; other site 522772007446 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 522772007447 anticodon binding site; other site 522772007448 tRNA binding surface [nucleotide binding]; other site 522772007449 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 522772007450 dimer interface [polypeptide binding]; other site 522772007451 putative tRNA-binding site [nucleotide binding]; other site 522772007452 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 522772007453 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 522772007454 DNA polymerase III subunit delta'; Validated; Region: PRK08485 522772007455 thymidylate kinase; Validated; Region: tmk; PRK00698 522772007456 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 522772007457 TMP-binding site; other site 522772007458 ATP-binding site [chemical binding]; other site 522772007459 MOSC domain; Region: MOSC; pfam03473 522772007460 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 522772007461 MPT binding site; other site 522772007462 trimer interface [polypeptide binding]; other site 522772007463 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 522772007464 metal-binding site [ion binding] 522772007465 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 522772007466 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 522772007467 dimer interface [polypeptide binding]; other site 522772007468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772007469 catalytic residue [active] 522772007470 hypothetical protein; Validated; Region: PRK00153 522772007471 recombination protein RecR; Reviewed; Region: recR; PRK00076 522772007472 RecR protein; Region: RecR; pfam02132 522772007473 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 522772007474 putative active site [active] 522772007475 putative metal-binding site [ion binding]; other site 522772007476 tetramer interface [polypeptide binding]; other site 522772007477 ribonuclease G; Provisional; Region: PRK11712 522772007478 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 522772007479 homodimer interface [polypeptide binding]; other site 522772007480 oligonucleotide binding site [chemical binding]; other site 522772007481 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 522772007482 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 522772007483 S-adenosylmethionine binding site [chemical binding]; other site 522772007484 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 522772007485 AIR carboxylase; Region: AIRC; smart01001 522772007486 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 522772007487 dimer interface [polypeptide binding]; other site 522772007488 FMN binding site [chemical binding]; other site 522772007489 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 522772007490 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 522772007491 DNA binding residues [nucleotide binding] 522772007492 Methyltransferase domain; Region: Methyltransf_23; pfam13489 522772007493 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 522772007494 S-adenosylmethionine binding site [chemical binding]; other site 522772007495 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 522772007496 homodimer interface [polypeptide binding]; other site 522772007497 active site 522772007498 SAM binding site [chemical binding]; other site 522772007499 seryl-tRNA synthetase; Provisional; Region: PRK05431 522772007500 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 522772007501 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 522772007502 dimer interface [polypeptide binding]; other site 522772007503 active site 522772007504 motif 1; other site 522772007505 motif 2; other site 522772007506 motif 3; other site 522772007507 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 522772007508 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 522772007509 TPR motif; other site 522772007510 binding surface 522772007511 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 522772007512 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 522772007513 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 522772007514 FeS/SAM binding site; other site 522772007515 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 522772007516 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 522772007517 active site 522772007518 Riboflavin kinase; Region: Flavokinase; pfam01687 522772007519 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772007520 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 522772007521 dimerization interface [polypeptide binding]; other site 522772007522 putative DNA binding site [nucleotide binding]; other site 522772007523 putative Zn2+ binding site [ion binding]; other site 522772007524 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 522772007525 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522772007526 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 522772007527 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 522772007528 HlyD family secretion protein; Region: HlyD_3; pfam13437 522772007529 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 522772007530 Protein export membrane protein; Region: SecD_SecF; cl14618 522772007531 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 522772007532 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 522772007533 Domain of unknown function DUF20; Region: UPF0118; pfam01594 522772007534 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 522772007535 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 522772007536 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 522772007537 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 522772007538 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 522772007539 putative NAD(P) binding site [chemical binding]; other site 522772007540 active site 522772007541 putative substrate binding site [chemical binding]; other site 522772007542 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 522772007543 Part of AAA domain; Region: AAA_19; pfam13245 522772007544 Family description; Region: UvrD_C_2; pfam13538 522772007545 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 522772007546 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 522772007547 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 522772007548 Cl- selectivity filter; other site 522772007549 Cl- binding residues [ion binding]; other site 522772007550 pore gating glutamate residue; other site 522772007551 dimer interface [polypeptide binding]; other site 522772007552 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 522772007553 dimer interface [polypeptide binding]; other site 522772007554 ADP-ribose binding site [chemical binding]; other site 522772007555 active site 522772007556 nudix motif; other site 522772007557 metal binding site [ion binding]; metal-binding site 522772007558 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 522772007559 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 522772007560 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 522772007561 serine O-acetyltransferase; Region: cysE; TIGR01172 522772007562 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 522772007563 trimer interface [polypeptide binding]; other site 522772007564 active site 522772007565 substrate binding site [chemical binding]; other site 522772007566 CoA binding site [chemical binding]; other site 522772007567 Transcriptional regulator; Region: Rrf2; cl17282 522772007568 Rrf2 family protein; Region: rrf2_super; TIGR00738 522772007569 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 522772007570 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 522772007571 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522772007572 catalytic residue [active] 522772007573 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 522772007574 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 522772007575 putative substrate translocation pore; other site 522772007576 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 522772007577 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 522772007578 minor groove reading motif; other site 522772007579 helix-hairpin-helix signature motif; other site 522772007580 substrate binding pocket [chemical binding]; other site 522772007581 active site 522772007582 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 522772007583 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 522772007584 putative DNA binding site [nucleotide binding]; other site 522772007585 putative Zn2+ binding site [ion binding]; other site 522772007586 AsnC family; Region: AsnC_trans_reg; pfam01037 522772007587 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 522772007588 active site 522772007589 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 522772007590 N-acetyl-D-glucosamine binding site [chemical binding]; other site 522772007591 catalytic residue [active] 522772007592 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 522772007593 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 522772007594 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 522772007595 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 522772007596 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 522772007597 KpsF/GutQ family protein; Region: kpsF; TIGR00393 522772007598 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 522772007599 putative active site [active] 522772007600 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 522772007601 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 522772007602 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 522772007603 putative GTP cyclohydrolase; Provisional; Region: PRK13674 522772007604 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 522772007605 binding surface 522772007606 TPR motif; other site 522772007607 hypothetical protein; Reviewed; Region: PRK12497 522772007608 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 522772007609 RNA/DNA hybrid binding site [nucleotide binding]; other site 522772007610 active site 522772007611 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 522772007612 G1 box; other site 522772007613 GTP/Mg2+ binding site [chemical binding]; other site 522772007614 G2 box; other site 522772007615 Switch I region; other site 522772007616 G3 box; other site 522772007617 Switch II region; other site 522772007618 G4 box; other site 522772007619 G5 box; other site 522772007620 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 522772007621 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 522772007622 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 522772007623 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 522772007624 CoA-binding site [chemical binding]; other site 522772007625 ATP-binding [chemical binding]; other site 522772007626 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 522772007627 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 522772007628 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 522772007629 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 522772007630 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 522772007631 metal binding triad [ion binding]; metal-binding site 522772007632 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 522772007633 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 522772007634 active site 522772007635 metal binding site [ion binding]; metal-binding site 522772007636 homotetramer interface [polypeptide binding]; other site 522772007637 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 522772007638 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 522772007639 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 522772007640 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 522772007641 homodimer interface [polypeptide binding]; other site 522772007642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772007643 catalytic residue [active] 522772007644 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 522772007645 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 522772007646 dimer interface [polypeptide binding]; other site 522772007647 motif 1; other site 522772007648 active site 522772007649 motif 2; other site 522772007650 motif 3; other site 522772007651 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 522772007652 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 522772007653 GDP-binding site [chemical binding]; other site 522772007654 ACT binding site; other site 522772007655 IMP binding site; other site 522772007656 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 522772007657 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 522772007658 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 522772007659 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 522772007660 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 522772007661 GatB domain; Region: GatB_Yqey; smart00845 522772007662 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 522772007663 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 522772007664 dimer interface [polypeptide binding]; other site 522772007665 substrate binding site [chemical binding]; other site 522772007666 metal binding site [ion binding]; metal-binding site 522772007667 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 522772007668 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 522772007669 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 522772007670 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 522772007671 hypothetical protein; Provisional; Region: PRK07338 522772007672 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 522772007673 metal binding site [ion binding]; metal-binding site 522772007674 dimer interface [polypeptide binding]; other site 522772007675 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 522772007676 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 522772007677 ligand binding site [chemical binding]; other site 522772007678 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 522772007679 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 522772007680 ABC-ATPase subunit interface; other site 522772007681 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 522772007682 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 522772007683 Walker A/P-loop; other site 522772007684 ATP binding site [chemical binding]; other site 522772007685 Q-loop/lid; other site 522772007686 ABC transporter signature motif; other site 522772007687 Walker B; other site 522772007688 D-loop; other site 522772007689 H-loop/switch region; other site 522772007690 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 522772007691 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772007692 dimer interface [polypeptide binding]; other site 522772007693 conserved gate region; other site 522772007694 putative PBP binding loops; other site 522772007695 ABC-ATPase subunit interface; other site 522772007696 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 522772007697 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 522772007698 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 522772007699 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 522772007700 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 522772007701 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 522772007702 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 522772007703 NAD binding site [chemical binding]; other site 522772007704 putative substrate binding site 2 [chemical binding]; other site 522772007705 putative substrate binding site 1 [chemical binding]; other site 522772007706 active site 522772007707 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 522772007708 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 522772007709 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 522772007710 FeS/SAM binding site; other site 522772007711 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 522772007712 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 522772007713 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 522772007714 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 522772007715 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 522772007716 MPN+ (JAMM) motif; other site 522772007717 Zinc-binding site [ion binding]; other site 522772007718 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 522772007719 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 522772007720 putative NAD(P) binding site [chemical binding]; other site 522772007721 active site 522772007722 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 522772007723 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 522772007724 catalytic residues [active] 522772007725 Bifunctional nuclease; Region: DNase-RNase; cl00553 522772007726 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 