-- dump date 20140619_021730 -- class Genbank::misc_feature -- table misc_feature_note -- id note 360109000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 360109000002 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 360109000003 Walker A motif; other site 360109000004 ATP binding site [chemical binding]; other site 360109000005 Walker B motif; other site 360109000006 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 360109000007 DnaA box-binding interface [nucleotide binding]; other site 360109000008 DNA polymerase III subunit beta; Validated; Region: PRK05643 360109000009 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 360109000010 putative DNA binding surface [nucleotide binding]; other site 360109000011 dimer interface [polypeptide binding]; other site 360109000012 beta-clamp/clamp loader binding surface; other site 360109000013 beta-clamp/translesion DNA polymerase binding surface; other site 360109000014 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 360109000015 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 360109000016 Mg2+ binding site [ion binding]; other site 360109000017 G-X-G motif; other site 360109000018 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 360109000019 anchoring element; other site 360109000020 dimer interface [polypeptide binding]; other site 360109000021 ATP binding site [chemical binding]; other site 360109000022 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 360109000023 active site 360109000024 putative metal-binding site [ion binding]; other site 360109000025 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 360109000026 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 360109000027 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 360109000028 Na binding site [ion binding]; other site 360109000029 Protein of unknown function, DUF485; Region: DUF485; pfam04341 360109000030 Predicted permease [General function prediction only]; Region: COG2056 360109000031 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 360109000032 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 360109000033 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 360109000034 active site 360109000035 dimer interface [polypeptide binding]; other site 360109000036 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 360109000037 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 360109000038 active site 360109000039 FMN binding site [chemical binding]; other site 360109000040 substrate binding site [chemical binding]; other site 360109000041 3Fe-4S cluster binding site [ion binding]; other site 360109000042 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 360109000043 domain interface; other site 360109000044 Protein of unknown function DUF262; Region: DUF262; pfam03235 360109000045 Uncharacterized conserved protein [Function unknown]; Region: COG1479 360109000046 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 360109000047 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 360109000048 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360109000049 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 360109000050 RNA/DNA hybrid binding site [nucleotide binding]; other site 360109000051 active site 360109000052 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 360109000053 Helix-hairpin-helix motif; Region: HHH; pfam00633 360109000054 Rubrerythrin [Energy production and conversion]; Region: COG1592 360109000055 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 360109000056 binuclear metal center [ion binding]; other site 360109000057 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 360109000058 iron binding site [ion binding]; other site 360109000059 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 360109000060 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 360109000061 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 360109000062 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 360109000063 Ligand Binding Site [chemical binding]; other site 360109000064 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 360109000065 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 360109000066 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 360109000067 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360109000068 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360109000069 active site 360109000070 adenylosuccinate lyase; Provisional; Region: PRK08470 360109000071 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 360109000072 tetramer interface [polypeptide binding]; other site 360109000073 active site 360109000074 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 360109000075 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 360109000076 ATP cone domain; Region: ATP-cone; pfam03477 360109000077 Class I ribonucleotide reductase; Region: RNR_I; cd01679 360109000078 active site 360109000079 dimer interface [polypeptide binding]; other site 360109000080 catalytic residues [active] 360109000081 effector binding site; other site 360109000082 R2 peptide binding site; other site 360109000083 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 360109000084 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360109000085 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 360109000086 CTP synthetase; Validated; Region: pyrG; PRK05380 360109000087 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 360109000088 Catalytic site [active] 360109000089 active site 360109000090 UTP binding site [chemical binding]; other site 360109000091 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 360109000092 active site 360109000093 putative oxyanion hole; other site 360109000094 catalytic triad [active] 360109000095 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 360109000096 DHH family; Region: DHH; pfam01368 360109000097 DHHA1 domain; Region: DHHA1; pfam02272 360109000098 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 360109000099 active site 360109000100 homotetramer interface [polypeptide binding]; other site 360109000101 homodimer interface [polypeptide binding]; other site 360109000102 LysE type translocator; Region: LysE; cl00565 360109000103 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 360109000104 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 360109000105 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 360109000106 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 360109000107 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 360109000108 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360109000109 Walker B; other site 360109000110 D-loop; other site 360109000111 H-loop/switch region; other site 360109000112 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 360109000113 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 360109000114 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 360109000115 transmembrane helices; other site 360109000116 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 360109000117 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 360109000118 Mg++ binding