522772007727 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772007728 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772007729 dimer interface [polypeptide binding]; other site 522772007730 phosphorylation site [posttranslational modification] 522772007731 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 522772007732 ATP binding site [chemical binding]; other site 522772007733 Mg2+ binding site [ion binding]; other site 522772007734 G-X-G motif; other site 522772007735 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 522772007736 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 522772007737 Protein export membrane protein; Region: SecD_SecF; pfam02355 522772007738 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 522772007739 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 522772007740 Preprotein translocase subunit; Region: YajC; pfam02699 522772007741 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 522772007742 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 522772007743 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 522772007744 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 522772007745 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 522772007746 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 522772007747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772007748 catalytic residue [active] 522772007749 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 522772007750 active site 522772007751 multimer interface [polypeptide binding]; other site 522772007752 Cupin domain; Region: Cupin_2; pfam07883 522772007753 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 522772007754 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 522772007755 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 522772007756 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 522772007757 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 522772007758 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 522772007759 putative cation:proton antiport protein; Provisional; Region: PRK10669 522772007760 TrkA-N domain; Region: TrkA_N; pfam02254 522772007761 TrkA-C domain; Region: TrkA_C; pfam02080 522772007762 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 522772007763 homotrimer interaction site [polypeptide binding]; other site 522772007764 zinc binding site [ion binding]; other site 522772007765 CDP-binding sites; other site 522772007766 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 522772007767 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 522772007768 putative ligand binding site [chemical binding]; other site 522772007769 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 522772007770 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 522772007771 putative ligand binding site [chemical binding]; other site 522772007772 carbon storage regulator; Provisional; Region: PRK01712 522772007773 flagellar assembly protein FliW; Provisional; Region: PRK13285 522772007774 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 522772007775 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 522772007776 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 522772007777 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 522772007778 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 522772007779 FlgN protein; Region: FlgN; pfam05130 522772007780 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 522772007781 Rod binding protein; Region: Rod-binding; pfam10135 522772007782 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 522772007783 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 522772007784 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 522772007785 Flagellar L-ring protein; Region: FlgH; pfam02107 522772007786 SAF-like; Region: SAF_2; pfam13144 522772007787 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 522772007788 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 522772007789 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 522772007790 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 522772007791 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 522772007792 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 522772007793 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 522772007794 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 522772007795 metal binding site 2 [ion binding]; metal-binding site 522772007796 putative DNA binding helix; other site 522772007797 metal binding site 1 [ion binding]; metal-binding site 522772007798 dimer interface [polypeptide binding]; other site 522772007799 structural Zn2+ binding site [ion binding]; other site 522772007800 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 522772007801 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 522772007802 putative metal binding residues [ion binding]; other site 522772007803 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 522772007804 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 522772007805 FeS/SAM binding site; other site 522772007806 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 522772007807 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 522772007808 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 522772007809 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 522772007810 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 522772007811 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; cl00477 522772007812 nickel binding site [ion binding]; other site 522772007813 TPR repeat; Region: TPR_11; pfam13414 522772007814 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 522772007815 binding surface 522772007816 TPR motif; other site 522772007817 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 522772007818 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 522772007819 binding surface 522772007820 TPR motif; other site 522772007821 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 522772007822 diaminopimelate decarboxylase; Region: lysA; TIGR01048 522772007823 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 522772007824 active site 522772007825 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 522772007826 substrate binding site [chemical binding]; other site 522772007827 catalytic residues [active] 522772007828 dimer interface [polypeptide binding]; other site 522772007829 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 522772007830 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 522772007831 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 522772007832 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 522772007833 dihydrodipicolinate synthase; Region: dapA; TIGR00674 522772007834 dimer interface [polypeptide binding]; other site 522772007835 active site 522772007836 catalytic residue [active] 522772007837 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 522772007838 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 522772007839 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 522772007840 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 522772007841 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 522772007842 catalytic loop [active] 522772007843 iron binding site [ion binding]; other site 522772007844 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 522772007845 4Fe-4S binding domain; Region: Fer4; pfam00037 522772007846 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772007847 molybdopterin cofactor binding site; other site 522772007848 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 522772007849 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 522772007850 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 522772007851 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 522772007852 active site 522772007853 substrate binding site [chemical binding]; other site 522772007854 cosubstrate binding site; other site 522772007855 catalytic site [active] 522772007856 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 522772007857 substrate binding site [chemical binding]; other site 522772007858 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 522772007859 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 522772007860 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 522772007861 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 522772007862 Protein of unknown function (DUF456); Region: DUF456; pfam04306 522772007863 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 522772007864 active site 522772007865 DNA binding site [nucleotide binding] 522772007866 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 522772007867 Sel1-like repeats; Region: SEL1; smart00671 522772007868 Sel1 repeat; Region: Sel1; cl02723 522772007869 Sel1-like repeats; Region: SEL1; smart00671 522772007870 Sel1-like repeats; Region: SEL1; smart00671 522772007871 CHASE4 domain; Region: CHASE4; pfam05228 522772007872 HAMP domain; Region: HAMP; pfam00672 522772007873 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772007874 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772007875 metal binding site [ion binding]; metal-binding site 522772007876 active site 522772007877 I-site; other site 522772007878 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007879 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007880 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007881 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007882 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007883 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007884 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007885 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007886 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007887 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007888 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007889 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007890 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007891 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007892 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007893 VCBS repeat; Region: VCBS_repeat; TIGR01965 522772007894 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 522772007895 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 522772007896 metal ion-dependent adhesion site (MIDAS); other site 522772007897 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 522772007898 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 522772007899 Walker A/P-loop; other site 522772007900 ATP binding site [chemical binding]; other site 522772007901 Q-loop/lid; other site 522772007902 ABC transporter signature motif; other site 522772007903 Walker B; other site 522772007904 D-loop; other site 522772007905 H-loop/switch region; other site 522772007906 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 522772007907 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 522772007908 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 522772007909 Walker A/P-loop; other site 522772007910 ATP binding site [chemical binding]; other site 522772007911 Q-loop/lid; other site 522772007912 ABC transporter signature motif; other site 522772007913 Walker B; other site 522772007914 D-loop; other site 522772007915 H-loop/switch region; other site 522772007916 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 522772007917 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 522772007918 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 522772007919 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772007920 dimer interface [polypeptide binding]; other site 522772007921 conserved gate region; other site 522772007922 putative PBP binding loops; other site 522772007923 ABC-ATPase subunit interface; other site 522772007924 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 522772007925 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772007926 dimer interface [polypeptide binding]; other site 522772007927 conserved gate region; other site 522772007928 putative PBP binding loops; other site 522772007929 ABC-ATPase subunit interface; other site 522772007930 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 522772007931 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_2; cd08498 522772007932 Isochorismatase family; Region: Isochorismatase; pfam00857 522772007933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 522772007934 Coenzyme A binding pocket [chemical binding]; other site 522772007935 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 522772007936 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 522772007937 putative trimer interface [polypeptide binding]; other site 522772007938 putative CoA binding site [chemical binding]; other site 522772007939 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 522772007940 catalytic residues [active] 522772007941 dimer interface [polypeptide binding]; other site 522772007942 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 522772007943 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 522772007944 active site 522772007945 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 522772007946 4Fe-4S binding domain; Region: Fer4; pfam00037 522772007947 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 522772007948 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 522772007949 FMN binding site [chemical binding]; other site 522772007950 dimer interface [polypeptide binding]; other site 522772007951 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 522772007952 active site 522772007953 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 522772007954 methionine sulfoxide reductase B; Provisional; Region: PRK00222 522772007955 SelR domain; Region: SelR; pfam01641 522772007956 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 522772007957 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 522772007958 homodimer interface [polypeptide binding]; other site 522772007959 substrate-cofactor binding pocket; other site 522772007960 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772007961 catalytic residue [active] 522772007962 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 522772007963 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772007964 dimerization interface [polypeptide binding]; other site 522772007965 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772007966 dimer interface [polypeptide binding]; other site 522772007967 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 522772007968 putative CheW interface [polypeptide binding]; other site 522772007969 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 522772007970 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 522772007971 SnoaL-like domain; Region: SnoaL_2; pfam12680 522772007972 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 522772007973 L-aspartate oxidase; Provisional; Region: PRK06175 522772007974 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 522772007975 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 522772007976 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 522772007977 intersubunit interface [polypeptide binding]; other site 522772007978 active site 522772007979 zinc binding site [ion binding]; other site 522772007980 Na+ binding site [ion binding]; other site 522772007981 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 522772007982 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 522772007983 FecR protein; Region: FecR; pfam04773 522772007984 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 522772007985 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 522772007986 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 522772007987 rRNA interaction site [nucleotide binding]; other site 522772007988 S8 interaction site; other site 522772007989 putative laminin-1 binding site; other site 522772007990 elongation factor Ts; Provisional; Region: tsf; PRK09377 522772007991 UBA/TS-N domain; Region: UBA; pfam00627 522772007992 Elongation factor TS; Region: EF_TS; pfam00889 522772007993 Elongation factor TS; Region: EF_TS; pfam00889 522772007994 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 522772007995 active site 522772007996 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 522772007997 ThiS interaction site; other site 522772007998 putative active site [active] 522772007999 tetramer interface [polypeptide binding]; other site 522772008000 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 522772008001 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 522772008002 FeS/SAM binding site; other site 522772008003 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 522772008004 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 522772008005 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 522772008006 DNA binding site [nucleotide binding] 522772008007 active site 522772008008 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 522772008009 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 522772008010 aspartate racemase; Region: asp_race; TIGR00035 522772008011 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 522772008012 PAS fold; Region: PAS_4; pfam08448 522772008013 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 522772008014 putative active site [active] 522772008015 heme pocket [chemical binding]; other site 522772008016 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 522772008017 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 522772008018 Response regulator receiver domain; Region: Response_reg; pfam00072 522772008019 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 522772008020 active site 522772008021 phosphorylation site [posttranslational modification] 522772008022 intermolecular recognition site; other site 522772008023 dimerization interface [polypeptide binding]; other site 522772008024 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772008025 Zn2+ binding site [ion binding]; other site 522772008026 Mg2+ binding site [ion binding]; other site 522772008027 Hemerythrin; Region: Hemerythrin; cd12107 522772008028 Fe binding site [ion binding]; other site 522772008029 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 522772008030 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 522772008031 substrate binding site [chemical binding]; other site 522772008032 oxyanion hole (OAH) forming residues; other site 522772008033 trimer interface [polypeptide binding]; other site 522772008034 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 522772008035 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772008036 HAMP domain; Region: HAMP; pfam00672 522772008037 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 522772008038 ATP binding site [chemical binding]; other site 522772008039 Mg2+ binding site [ion binding]; other site 522772008040 G-X-G motif; other site 522772008041 Cache domain; Region: Cache_1; pfam02743 522772008042 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772008043 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772008044 metal binding site [ion binding]; metal-binding site 522772008045 active site 522772008046 I-site; other site 522772008047 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772008048 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772008049 dimer interface [polypeptide binding]; other site 522772008050 putative CheW interface [polypeptide binding]; other site 522772008051 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 522772008052 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772008053 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 522772008054 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 522772008055 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 522772008056 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 522772008057 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 522772008058 active site 522772008059 Int/Topo IB signature motif; other site 522772008060 DNA binding site [nucleotide binding] 522772008061 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 522772008062 AAA domain; Region: AAA_14; pfam13173 522772008063 hypothetical protein; Provisional; Region: PRK04164 522772008064 HsdM N-terminal domain; Region: HsdM_N; pfam12161 522772008065 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 522772008066 Methyltransferase domain; Region: Methyltransf_26; pfam13659 522772008067 S-adenosylmethionine binding site [chemical binding]; other site 522772008068 Virulence protein [General function prediction only]; Region: COG3943 522772008069 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 522772008070 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522772008071 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 522772008072 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522772008073 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 522772008074 active site 522772008075 catalytic residues [active] 522772008076 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 522772008077 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 522772008078 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 522772008079 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 522772008080 ATP binding site [chemical binding]; other site 522772008081 putative Mg++ binding site [ion binding]; other site 522772008082 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 522772008083 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772008084 WYL domain; Region: WYL; pfam13280 522772008085 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 522772008086 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 522772008087 Transposase; Region: HTH_Tnp_1; pfam01527 522772008088 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 522772008089 HTH-like domain; Region: HTH_21; pfam13276 522772008090 Integrase core domain; Region: rve; pfam00665 522772008091 Integrase core domain; Region: rve_3; pfam13683 522772008092 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 522772008093 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772008094 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 522772008095 ATP binding site [chemical binding]; other site 522772008096 Mg2+ binding site [ion binding]; other site 522772008097 G-X-G motif; other site 522772008098 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772008099 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 522772008100 active site 522772008101 phosphorylation site [posttranslational modification] 522772008102 intermolecular recognition site; other site 522772008103 dimerization interface [polypeptide binding]; other site 522772008104 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772008105 Walker A motif; other site 522772008106 ATP binding site [chemical binding]; other site 522772008107 Walker B motif; other site 522772008108 arginine finger; other site 522772008109 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 522772008110 4Fe-4S binding domain; Region: Fer4; pfam00037 522772008111 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 522772008112 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772008113 molybdopterin cofactor binding site; other site 522772008114 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772008115 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 522772008116 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 522772008117 WYL domain; Region: WYL; pfam13280 522772008118 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522772008119 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772008120 Walker A motif; other site 522772008121 ATP binding site [chemical binding]; other site 522772008122 Walker B motif; other site 522772008123 Winged helix-turn helix; Region: HTH_29; pfam13551 522772008124 Homeodomain-like domain; Region: HTH_32; pfam13565 522772008125 Integrase core domain; Region: rve; pfam00665 522772008126 Integrase core domain; Region: rve_3; pfam13683 522772008127 Transposase; Region: HTH_Tnp_1; cl17663 522772008128 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 522772008129 non-specific DNA binding site [nucleotide binding]; other site 522772008130 salt bridge; other site 522772008131 sequence-specific DNA binding site [nucleotide binding]; other site 522772008132 Helix-turn-helix domain; Region: HTH_17; pfam12728 522772008133 Uncharacterized conserved protein [Function unknown]; Region: COG1633 522772008134 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 522772008135 diiron binding motif [ion binding]; other site 522772008136 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 522772008137 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 522772008138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772008139 homodimer interface [polypeptide binding]; other site 522772008140 catalytic residue [active] 522772008141 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 522772008142 selenophosphate synthetase; Provisional; Region: PRK00943 522772008143 dimerization interface [polypeptide binding]; other site 522772008144 putative ATP binding site [chemical binding]; other site 522772008145 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 522772008146 Predicted membrane protein [Function unknown]; Region: COG1971 522772008147 Domain of unknown function DUF; Region: DUF204; pfam02659 522772008148 Domain of unknown function DUF; Region: DUF204; pfam02659 522772008149 Cache domain; Region: Cache_1; pfam02743 522772008150 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772008151 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 522772008152 dimer interface [polypeptide binding]; other site 522772008153 phosphorylation site [posttranslational modification] 522772008154 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 522772008155 ATP binding site [chemical binding]; other site 522772008156 Mg2+ binding site [ion binding]; other site 522772008157 G-X-G motif; other site 522772008158 arginine decarboxylase; Provisional; Region: PRK05354 522772008159 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 522772008160 dimer interface [polypeptide binding]; other site 522772008161 active site 522772008162 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 522772008163 catalytic residues [active] 522772008164 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 522772008165 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 522772008166 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 522772008167 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 522772008168 dimer interface [polypeptide binding]; other site 522772008169 active site 522772008170 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 522772008171 catalytic residues [active] 522772008172 substrate binding site [chemical binding]; other site 522772008173 agmatinase; Region: agmatinase; TIGR01230 522772008174 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 522772008175 putative active site [active] 522772008176 Mn binding site [ion binding]; other site 522772008177 ArsC family; Region: ArsC; pfam03960 522772008178 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 522772008179 NRDE protein; Region: NRDE; pfam05742 522772008180 Uncharacterized conserved protein [Function unknown]; Region: COG1739 522772008181 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 522772008182 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 522772008183 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 522772008184 active site 522772008185 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 522772008186 Protein of unknown function (DUF454); Region: DUF454; cl01063 522772008187 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 522772008188 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 522772008189 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 522772008190 putative active site [active] 522772008191 putative active site [active] 522772008192 catalytic site [active] 522772008193 catalytic site [active] 522772008194 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 522772008195 putative active site [active] 522772008196 catalytic site [active] 522772008197 Uncharacterized conserved protein [Function unknown]; Region: COG0398 522772008198 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 522772008199 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 522772008200 putative catalytic site [active] 522772008201 putative metal binding site [ion binding]; other site 522772008202 putative phosphate binding site [ion binding]; other site 522772008203 Domain of unknown function DUF21; Region: DUF21; pfam01595 522772008204 FOG: CBS domain [General function prediction only]; Region: COG0517 522772008205 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 522772008206 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 522772008207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772008208 Walker A/P-loop; other site 522772008209 ATP binding site [chemical binding]; other site 522772008210 Q-loop/lid; other site 522772008211 ABC transporter signature motif; other site 522772008212 Walker B; other site 522772008213 D-loop; other site 522772008214 H-loop/switch region; other site 522772008215 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 522772008216 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 522772008217 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 522772008218 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772008219 dimer interface [polypeptide binding]; other site 522772008220 conserved gate region; other site 522772008221 putative PBP binding loops; other site 522772008222 ABC-ATPase subunit interface; other site 522772008223 putative molybdenum utilization protein ModD; Region: modD; TIGR01334 522772008224 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 522772008225 dimerization interface [polypeptide binding]; other site 522772008226 active site 522772008227 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 522772008228 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 522772008229 active site 522772008230 metal binding site [ion binding]; metal-binding site 522772008231 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 522772008232 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 522772008233 active site 522772008234 phosphorylation site [posttranslational modification] 522772008235 intermolecular recognition site; other site 522772008236 dimerization interface [polypeptide binding]; other site 522772008237 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 522772008238 DNA binding site [nucleotide binding] 522772008239 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772008240 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772008241 dimer interface [polypeptide binding]; other site 522772008242 phosphorylation site [posttranslational modification] 522772008243 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 522772008244 ATP binding site [chemical binding]; other site 522772008245 Mg2+ binding site [ion binding]; other site 522772008246 G-X-G motif; other site 522772008247 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772008248 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 522772008249 molybdopterin cofactor binding site; other site 522772008250 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 522772008251 molybdopterin cofactor binding site; other site 522772008252 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 522772008253 Radical SAM superfamily; Region: Radical_SAM; pfam04055 522772008254 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 522772008255 FeS/SAM binding site; other site 522772008256 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 522772008257 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 522772008258 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522772008259 putative substrate translocation pore; other site 522772008260 outer membrane porin, OprD family; Region: OprD; pfam03573 522772008261 Predicted oxidoreductase [General function prediction only]; Region: COG3573 522772008262 hypothetical protein; Validated; Region: PRK07121 522772008263 Transcriptional regulators [Transcription]; Region: FadR; COG2186 522772008264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522772008265 DNA-binding site [nucleotide binding]; DNA binding site 522772008266 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 522772008267 HEAT repeats; Region: HEAT_2; pfam13646 522772008268 HEAT repeats; Region: HEAT_2; pfam13646 522772008269 Uncharacterized conserved protein [Function unknown]; Region: COG2353 522772008270 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 522772008271 Major Facilitator Superfamily; Region: MFS_1; pfam07690 522772008272 putative substrate translocation pore; other site 522772008273 Transcriptional regulator [Transcription]; Region: LysR; COG0583 522772008274 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 522772008275 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 522772008276 dimerization interface [polypeptide binding]; other site 522772008277 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772008278 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772008279 dimer interface [polypeptide binding]; other site 522772008280 putative CheW interface [polypeptide binding]; other site 522772008281 Cache domain; Region: Cache_1; pfam02743 522772008282 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 522772008283 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772008284 Walker A motif; other site 522772008285 ATP binding site [chemical