site [ion binding]; other site 360109000119 putative catalytic motif [active] 360109000120 putative substrate binding site [chemical binding]; other site 360109000121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 360109000122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 360109000123 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 360109000124 Cytochrome c [Energy production and conversion]; Region: COG3258 360109000125 Cytochrome c; Region: Cytochrom_C; pfam00034 360109000126 Cytochrome c; Region: Cytochrom_C; pfam00034 360109000127 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 360109000128 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 360109000129 G1 box; other site 360109000130 putative GEF interaction site [polypeptide binding]; other site 360109000131 GTP/Mg2+ binding site [chemical binding]; other site 360109000132 Switch I region; other site 360109000133 G2 box; other site 360109000134 G3 box; other site 360109000135 Switch II region; other site 360109000136 G4 box; other site 360109000137 G5 box; other site 360109000138 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 360109000139 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 360109000140 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 360109000141 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12812 360109000142 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 360109000143 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 360109000144 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 360109000145 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360109000146 Protein of unknown function (DUF342); Region: DUF342; pfam03961 360109000147 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 360109000148 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 360109000149 Ligand Binding Site [chemical binding]; other site 360109000150 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 360109000151 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 360109000152 putative active site [active] 360109000153 flagellar motor switch protein FliY; Validated; Region: PRK08432 360109000154 flagellar motor switch protein FliN; Region: fliN; TIGR02480 360109000155 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 360109000156 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 360109000157 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 360109000158 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360109000159 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 360109000160 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 360109000161 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 360109000162 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 360109000163 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 360109000164 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 360109000165 catalytic center binding site [active] 360109000166 ATP binding site [chemical binding]; other site 360109000167 Dehydroquinase class II; Region: DHquinase_II; pfam01220 360109000168 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 360109000169 trimer interface [polypeptide binding]; other site 360109000170 active site 360109000171 dimer interface [polypeptide binding]; other site 360109000172 chlorohydrolase; Provisional; Region: PRK08418 360109000173 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_D; cd01312 360109000174 active site 360109000175 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 360109000176 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 360109000177 tandem repeat interface [polypeptide binding]; other site 360109000178 oligomer interface [polypeptide binding]; other site 360109000179 active site residues [active] 360109000180 Uncharacterized conserved protein [Function unknown]; Region: COG1556 360109000181 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 360109000182 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 360109000183 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 360109000184 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 360109000185 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 360109000186 Cysteine-rich domain; Region: CCG; pfam02754 360109000187 Cysteine-rich domain; Region: CCG; pfam02754 360109000188 L-lactate permease; Region: Lactate_perm; cl00701 360109000189 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 360109000190 Cytochrome bd-type quinol oxidase, subunit 1 [Energy production and conversion]; Region: CydA; COG1271 360109000191 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 360109000192 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 360109000193 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 360109000194 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 360109000195 aspartate racemase; Region: asp_race; TIGR00035 360109000196 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 360109000197 ligand binding site [chemical binding]; other site 360109000198 active site 360109000199 UGI interface [polypeptide binding]; other site 360109000200 catalytic site [active] 360109000201 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 360109000202 Aspartase; Region: Aspartase; cd01357 360109000203 active sites [active] 360109000204 tetramer interface [polypeptide binding]; other site 360109000205 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 360109000206 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 360109000207 Autotransporter beta-domain; Region: Autotransporter; smart00869 360109000208 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 360109000209 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 360109000210 GTPase CgtA; Reviewed; Region: obgE; PRK12299 360109000211 GTP1/OBG; Region: GTP1_OBG; pfam01018 360109000212 Obg GTPase; Region: Obg; cd01898 360109000213 G1 box; other site 360109000214 GTP/Mg2+ binding site [chemical binding]; other site 360109000215 Switch I region; other site 360109000216 G2 box; other site 360109000217 G3 box; other site 360109000218 Switch II region; other site 360109000219 G4 box; other site 360109000220 G5 box; other site 360109000221 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 360109000222 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 360109000223 putative active site [active] 360109000224 substrate binding site [chemical binding]; other site 360109000225 putative cosubstrate binding site; other site 360109000226 catalytic site [active] 360109000227 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 360109000228 substrate binding site [chemical binding]; other site 360109000229 biotin--protein ligase; Provisional; Region: PRK08477 360109000230 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 360109000231 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 360109000232 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 360109000233 P-loop; other site 360109000234 Magnesium ion binding site [ion binding]; other site 360109000235 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 360109000236 Magnesium ion binding site [ion binding]; other