binding]; other site 522772008286 Walker B motif; other site 522772008287 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772008288 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 522772008289 DNA binding residues [nucleotide binding] 522772008290 Integrase core domain; Region: rve; pfam00665 522772008291 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 522772008292 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772008293 Walker A motif; other site 522772008294 ATP binding site [chemical binding]; other site 522772008295 Walker B motif; other site 522772008296 arginine finger; other site 522772008297 putative transposase OrfB; Reviewed; Region: PHA02517 522772008298 HTH-like domain; Region: HTH_21; pfam13276 522772008299 Integrase core domain; Region: rve; pfam00665 522772008300 Integrase core domain; Region: rve_3; pfam13683 522772008301 Transposase; Region: HTH_Tnp_1; pfam01527 522772008302 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 522772008303 Predicted transcriptional regulator [Transcription]; Region: COG2378 522772008304 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 522772008305 WYL domain; Region: WYL; pfam13280 522772008306 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 522772008307 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 522772008308 non-specific DNA binding site [nucleotide binding]; other site 522772008309 salt bridge; other site 522772008310 sequence-specific DNA binding site [nucleotide binding]; other site 522772008311 HipA N-terminal domain; Region: Couple_hipA; pfam13657 522772008312 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 522772008313 HipA-like N-terminal domain; Region: HipA_N; pfam07805 522772008314 HipA-like C-terminal domain; Region: HipA_C; pfam07804 522772008315 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06452 522772008316 Virulence protein [General function prediction only]; Region: COG3943 522772008317 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 522772008318 Fic family protein [Function unknown]; Region: COG3177 522772008319 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 522772008320 Fic/DOC family; Region: Fic; pfam02661 522772008321 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 522772008322 non-specific DNA binding site [nucleotide binding]; other site 522772008323 salt bridge; other site 522772008324 sequence-specific DNA binding site [nucleotide binding]; other site 522772008325 HipA N-terminal domain; Region: Couple_hipA; pfam13657 522772008326 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 522772008327 HipA-like N-terminal domain; Region: HipA_N; pfam07805 522772008328 HipA-like C-terminal domain; Region: HipA_C; pfam07804 522772008329 Fic family protein [Function unknown]; Region: COG3177 522772008330 Fic/DOC family; Region: Fic; pfam02661 522772008331 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772008332 Zn2+ binding site [ion binding]; other site 522772008333 Mg2+ binding site [ion binding]; other site 522772008334 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 522772008335 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 522772008336 active site 522772008337 DNA binding site [nucleotide binding] 522772008338 Int/Topo IB signature motif; other site 522772008339 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 522772008340 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 522772008341 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 522772008342 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 522772008343 ATP binding site [chemical binding]; other site 522772008344 putative Mg++ binding site [ion binding]; other site 522772008345 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 522772008346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772008347 Walker A/P-loop; other site 522772008348 ATP binding site [chemical binding]; other site 522772008349 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 522772008350 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 522772008351 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 522772008352 HsdM N-terminal domain; Region: HsdM_N; pfam12161 522772008353 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 522772008354 Methyltransferase domain; Region: Methyltransf_26; pfam13659 522772008355 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 522772008356 active site 522772008357 catalytic residues [active] 522772008358 DNA binding site [nucleotide binding] 522772008359 Int/Topo IB signature motif; other site 522772008360 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 522772008361 Transposase; Region: HTH_Tnp_1; pfam01527 522772008362 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 522772008363 putative transposase OrfB; Reviewed; Region: PHA02517 522772008364 HTH-like domain; Region: HTH_21; pfam13276 522772008365 Integrase core domain; Region: rve; pfam00665 522772008366 Integrase core domain; Region: rve_3; pfam13683 522772008367 putative transposase OrfB; Reviewed; Region: PHA02517 522772008368 HTH-like domain; Region: HTH_21; pfam13276 522772008369 Integrase core domain; Region: rve; pfam00665 522772008370 Integrase core domain; Region: rve_2; pfam13333 522772008371 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 522772008372 Transposase; Region: HTH_Tnp_1; pfam01527 522772008373 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522772008374 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 522772008375 putative ADP-binding pocket [chemical binding]; other site 522772008376 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 522772008377 phosphomannomutase CpsG; Provisional; Region: PRK15414 522772008378 active site 522772008379 substrate binding site [chemical binding]; other site 522772008380 metal binding site [ion binding]; metal-binding site 522772008381 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 522772008382 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 522772008383 Substrate binding site; other site 522772008384 Cupin domain; Region: Cupin_2; cl17218 522772008385 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 522772008386 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 522772008387 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 522772008388 Walker A/P-loop; other site 522772008389 ATP binding site [chemical binding]; other site 522772008390 Q-loop/lid; other site 522772008391 ABC transporter signature motif; other site 522772008392 Walker B; other site 522772008393 D-loop; other site 522772008394 H-loop/switch region; other site 522772008395 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 522772008396 putative carbohydrate binding site [chemical binding]; other site 522772008397 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 522772008398 active site 522772008399 catalytic site [active] 522772008400 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 522772008401 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 522772008402 motif II; other site 522772008403 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 522772008404 Ligand binding site; other site 522772008405 Cupin domain; Region: Cupin_2; cl17218 522772008406 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 522772008407 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 522772008408 Ligand binding site; other site 522772008409 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522772008410 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 522772008411 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 522772008412 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522772008413 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 522772008414 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 522772008415 NADP-binding site; other site 522772008416 homotetramer interface [polypeptide binding]; other site 522772008417 substrate binding site [chemical binding]; other site 522772008418 homodimer interface [polypeptide binding]; other site 522772008419 active site 522772008420 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 522772008421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522772008422 NAD(P) binding site [chemical binding]; other site 522772008423 active site 522772008424 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522772008425 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 522772008426 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 522772008427 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 522772008428 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 522772008429 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 522772008430 Transposase; Region: HTH_Tnp_1; pfam01527 522772008431 putative transposase OrfB; Reviewed; Region: PHA02517 522772008432 HTH-like domain; Region: HTH_21; pfam13276 522772008433 Integrase core domain; Region: rve; pfam00665 522772008434 Integrase core domain; Region: rve_2; pfam13333 522772008435 Protein of unknown function DUF262; Region: DUF262; pfam03235 522772008436 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 522772008437 HIT family signature motif; other site 522772008438 catalytic residue [active] 522772008439 Response regulator receiver domain; Region: Response_reg; pfam00072 522772008440 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 522772008441 active site 522772008442 phosphorylation site [posttranslational modification] 522772008443 intermolecular recognition site; other site 522772008444 dimerization interface [polypeptide binding]; other site 522772008445 HDOD domain; Region: HDOD; pfam08668 522772008446 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772008447 Zn2+ binding site [ion binding]; other site 522772008448 Mg2+ binding site [ion binding]; other site 522772008449 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 522772008450 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 522772008451 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 522772008452 S-adenosylmethionine binding site [chemical binding]; other site 522772008453 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 522772008454 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 522772008455 hypothetical protein; Provisional; Region: PRK10621 522772008456 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 522772008457 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 522772008458 minor groove reading motif; other site 522772008459 helix-hairpin-helix signature motif; other site 522772008460 substrate binding pocket [chemical binding]; other site 522772008461 active site 522772008462 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 522772008463 hypothetical protein; Provisional; Region: PRK04194 522772008464 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 522772008465 putative binding surface; other site 522772008466 active site 522772008467 Response regulator receiver domain; Region: Response_reg; pfam00072 522772008468 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 522772008469 active site 522772008470 phosphorylation site [posttranslational modification] 522772008471 intermolecular recognition site; other site 522772008472 dimerization interface [polypeptide binding]; other site 522772008473 Response regulator receiver domain; Region: Response_reg; pfam00072 522772008474 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 522772008475 active site 522772008476 phosphorylation site [posttranslational modification] 522772008477 intermolecular recognition site; other site 522772008478 dimerization interface [polypeptide binding]; other site 522772008479 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 522772008480 putative binding surface; other site 522772008481 active site 522772008482 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 522772008483 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 522772008484 putative binding surface; other site 522772008485 active site 522772008486 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 522772008487 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 522772008488 ATP binding site [chemical binding]; other site 522772008489 Mg2+ binding site [ion binding]; other site 522772008490 G-X-G motif; other site 522772008491 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 522772008492 Response regulator receiver domain; Region: Response_reg; pfam00072 522772008493 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 522772008494 active site 522772008495 phosphorylation site [posttranslational modification] 522772008496 intermolecular recognition site; other site 522772008497 dimerization interface [polypeptide binding]; other site 522772008498 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 522772008499 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 522772008500 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 522772008501 HEAT repeats; Region: HEAT_2; pfam13646 522772008502 HEAT repeats; Region: HEAT_2; pfam13646 522772008503 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 522772008504 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 522772008505 active site 522772008506 phosphorylation site [posttranslational modification] 522772008507 intermolecular recognition site; other site 522772008508 dimerization interface [polypeptide binding]; other site 522772008509 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 522772008510 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 522772008511 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 522772008512 active site 522772008513 phosphorylation site [posttranslational modification] 522772008514 intermolecular recognition site; other site 522772008515 dimerization interface [polypeptide binding]; other site 522772008516 CheB methylesterase; Region: CheB_methylest; pfam01339 522772008517 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 522772008518 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 522772008519 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 522772008520 putative CheA interaction surface; other site 522772008521 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 522772008522 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772008523 dimer interface [polypeptide binding]; other site 522772008524 putative CheW interface [polypeptide binding]; other site 522772008525 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 522772008526 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 522772008527 dimer interface [polypeptide binding]; other site 522772008528 putative CheW interface [polypeptide binding]; other site 522772008529 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 522772008530 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 522772008531 nucleotide binding site [chemical binding]; other site 522772008532 putative NEF/HSP70 interaction site [polypeptide binding]; other site 522772008533 SBD interface [polypeptide binding]; other site 522772008534 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 522772008535 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 522772008536 P-loop; other site 522772008537 Magnesium ion binding site [ion binding]; other site 522772008538 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 522772008539 Magnesium ion binding site [ion binding]; other site 522772008540 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 522772008541 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 522772008542 active site 522772008543 motif I; other site 522772008544 motif II; other site 522772008545 Soluble P-type ATPase [General function prediction only]; Region: COG4087 522772008546 Response regulator receiver domain; Region: Response_reg; pfam00072 522772008547 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 522772008548 active site 522772008549 phosphorylation site [posttranslational modification] 522772008550 intermolecular recognition site; other site 522772008551 dimerization interface [polypeptide binding]; other site 522772008552 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772008553 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772008554 metal binding site [ion binding]; metal-binding site 522772008555 active site 522772008556 I-site; other site 522772008557 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 522772008558 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 522772008559 putative active site [active] 522772008560 heme pocket [chemical binding]; other site 522772008561 PAS domain; Region: PAS; smart00091 522772008562 PAS domain S-box; Region: sensory_box; TIGR00229 522772008563 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 522772008564 putative active site [active] 522772008565 heme pocket [chemical binding]; other site 522772008566 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 522772008567 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 522772008568 putative active site [active] 522772008569 heme pocket [chemical binding]; other site 522772008570 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772008571 dimer interface [polypeptide binding]; other site 522772008572 phosphorylation site [posttranslational modification] 522772008573 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 522772008574 ATP binding site [chemical binding]; other site 522772008575 Mg2+ binding site [ion binding]; other site 522772008576 G-X-G motif; other site 522772008577 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 522772008578 GAF domain; Region: GAF_3; pfam13492 522772008579 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 522772008580 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772008581 dimer interface [polypeptide binding]; other site 522772008582 phosphorylation site [posttranslational modification] 522772008583 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 522772008584 ATP binding site [chemical binding]; other site 522772008585 Mg2+ binding site [ion binding]; other site 522772008586 G-X-G motif; other site 522772008587 HDOD domain; Region: HDOD; pfam08668 522772008588 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772008589 Zn2+ binding site [ion binding]; other site 522772008590 Mg2+ binding site [ion binding]; other site 522772008591 HAMP domain; Region: HAMP; pfam00672 522772008592 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 522772008593 PAS domain; Region: PAS_9; pfam13426 522772008594 putative active site [active] 522772008595 heme pocket [chemical binding]; other site 522772008596 PAS fold; Region: PAS; pfam00989 522772008597 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 522772008598 putative active site [active] 522772008599 heme pocket [chemical binding]; other site 522772008600 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772008601 dimer interface [polypeptide binding]; other site 522772008602 phosphorylation site [posttranslational modification] 522772008603 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 522772008604 ATP binding site [chemical binding]; other site 522772008605 Mg2+ binding site [ion binding]; other site 522772008606 G-X-G motif; other site 522772008607 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 522772008608 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 522772008609 ligand binding site [chemical binding]; other site 522772008610 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 522772008611 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 522772008612 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 522772008613 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 522772008614 Cl- selectivity filter; other site 522772008615 Cl- binding residues [ion binding]; other site 522772008616 pore gating glutamate residue; other site 522772008617 dimer interface [polypeptide binding]; other site 522772008618 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 522772008619 Methyltransferase domain; Region: Methyltransf_23; pfam13489 522772008620 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 522772008621 S-adenosylmethionine binding site [chemical binding]; other site 522772008622 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 522772008623 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 522772008624 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 522772008625 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 522772008626 homodimer interface [polypeptide binding]; other site 522772008627 substrate-cofactor binding pocket; other site 522772008628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772008629 catalytic residue [active] 522772008630 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 522772008631 O-Antigen ligase; Region: Wzy_C; pfam04932 522772008632 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 522772008633 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 522772008634 HlyD family secretion protein; Region: HlyD_3; pfam13437 522772008635 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 522772008636 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 522772008637 catalytic Zn binding site [ion binding]; other site 522772008638 structural Zn binding site [ion binding]; other site 522772008639 NAD(P) binding site [chemical binding]; other site 522772008640 NusB family; Region: NusB; pfam01029 522772008641 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 522772008642 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 522772008643 S-adenosylmethionine binding site [chemical binding]; other site 522772008644 heat shock protein HtpX; Provisional; Region: PRK03982 522772008645 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 522772008646 Protein of unknown function DUF116; Region: DUF116; pfam01976 522772008647 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 522772008648 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 522772008649 putative active site [active] 522772008650 substrate binding site [chemical binding]; other site 522772008651 putative cosubstrate binding site; other site 522772008652 catalytic site [active] 522772008653 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 522772008654 substrate binding site [chemical binding]; other site 522772008655 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772008656 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772008657 dimer interface [polypeptide binding]; other site 522772008658 phosphorylation site [posttranslational modification] 522772008659 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 522772008660 ATP binding site [chemical binding]; other site 522772008661 Mg2+ binding site [ion binding]; other site 522772008662 G-X-G motif; other site 522772008663 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 522772008664 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 522772008665 active site 522772008666 phosphorylation site [posttranslational modification] 522772008667 intermolecular recognition site; other site 522772008668 dimerization interface [polypeptide binding]; other site 522772008669 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772008670 Walker A motif; other site 522772008671 ATP binding site [chemical binding]; other site 522772008672 Walker B motif; other site 522772008673 arginine finger; other site 522772008674 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 522772008675 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 522772008676 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 522772008677 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 522772008678 active site 522772008679 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 522772008680 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 522772008681 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 522772008682 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 522772008683 phosphate binding site [ion binding]; other site 522772008684 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 522772008685 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 522772008686 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 522772008687 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 522772008688 Bacitracin resistance protein BacA; Region: BacA; pfam02673 522772008689 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 522772008690 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 522772008691 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 522772008692 Predicted membrane protein [Function unknown]; Region: COG2860 522772008693 UPF0126 domain; Region: UPF0126; pfam03458 522772008694 UPF0126 domain; Region: UPF0126; pfam03458 522772008695 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 522772008696 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 522772008697 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 522772008698 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 522772008699 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 522772008700 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 522772008701 substrate binding site; other site 522772008702 tetramer interface; other site 522772008703 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 522772008704 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 522772008705 NAD binding site [chemical binding]; other site 522772008706 substrate binding site [chemical binding]; other site 522772008707 homodimer interface [polypeptide binding]; other site 522772008708 active site 522772008709 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 522772008710 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 522772008711 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 522772008712 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 522772008713 molybdopterin cofactor binding site; other site 522772008714 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 522772008715 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; cd02775 522772008716 molybdopterin cofactor binding site; other site 522772008717 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 522772008718 active site 522772008719 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 522772008720 thiamine phosphate binding site [chemical binding]; other site 522772008721 active site 522772008722 pyrophosphate binding site [ion binding]; other site 522772008723 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 522772008724 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 522772008725 metal binding triad; other site 522772008726 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 522772008727 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 522772008728 metal binding triad; other site 522772008729 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 522772008730 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 522772008731 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 522772008732 ATP binding site [chemical binding]; other site 522772008733 Mg2+ binding site [ion binding]; other site 522772008734 G-X-G motif; other site 522772008735 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 522772008736 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 522772008737 active site 522772008738 substrate binding site [chemical binding]; other site 522772008739 metal binding site [ion binding]; metal-binding site 522772008740 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 522772008741 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 522772008742 Mg++ binding site [ion binding]; other site 522772008743 putative catalytic motif [active] 522772008744 substrate binding site [chemical binding]; other site 522772008745 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 522772008746 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 522772008747 replicative DNA helicase; Region: DnaB; TIGR00665 522772008748 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 522772008749 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 522772008750 Walker A motif; other site 522772008751 ATP binding site [chemical binding]; other site 522772008752 Walker B motif; other site 522772008753 DNA binding loops [nucleotide binding] 522772008754 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 522772008755 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 522772008756 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 522772008757 recombination regulator RecX; Reviewed; Region: recX; PRK00117 522772008758 recombinase A; Provisional; Region: recA; PRK09354 522772008759 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 522772008760 hexamer interface [polypeptide binding]; other site 522772008761 Walker A motif; other site 522772008762 ATP binding site [chemical binding]; other site 522772008763 Walker B motif; other site 522772008764 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 522772008765 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 522772008766 active site 522772008767 Methyltransferase domain; Region: Methyltransf_23; pfam13489 522772008768 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 522772008769 S-adenosylmethionine binding site [chemical binding]; other site 522772008770 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 522772008771 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 522772008772 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 522772008773 inhibitor-cofactor binding pocket; inhibition site 522772008774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772008775 catalytic residue [active] 522772008776 WbqC-like protein family; Region: WbqC; pfam08889 522772008777 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 522772008778 active site 522772008779 substrate binding site [chemical binding]; other site 522772008780 cosubstrate binding site; other site 522772008781 catalytic site [active] 522772008782 Transposase; Region: HTH_Tnp_1; pfam01527 522772008783 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 522772008784 putative transposase OrfB; Reviewed; Region: PHA02517 522772008785 HTH-like domain; Region: HTH_21; pfam13276 522772008786 Integrase core domain; Region: rve; pfam00665 522772008787 Integrase core domain; Region: rve_3; pfam13683 522772008788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 522772008789 NAD(P) binding site [chemical binding]; other site 522772008790 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 522772008791 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 522772008792 NADP-binding site; other site 522772008793 homotetramer interface [polypeptide binding]; other site 522772008794 substrate binding site [chemical binding]; other site 522772008795 homodimer interface [polypeptide binding]; other site 522772008796 active site 522772008797 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 522772008798 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 522772008799 Substrate binding site; other site 522772008800 Cupin domain; Region: Cupin_2; cl17218 522772008801 phosphomannomutase CpsG; Provisional; Region: PRK15414 522772008802 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 522772008803 active site 522772008804 substrate binding site [chemical binding]; other site 522772008805 metal binding site [ion binding]; metal-binding site 522772008806 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 522772008807 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522772008808 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 522772008809 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 522772008810 metal-binding site 522772008811 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 522772008812 competence damage-inducible protein A; Provisional; Region: PRK00549 522772008813 putative MPT binding site; other site 522772008814 Competence-damaged protein; Region: CinA; pfam02464 522772008815 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 522772008816 tetramer interfaces [polypeptide binding]; other site 522772008817 binuclear metal-binding site [ion binding]; other site 522772008818 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 522772008819 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 522772008820 catalytic residues [active] 522772008821 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 522772008822 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 522772008823 putative active site [active] 522772008824 oxyanion strand; other site 522772008825 catalytic triad [active] 522772008826 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 522772008827 putative active site pocket [active] 522772008828 4-fold oligomerization interface [polypeptide binding]; other site 522772008829 metal binding residues [ion binding]; metal-binding site 522772008830 3-fold/trimer interface [polypeptide binding]; other site 522772008831 Predicted membrane protein [Function unknown]; Region: COG3431 522772008832 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 522772008833 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 522772008834 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 522772008835 nucleotide binding region [chemical binding]; other site 522772008836 ATP-binding site [chemical binding]; other site 522772008837 SEC-C motif; Region: SEC-C; pfam02810 522772008838 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772008839 MULE transposase domain; Region: MULE; pfam10551 522772008840 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 522772008841 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 522772008842 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772008843 Walker A motif; other site 522772008844 ATP binding site [chemical binding]; other site 522772008845 Walker B motif; other site 522772008846 arginine finger; other site 522772008847 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 522772008848 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 522772008849 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 522772008850 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772008851 Walker B motif; other site 522772008852 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 522772008853 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 522772008854 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 522772008855 oligomer interface [polypeptide binding]; other site 522772008856 active site residues [active] 522772008857 trigger factor; Region: tig; TIGR00115 522772008858 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 522772008859 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 522772008860 Protein of unknown function DUF72; Region: DUF72; pfam01904 522772008861 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 522772008862 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 522772008863 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 522772008864 catalytic residue [active] 522772008865 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 522772008866 Response regulator receiver domain; Region: Response_reg; pfam00072 522772008867 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 522772008868 active site 522772008869 phosphorylation site [posttranslational modification] 522772008870 intermolecular recognition site; other site 522772008871 dimerization interface [polypeptide binding]; other site 522772008872 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772008873 dimer interface [polypeptide binding]; other site 522772008874 phosphorylation site [posttranslational modification] 522772008875 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 522772008876 ATP binding site [chemical binding]; other site 522772008877 Mg2+ binding site [ion binding]; other site 522772008878 G-X-G motif; other site 522772008879 pyruvate phosphate dikinase; Provisional; Region: PRK09279 522772008880 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 522772008881 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 522772008882 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 522772008883 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 522772008884 DALR anticodon binding domain; Region: DALR_1; pfam05746 522772008885 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 522772008886 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 522772008887 substrate binding site [chemical binding]; other site 522772008888 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 522772008889 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 522772008890 substrate binding site [chemical binding]; other site 522772008891 ligand binding site [chemical binding]; other site 522772008892 Human herpesvirus U55 protein; Region: Herpes_U55; pfam06501 522772008893 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 522772008894 dimerization interface [polypeptide binding]; other site 522772008895 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772008896 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772008897 dimer interface [polypeptide binding]; other site 522772008898 phosphorylation site [posttranslational modification] 522772008899 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 522772008900 ATP binding site [chemical binding]; other site 522772008901 Mg2+ binding site [ion binding]; other site 522772008902 G-X-G motif; other site 522772008903 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772008904 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772008905 metal binding site [ion binding]; metal-binding site 522772008906 active site 522772008907 I-site; other site 522772008908 Predicted permeases [General function prediction only]; Region: COG0701 522772008909 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 522772008910 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 522772008911 catalytic triad [active] 522772008912 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 522772008913 Integrase core domain; Region: rve; pfam00665 522772008914 transposase/IS protein; Provisional; Region: PRK09183 522772008915 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772008916 Walker A motif; other site 522772008917 ATP binding site [chemical binding]; other site 522772008918 Walker B motif; other site 522772008919 Transposase, Mutator family; Region: Transposase_mut; pfam00872 522772008920 MULE transposase domain; Region: MULE; pfam10551 522772008921 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 522772008922 Fic/DOC family; Region: Fic; pfam02661 522772008923 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 522772008924 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 522772008925 ring oligomerisation interface [polypeptide binding]; other site 522772008926 ATP/Mg binding site [chemical binding]; other site 522772008927 stacking interactions; other site 522772008928 hinge regions; other site 522772008929 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 522772008930 oligomerisation interface [polypeptide binding]; other site 522772008931 mobile loop; other site 522772008932 roof hairpin; other site 522772008933 NAD-dependent deacetylase; Provisional; Region: PRK00481 522772008934 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 522772008935 NAD+ binding site [chemical binding]; other site 522772008936 substrate binding site [chemical binding]; other site 522772008937 Zn binding site [ion binding]; other site 522772008938 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 522772008939 nucleotide binding site/active site [active] 522772008940 HIT family signature motif; other site 522772008941 catalytic residue [active] 522772008942 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 522772008943 Tetratricopeptide repeat; Region: TPR_16; pfam13432 522772008944 tetratricopeptide repeat protein; Provisional; Region: PRK11788 522772008945 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 522772008946 MutS domain I; Region: MutS_I; pfam01624 522772008947 MutS domain II; Region: MutS_II; pfam05188 522772008948 MutS domain III; Region: MutS_III; pfam05192 522772008949 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 522772008950 Walker A/P-loop; other site 522772008951 ATP binding site [chemical binding]; other site 522772008952 Q-loop/lid; other site 522772008953 ABC transporter signature motif; other site 522772008954 Walker B; other site 522772008955 D-loop; other site 522772008956 H-loop/switch region; other site 522772008957 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 522772008958 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 522772008959 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 522772008960 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 522772008961 Substrate binding site; other site 522772008962 Mg++ binding site; other site 522772008963 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 522772008964 active site 522772008965 substrate binding site [chemical binding]; other site 522772008966 CoA binding site [chemical binding]; other site 522772008967 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 522772008968 AMIN domain; Region: AMIN; pfam11741 522772008969 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 522772008970 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 522772008971 active site 522772008972 metal binding site [ion binding]; metal-binding site 522772008973 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 522772008974 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 522772008975 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 522772008976 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 522772008977 Protein of unknown function (DUF342); Region: DUF342; pfam03961 522772008978 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 522772008979 GAF domain; Region: GAF; pfam01590 522772008980 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772008981 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772008982 dimer interface [polypeptide binding]; other site 522772008983 phosphorylation site [posttranslational modification] 522772008984 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 522772008985 ATP binding site [chemical binding]; other site 522772008986 Mg2+ binding site [ion binding]; other site 522772008987 G-X-G motif; other site 522772008988 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 522772008989 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 522772008990 FeS/SAM binding site; other site 522772008991 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 522772008992 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 522772008993 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 522772008994 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 522772008995 FHIPEP family; Region: FHIPEP; pfam00771 522772008996 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 522772008997 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 522772008998 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 522772008999 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 522772009000 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 522772009001 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 522772009002 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 522772009003 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 522772009004 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 522772009005 DNA binding residues [nucleotide binding] 522772009006 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 522772009007 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 522772009008 active site 522772009009 phosphorylation site [posttranslational modification] 522772009010 intermolecular recognition site; other site 522772009011 dimerization interface [polypeptide binding]; other site 522772009012 CheB methylesterase; Region: CheB_methylest; pfam01339 522772009013 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 522772009014 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 522772009015 flagellar motor switch protein FliY; Validated; Region: PRK08432 522772009016 flagellar motor switch protein FliN; Region: fliN; TIGR02480 522772009017 Response regulator receiver domain; Region: Response_reg; pfam00072 522772009018 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 522772009019 active site 522772009020 phosphorylation site [posttranslational modification] 522772009021 intermolecular recognition site; other site 522772009022 dimerization interface [polypeptide binding]; other site 522772009023 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 522772009024 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 522772009025 putative binding surface; other site 522772009026 active site 522772009027 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 522772009028 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 522772009029 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 522772009030 ATP binding site [chemical binding]; other site 522772009031 Mg2+ binding site [ion binding]; other site 522772009032 G-X-G motif; other site 522772009033 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 522772009034 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 522772009035 Response regulator receiver domain; Region: Response_reg; pfam00072 522772009036 active site 522772009037 phosphorylation site [posttranslational modification] 522772009038 intermolecular recognition site; other site 522772009039 dimerization interface [polypeptide binding]; other site 522772009040 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 522772009041 ligand binding site [chemical binding]; other site 522772009042 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 522772009043 PAS domain; Region: PAS_9; pfam13426 522772009044 putative active site [active] 522772009045 heme pocket [chemical binding]; other site 522772009046 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 522772009047 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 522772009048 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 522772009049 anti sigma factor interaction site; other site 522772009050 regulatory phosphorylation site [posttranslational modification]; other site 522772009051 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 522772009052 anti sigma factor interaction site; other site 522772009053 regulatory phosphorylation site [posttranslational modification]; other site 522772009054 HEAT repeats; Region: HEAT_2; pfam13646 522772009055 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 522772009056 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 522772009057 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 522772009058 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 522772009059 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 522772009060 Mechanosensitive ion channel; Region: MS_channel; pfam00924 522772009061 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 522772009062 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 522772009063 catalytic loop [active] 522772009064 iron binding site [ion binding]; other site 522772009065 Response regulator receiver domain; Region: Response_reg; pfam00072 522772009066 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 522772009067 active site 522772009068 phosphorylation site [posttranslational modification] 522772009069 intermolecular recognition site; other site 522772009070 dimerization interface [polypeptide binding]; other site 522772009071 Sm and related proteins; Region: Sm_like; cl00259 522772009072 heptamer interface [polypeptide binding]; other site 522772009073 Sm1 motif; other site 522772009074 hexamer interface [polypeptide binding]; other site 522772009075 RNA binding site [nucleotide binding]; other site 522772009076 Sm2 motif; other site 522772009077 bacterial Hfq-like; Region: Hfq; cd01716 522772009078 hexamer interface [polypeptide binding]; other site 522772009079 Sm1 motif; other site 522772009080 RNA binding site [nucleotide binding]; other site 522772009081 Sm2 motif; other site 522772009082 DNA polymerase III subunit beta; Validated; Region: PRK05643 522772009083 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 522772009084 putative DNA binding surface [nucleotide binding]; other site 522772009085 dimer interface [polypeptide binding]; other site 522772009086 beta-clamp/clamp loader binding surface; other site 522772009087 beta-clamp/translesion DNA polymerase binding surface; other site 522772009088 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 522772009089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772009090 Walker A/P-loop; other site 522772009091 ATP binding site [chemical binding]; other site 522772009092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 522772009093 ABC transporter signature motif; other site 522772009094 Walker B; other site 522772009095 D-loop; other site 522772009096 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 522772009097 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 522772009098 ATP binding site [chemical binding]; other site 522772009099 Mg2+ binding site [ion binding]; other site 522772009100 G-X-G motif; other site 522772009101 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 522772009102 anchoring element; other site 522772009103 dimer interface [polypeptide binding]; other site 522772009104 ATP binding site [chemical binding]; other site 522772009105 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 522772009106 active site 522772009107 putative metal-binding site [ion binding]; other site 522772009108 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 522772009109 DNA gyrase subunit A; Validated; Region: PRK05560 522772009110 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 522772009111 CAP-like domain; other site 522772009112 active site 522772009113 primary dimer interface [polypeptide binding]; other site 522772009114 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 522772009115 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 522772009116 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 522772009117 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 522772009118 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 522772009119 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 522772009120 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 522772009121 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 522772009122 homodimer interface [polypeptide binding]; other site 522772009123 NADP binding site [chemical binding]; other site 522772009124 substrate binding site [chemical binding]; other site 522772009125 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 522772009126 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 522772009127 trmE is a tRNA modification GTPase; Region: trmE; cd04164 522772009128 G1 box; other site 522772009129 GTP/Mg2+ binding site [chemical binding]; other site 522772009130 Switch I region; other site 522772009131 G2 box; other site 522772009132 Switch II region; other site 522772009133 G3 box; other site 522772009134 G4 box; other site 522772009135 G5 box; other site 522772009136 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 522772009137 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 522772009138 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 522772009139 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 522772009140 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 522772009141 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 522772009142 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 522772009143 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 522772009144 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 522772009145 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 522772009146 Transcriptional regulator [Transcription]; Region: IclR; COG1414 522772009147 Bacterial transcriptional regulator; Region: IclR; pfam01614 522772009148 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 522772009149 active site 522772009150 dimerization interface [polypeptide binding]; other site 522772009151 PAS domain; Region: PAS_9; pfam13426 522772009152 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 522772009153 putative active site [active] 522772009154 heme pocket [chemical binding]; other site 522772009155 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 522772009156 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 522772009157 putative active site [active] 522772009158 heme pocket [chemical binding]; other site 522772009159 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772009160 dimer interface [polypeptide binding]; other site 522772009161 phosphorylation site [posttranslational modification] 522772009162 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 522772009163 ATP binding site [chemical binding]; other site 522772009164 Mg2+ binding site [ion binding]; other site 522772009165 G-X-G motif; other site 522772009166 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 522772009167 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 522772009168 active site 522772009169 phosphorylation site [posttranslational modification] 522772009170 intermolecular recognition site; other site 522772009171 dimerization interface [polypeptide binding]; other site 522772009172 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 522772009173 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 522772009174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772009175 homodimer interface [polypeptide binding]; other site 522772009176 catalytic residue [active] 522772009177 GTP-binding protein Der; Reviewed; Region: PRK00093 522772009178 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 522772009179 G1 box; other site 522772009180 GTP/Mg2+ binding site [chemical binding]; other site 522772009181 Switch I region; other site 522772009182 G2 box; other site 522772009183 Switch II region; other site 522772009184 G3 box; other site 522772009185 G4 box; other site 522772009186 G5 box; other site 522772009187 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 522772009188 G1 box; other site 522772009189 GTP/Mg2+ binding site [chemical binding]; other site 522772009190 Switch I region; other site 522772009191 G2 box; other site 522772009192 G3 box; other site 522772009193 Switch II region; other site 522772009194 G4 box; other site 522772009195 G5 box; other site 522772009196 argininosuccinate lyase; Provisional; Region: PRK00855 522772009197 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 522772009198 active sites [active] 522772009199 tetramer interface [polypeptide binding]; other site 522772009200 chaperone protein DnaJ; Provisional; Region: PRK10767 522772009201 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 522772009202 HSP70 interaction site [polypeptide binding]; other site 522772009203 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 522772009204 substrate binding site [polypeptide binding]; other site 522772009205 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 522772009206 Zn binding sites [ion binding]; other site 522772009207 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 522772009208 dimer interface [polypeptide binding]; other site 522772009209 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 522772009210 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 522772009211 nucleotide binding site [chemical binding]; other site 522772009212 NEF interaction site [polypeptide binding]; other site 522772009213 SBD interface [polypeptide binding]; other site 522772009214 GrpE; Region: GrpE; pfam01025 522772009215 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 522772009216 dimer interface [polypeptide binding]; other site 522772009217 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 522772009218 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 522772009219 NAD-dependent deacetylase; Provisional; Region: PRK00481 522772009220 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 522772009221 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 522772009222 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 522772009223 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 522772009224 DNA-binding site [nucleotide binding]; DNA binding site 522772009225 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 522772009226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772009227 homodimer interface [polypeptide binding]; other site 522772009228 catalytic residue [active] 522772009229 glutamate racemase; Provisional; Region: PRK00865 522772009230 LuxQ, periplasmic; Region: LuxQ-periplasm; pfam09308 522772009231 PAS domain; Region: PAS; smart00091 522772009232 PAS domain S-box; Region: sensory_box; TIGR00229 522772009233 putative active site [active] 522772009234 heme pocket [chemical binding]; other site 522772009235 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 522772009236 PAS domain; Region: PAS_9; pfam13426 522772009237 putative active site [active] 522772009238 heme pocket [chemical binding]; other site 522772009239 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 522772009240 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 522772009241 metal binding site [ion binding]; metal-binding site 522772009242 active site 522772009243 I-site; other site 522772009244 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 522772009245 DDE superfamily endonuclease; Region: DDE_5; cl17874 522772009246 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 522772009247 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 522772009248 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 522772009249 putative hydrophobic ligand binding site [chemical binding]; other site 522772009250 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 522772009251 TIGR01777 family protein; Region: yfcH 522772009252 putative NAD(P) binding site [chemical binding]; other site 522772009253 putative active site [active] 522772009254 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 522772009255 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 522772009256 propionate/acetate kinase; Provisional; Region: PRK12379 522772009257 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 522772009258 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772009259 Walker A motif; other site 522772009260 ATP binding site [chemical binding]; other site 522772009261 Walker B motif; other site 522772009262 arginine finger; other site 522772009263 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 522772009264 DNA repair protein RadA; Provisional; Region: PRK11823 522772009265 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 522772009266 Walker A motif; other site 522772009267 ATP binding site [chemical binding]; other site 522772009268 Walker B motif; other site 522772009269 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 522772009270 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 522772009271 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 522772009272 NAD binding site [chemical binding]; other site 522772009273 homotetramer interface [polypeptide binding]; other site 522772009274 homodimer interface [polypeptide binding]; other site 522772009275 substrate binding site [chemical binding]; other site 522772009276 active site 522772009277 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 522772009278 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 522772009279 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 522772009280 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 522772009281 tRNA; other site 522772009282 putative tRNA binding site [nucleotide binding]; other site 522772009283 putative NADP binding site [chemical binding]; other site 522772009284 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 522772009285 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 522772009286 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 522772009287 domain interfaces; other site 522772009288 active site 522772009289 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 522772009290 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 522772009291 active site 522772009292 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 522772009293 dimer interface [polypeptide binding]; other site 522772009294 active site 522772009295 Schiff base residues; other site 522772009296 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 522772009297 Walker A motif; other site 522772009298 ATP binding site [chemical binding]; other site 522772009299 Walker B motif; other site 522772009300 arginine finger; other site 522772009301 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 522772009302 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 522772009303 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 522772009304 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 522772009305 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 522772009306 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 522772009307 putative active site [active] 522772009308 heme pocket [chemical binding]; other site 522772009309 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 522772009310 dimer interface [polypeptide binding]; other site 522772009311 phosphorylation site [posttranslational modification] 522772009312 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 522772009313 ATP binding site [chemical binding]; other site 522772009314 Mg2+ binding site [ion binding]; other site 522772009315 G-X-G motif; other site 522772009316 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772009317 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 522772009318 ATP binding site [chemical binding]; other site 522772009319 Mg2+ binding site [ion binding]; other site 522772009320 G-X-G motif; other site 522772009321 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 522772009322 active site 522772009323 8-oxo-dGMP binding site [chemical binding]; other site 522772009324 nudix motif; other site 522772009325 metal binding site [ion binding]; metal-binding site 522772009326 Phosphoglycerate kinase; Region: PGK; pfam00162 522772009327 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 522772009328 substrate binding site [chemical binding]; other site 522772009329 hinge regions; other site 522772009330 ADP binding site [chemical binding]; other site 522772009331 catalytic site [active] 522772009332 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 522772009333 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 522772009334 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 522772009335 PAS domain; Region: PAS_9; pfam13426 522772009336 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 522772009337 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 522772009338 phosphoglyceromutase; Provisional; Region: PRK05434 522772009339 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 522772009340 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 522772009341 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 522772009342 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 522772009343 transketolase; Reviewed; Region: PRK05899 522772009344 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 522772009345 TPP-binding site [chemical binding]; other site 522772009346 dimer interface [polypeptide binding]; other site 522772009347 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 522772009348 PYR/PP interface [polypeptide binding]; other site 522772009349 dimer interface [polypeptide binding]; other site 522772009350 TPP binding site [chemical binding]; other site 522772009351 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 522772009352 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 522772009353 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 522772009354 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 522772009355 TPR repeat; Region: TPR_11; pfam13414 522772009356 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 522772009357 binding surface 522772009358 TPR motif; other site 522772009359 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 522772009360 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 522772009361 MOFRL family; Region: MOFRL; pfam05161 522772009362 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 522772009363 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 522772009364 putative active site [active] 522772009365 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 522772009366 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 522772009367 putative active site [active] 522772009368 EamA-like transporter family; Region: EamA; pfam00892 522772009369 EamA-like transporter family; Region: EamA; pfam00892 522772009370 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 522772009371 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 522772009372 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 522772009373 substrate binding site [chemical binding]; other site 522772009374 oxyanion hole (OAH) forming residues; other site 522772009375 trimer interface [polypeptide binding]; other site 522772009376 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 522772009377 substrate binding site [chemical binding]; other site 522772009378 oxyanion hole (OAH) forming residues; other site 522772009379 trimer interface [polypeptide binding]; other site 522772009380 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 522772009381 Membrane transport protein; Region: Mem_trans; cl09117 522772009382 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 522772009383 Transcriptional regulator [Transcription]; Region: LysR; COG0583 522772009384 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 522772009385 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 522772009386 dimerization interface [polypeptide binding]; other site 522772009387 Clostridium thermocellum (Cth)TTM and similar proteins, a subgroup of the CYTH-like superfamily; Region: CYTH-like_CthTTM-like; cd07761 522772009388 putative active site [active] 522772009389 putative metal binding residues [ion binding]; other site 522772009390 signature motif; other site 522772009391 putative dimer interface [polypeptide binding]; other site 522772009392 putative phosphate binding site [ion binding]; other site 522772009393 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 522772009394 nudix motif; other site 522772009395 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 522772009396 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 522772009397 phosphate binding site [ion binding]; other site 522772009398 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 522772009399 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 522772009400 putative substrate binding site [chemical binding]; other site 522772009401 putative ATP binding site [chemical binding]; other site 522772009402 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 522772009403 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 522772009404 putative ADP-binding pocket [chemical binding]; other site 522772009405 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 522772009406 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 522772009407 active site 522772009408 motif I; other site 522772009409 motif II; other site 522772009410 sucrose synthase; Region: sucr_synth; TIGR02470 522772009411 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 522772009412 putative ADP-binding pocket [chemical binding]; other site 522772009413 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 522772009414 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 522772009415 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 522772009416 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 522772009417 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 522772009418 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 522772009419 substrate binding pocket [chemical binding]; other site 522772009420 membrane-bound complex binding site; other site 522772009421 hinge residues; other site 522772009422 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 522772009423 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 522772009424 dimer interface [polypeptide binding]; other site 522772009425 phosphorylation site [posttranslational modification] 522772009426 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 522772009427 ATP binding site [chemical binding]; other site 522772009428 Mg2+ binding site [ion binding]; other site 522772009429 G-X-G motif; other site 522772009430 Predicted membrane protein [Function unknown]; Region: COG3462 522772009431 Short C-terminal domain; Region: SHOCT; pfam09851 522772009432 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 522772009433 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 522772009434 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 522772009435 tandem repeat interface [polypeptide binding]; other site 522772009436 oligomer interface [polypeptide binding]; other site 522772009437 active site residues [active] 522772009438 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 522772009439 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 522772009440 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 522772009441 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 522772009442 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 522772009443 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 522772009444 RNA binding site [nucleotide binding]; other site 522772009445 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 522772009446 RNA binding site [nucleotide binding]; other site 522772009447 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 522772009448 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 522772009449 RNA binding site [nucleotide binding]; other site 522772009450 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 522772009451 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 522772009452 RNA binding site [nucleotide binding]; other site 522772009453 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 522772009454 RNA binding site [nucleotide binding]; other site 522772009455 cytidylate kinase; Provisional; Region: cmk; PRK00023 522772009456 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 522772009457 CMP-binding site; other site 522772009458 The sites determining sugar specificity; other site 522772009459 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 522772009460 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 522772009461 hinge; other site 522772009462 active site 522772009463 Prephenate dehydrogenase; Region: PDH; pfam02153 522772009464 prephenate dehydrogenase; Validated; Region: PRK08507 522772009465 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 522772009466 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 522772009467 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 522772009468 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 522772009469 pyridoxal 5'-phosphate binding site [chemical binding]; other site 522772009470 homodimer interface [polypeptide binding]; other site 522772009471 catalytic residue [active] 522772009472 Chorismate mutase type II; Region: CM_2; smart00830 522772009473 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 522772009474 Prephenate dehydratase; Region: PDT; pfam00800 522772009475 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 522772009476 putative L-Phe binding site [chemical binding]; other site 522772009477 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 522772009478 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 522772009479 dimerization interface 3.5A [polypeptide binding]; other site 522772009480 active site 522772009481 Cobalt transport protein; Region: CbiQ; cl00463 522772009482 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 522772009483 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 522772009484 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 522772009485 putative active site [active] 522772009486 catalytic triad [active] 522772009487 putative dimer interface [polypeptide binding]; other site 522772009488 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 522772009489 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 522772009490 metal binding site 2 [ion binding]; metal-binding site 522772009491 putative DNA binding helix; other site 522772009492 metal binding site 1 [ion binding]; metal-binding site 522772009493 dimer interface [polypeptide binding]; other site 522772009494 structural Zn2+ binding site [ion binding]; other site 522772009495 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 522772009496 NodB motif; other site 522772009497 putative active site [active] 522772009498 putative catalytic site [active] 522772009499 Zn binding site [ion binding]; other site 522772009500 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 522772009501 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 522772009502 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 522772009503 putative acyl-acceptor binding pocket; other site 522772009504 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 522772009505 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 522772009506 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 522772009507 active site 522772009508 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 522772009509 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 522772009510 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 522772009511 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 522772009512 FeS/SAM binding site; other site 522772009513 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 522772009514 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 522772009515 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 522772009516 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 522772009517 ABC-ATPase subunit interface; other site 522772009518 dimer interface [polypeptide binding]; other site 522772009519 putative PBP binding regions; other site 522772009520 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 522772009521 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 522772009522 P-loop; other site 522772009523 Magnesium ion binding site [ion binding]; other site 522772009524 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 522772009525 Magnesium ion binding site [ion binding]; other site 522772009526 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 522772009527 ParB-like nuclease domain; Region: ParB; smart00470 522772009528 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 522772009529 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 522772009530 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 522772009531 triosephosphate isomerase; Provisional; Region: PRK14567 522772009532 substrate binding site [chemical binding]; other site 522772009533 dimer interface [polypeptide binding]; other site 522772009534 catalytic triad [active] 522772009535 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 522772009536 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 522772009537 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 522772009538 peptide binding site [polypeptide binding]; other site 522772009539 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 522772009540 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772009541 dimer interface [polypeptide binding]; other site 522772009542 conserved gate region; other site 522772009543 ABC-ATPase subunit interface; other site 522772009544 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 522772009545 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 522772009546 dimer interface [polypeptide binding]; other site 522772009547 conserved gate region; other site 522772009548 putative PBP binding loops; other site 522772009549 ABC-ATPase subunit interface; other site 522772009550 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 522772009551 active site 522772009552 phosphorylation site [posttranslational modification] 522772009553 intermolecular recognition site; other site 522772009554 dimerization interface [polypeptide binding]; other site 522772009555 HDOD domain; Region: HDOD; pfam08668 522772009556 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 522772009557 Acylphosphatase; Region: Acylphosphatase; pfam00708 522772009558 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 522772009559 HypF finger; Region: zf-HYPF; pfam07503 522772009560 HypF finger; Region: zf-HYPF; pfam07503 522772009561 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 522772009562 Cation transport protein; Region: TrkH; cl17365 522772009563 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 522772009564 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 522772009565 TrkA-N domain; Region: TrkA_N; pfam02254 522772009566 TrkA-C domain; Region: TrkA_C; pfam02080 522772009567 TrkA-N domain; Region: TrkA_N; pfam02254 522772009568 TrkA-C domain; Region: TrkA_C; pfam02080 522772009569 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 522772009570 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 522772009571 S-adenosylmethionine binding site [chemical binding]; other site 522772009572 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 522772009573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 522772009574 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 522772009575 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 522772009576 active site 522772009577 Zn binding site [ion binding]; other site 522772009578 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 522772009579 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 522772009580 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 522772009581 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 522772009582 thiamine phosphate binding site [chemical binding]; other site 522772009583 active site 522772009584 pyrophosphate binding site [ion binding]; other site 522772009585 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 522772009586 thiamine monophosphate kinase; Provisional; Region: PRK05731 522772009587 ATP binding site [chemical binding]; other site 522772009588 dimerization interface [polypeptide binding]; other site 522772009589 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 522772009590 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 522772009591 active site 522772009592 CoA binding site [chemical binding]; other site 522772009593 AMP binding site [chemical binding]; other site 522772009594 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 522772009595 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 522772009596 catalytic core [active] 522772009597 CHAD domain; Region: CHAD; pfam05235 522772009598 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 522772009599 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 522772009600 P-loop; other site 522772009601 Magnesium ion binding site [ion binding]; other site 522772009602 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 522772009603 Magnesium ion binding site [ion binding]; other site 522772009604 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 522772009605 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 522772009606 nucleotide binding site [chemical binding]; other site 522772009607 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 522772009608 Zn2+ binding site [ion binding]; other site 522772009609 Mg2+ binding site [ion binding]; other site 522772009610 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 522772009611 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 522772009612 polyphosphate kinase; Provisional; Region: PRK05443 522772009613 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 522772009614 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 522772009615 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 522772009616 putative domain interface [polypeptide binding]; other site 522772009617 putative active site [active] 522772009618 catalytic site [active] 522772009619 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 522772009620 putative domain interface [polypeptide binding]; other site 522772009621 putative active site [active] 522772009622 catalytic site [active] 522772009623 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 522772009624 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 522772009625 substrate binding site [chemical binding]; other site 522772009626 glutamase interaction surface [polypeptide binding]; other site 522772009627 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 522772009628 metal binding site [ion binding]; metal-binding site 522772009629 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 522772009630 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 522772009631 putative phosphate acyltransferase; Provisional; Region: PRK05331 522772009632 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 522772009633 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 522772009634 dimer interface [polypeptide binding]; other site 522772009635 active site 522772009636 CoA binding pocket [chemical binding]; other site 522772009637 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 522772009638 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 522772009639 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 522772009640 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 522772009641 NAD(P) binding site [chemical binding]; other site 522772009642 homotetramer interface [polypeptide binding]; other site 522772009643 homodimer interface [polypeptide binding]; other site 522772009644 active site 522772009645 acyl carrier protein; Provisional; Region: acpP; PRK00982 522772009646 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 522772009647 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 522772009648 dimer interface [polypeptide binding]; other site 522772009649 active site 522772009650 ribonuclease III; Reviewed; Region: rnc; PRK00102 522772009651 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 522772009652 dimerization interface [polypeptide binding]; other site 522772009653 active site 522772009654 metal binding site [ion binding]; metal-binding site 522772009655 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 522772009656 dsRNA binding site [nucleotide binding]; other site 522772009657 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 522772009658 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 522772009659 FeS/SAM binding site; other site 522772009660 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 522772009661 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 522772009662 S-adenosylmethionine binding site [chemical binding]; other site 522772009663 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 522772009664 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 522772009665 active site 522772009666 (T/H)XGH motif; other site 522772009667 Response regulator receiver domain; Region: Response_reg; pfam00072 522772009668 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 522772009669 active site 522772009670 phosphorylation site [posttranslational modification] 522772009671 intermolecular recognition site; other site 522772009672 dimerization interface [polypeptide binding]; other site 522772009673 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 522772009674 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 522772009675 dimerization interface [polypeptide binding]; other site 522772009676 putative ATP binding site [chemical binding]; other site 522772009677 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 522772009678 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 522772009679 active site 522772009680 substrate binding site [chemical binding]; other site 522772009681 cosubstrate binding site; other site 522772009682 catalytic site [active] 522772009683 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 522772009684 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 522772009685 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193