site 360109000237 ParB-like nuclease domain; Region: ParB; smart00470 360109000238 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 360109000239 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 360109000240 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 360109000241 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 360109000242 F0F1 ATP synthase subunit delta; Validated; Region: PRK08474 360109000243 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 360109000244 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 360109000245 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 360109000246 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 360109000247 beta subunit interaction interface [polypeptide binding]; other site 360109000248 Walker A motif; other site 360109000249 ATP binding site [chemical binding]; other site 360109000250 Walker B motif; other site 360109000251 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360109000252 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 360109000253 core domain interface [polypeptide binding]; other site 360109000254 delta subunit interface [polypeptide binding]; other site 360109000255 epsilon subunit interface [polypeptide binding]; other site 360109000256 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 360109000257 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 360109000258 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 360109000259 alpha subunit interaction interface [polypeptide binding]; other site 360109000260 Walker A motif; other site 360109000261 ATP binding site [chemical binding]; other site 360109000262 Walker B motif; other site 360109000263 inhibitor binding site; inhibition site 360109000264 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360109000265 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 360109000266 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 360109000267 gamma subunit interface [polypeptide binding]; other site 360109000268 epsilon subunit interface [polypeptide binding]; other site 360109000269 LBP interface [polypeptide binding]; other site 360109000270 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 360109000271 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360109000272 TolR protein; Region: tolR; TIGR02801 360109000273 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 360109000274 TonB C terminal; Region: TonB_2; pfam13103 360109000275 translocation protein TolB; Provisional; Region: tolB; PRK04043 360109000276 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 360109000277 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360109000278 ligand binding site [chemical binding]; other site 360109000279 Tetratricopeptide repeat; Region: TPR_16; pfam13432 360109000280 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 360109000281 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 360109000282 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 360109000283 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 360109000284 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 360109000285 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 360109000286 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 360109000287 Ligand Binding Site [chemical binding]; other site 360109000288 Isochorismatase family; Region: Isochorismatase; pfam00857 360109000289 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 360109000290 catalytic triad [active] 360109000291 conserved cis-peptide bond; other site 360109000292 putative recombination protein RecO; Provisional; Region: PRK13908 360109000293 metal-binding heat shock protein; Provisional; Region: PRK00016 360109000294 Autotransporter beta-domain; Region: Autotransporter; smart00869 360109000295 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 360109000296 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 360109000297 FMN binding site [chemical binding]; other site 360109000298 active site 360109000299 catalytic residues [active] 360109000300 substrate binding site [chemical binding]; other site 360109000301 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 360109000302 Uncharacterized conserved protein [Function unknown]; Region: COG1576 360109000303 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 360109000304 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 360109000305 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 360109000306 Putative fructose-1,6-bisphosphatase or related enzymes of inositol monophosphatase family. These are Mg++ dependent phosphatases. Members in this family may have fructose-1,6-bisphosphatase and/or inositol-monophosphatase activity. Fructose-1; Region: Arch_FBPase_2; cd01642 360109000307 putative active site [active] 360109000308 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 360109000309 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360109000310 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360109000311 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360109000312 Surface antigen; Region: Bac_surface_Ag; pfam01103 360109000313 prephenate dehydrogenase; Validated; Region: PRK08507 360109000314 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 360109000315 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360109000316 Peptidase family M23; Region: Peptidase_M23; pfam01551 360109000317 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 360109000318 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 360109000319 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 360109000320 Homoserine kinase [Amino acid transport and metabolism]; Region: ThrB; COG0083 360109000321 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 360109000322 Predicted nucleic-acid-binding protein implicated in transcription termination [Transcription]; Region: COG2740 360109000323 putative RNA binding cleft [nucleotide binding]; other site 360109000324 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 360109000325 translation initiation factor IF-2; Region: IF-2; TIGR00487 360109000326 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 360109000327 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 360109000328 G1 box; other site 360109000329 putative GEF interaction site [polypeptide binding]; other site 360109000330 GTP/Mg2+ binding site [chemical binding]; other site 360109000331 Switch I region; other site 360109000332 G2 box; other site 360109000333 G3 box; other site 360109000334 Switch II region; other site 360109000335 G4 box; other site 360109000336 G5 box; other site 360109000337 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 360109000338 Translation-initiation factor 2; Region: IF-2; pfam11987 360109000339 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 360109000340 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 360109000341 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 360109000342 Sm and related proteins; Region: Sm_like; cl00259 360109000343 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 360109000344 putative oligomer interface [polypeptide binding]; other site 360109000345 putative RNA binding site [nucleotide binding]; other site 360109000346 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 360109000347 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 360109000348 McrBC 5-methylcytosine restriction system component [Defense mechanisms]; Region: McrC; COG4268 360109000349 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 360109000350 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 360109000351 dimer interface [polypeptide binding]; other site 360109000352 putative PBP binding regions; other site 360109000353 ABC-ATPase subunit interface; other site 360109000354 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 360109000355 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 360109000356 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 360109000357 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 360109000358 putative metal binding residues [ion binding]; other site 360109000359 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 360109000360 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 360109000361 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360109000362 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360109000363 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 360109000364 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360109000365 catalytic residues [active] 360109000366 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 360109000367 homoserine dehydrogenase; Provisional; Region: PRK06349 360109000368 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 360109000369 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 360109000370 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 360109000371 aspartate aminotransferase; Provisional; Region: PRK08636 360109000372 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 360109000373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109000374 homodimer interface [polypeptide binding]; other site 360109000375 catalytic residue [active] 360109000376 Helix-turn-helix domain; Region: HTH_25; pfam13413 360109000377 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 360109000378 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 360109000379 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 360109000380 Predicted methyltransferases [General function prediction only]; Region: COG0313 360109000381 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 360109000382 putative SAM binding site [chemical binding]; other site 360109000383 putative homodimer interface [polypeptide binding]; other site 360109000384 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 360109000385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 360109000386 RNA methyltransferase, RsmE family; Region: TIGR00046 360109000387 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 360109000388 queuosine biosynthesis protein QueD; Region: queuosine_QueD; TIGR03367 360109000389 active site 360109000390 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 360109000391 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 360109000392 FeS/SAM binding site; other site 360109000393 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 360109000394 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 360109000395 FeS/SAM binding site; other site 360109000396 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 360109000397 prenyltransferase; Reviewed; Region: ubiA; PRK12874 360109000398 UbiA prenyltransferase family; Region: UbiA; pfam01040 360109000399 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 360109000400 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 360109000401 Predicted membrane protein [Function unknown]; Region: COG1971 360109000402 Domain of unknown function DUF; Region: DUF204; pfam02659 360109000403 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 360109000404 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 360109000405 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 360109000406 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360109000407 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 360109000408 S-adenosylmethionine binding site [chemical binding]; other site 360109000409 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 360109000410 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 360109000411 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 360109000412 NAD(P) binding pocket [chemical binding]; other site 360109000413 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 360109000414 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 360109000415 Walker A/P-loop; other site 360109000416 ATP binding site [chemical binding]; other site 360109000417 Q-loop/lid; other site 360109000418 ABC transporter signature motif; other site 360109000419 Walker B; other site 360109000420 D-loop; other site 360109000421 H-loop/switch region; other site 360109000422 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 360109000423 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 360109000424 dimer interface [polypeptide binding]; other site 360109000425 conserved gate region; other site 360109000426 putative PBP binding loops; other site 360109000427 ABC-ATPase subunit interface; other site 360109000428 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 360109000429 dimer interface [polypeptide binding]; other site 360109000430 conserved gate region; other site 360109000431 putative PBP binding loops; other site 360109000432 ABC-ATPase subunit interface; other site 360109000433 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 360109000434 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 360109000435 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 360109000436 Domain of unknown function DUF21; Region: DUF21; pfam01595 360109000437 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 360109000438 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 360109000439 Transporter associated domain; Region: CorC_HlyC; smart01091 360109000440 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 360109000441 PhnA protein; Region: PhnA; pfam03831 360109000442 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 360109000443 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 360109000444 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 360109000445 active site 360109000446 substrate binding site [chemical binding]; other site 360109000447 cosubstrate binding site; other site 360109000448 catalytic site [active] 360109000449 Uncharacterized conserved protein [Function unknown]; Region: COG0062 360109000450 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 360109000451 putative substrate binding site [chemical binding]; other site 360109000452 putative ATP binding site [chemical binding]; other site 360109000453 Uncharacterized conserved protein [Function unknown]; Region: COG1432 360109000454 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 360109000455 putative metal binding site [ion binding]; other site 360109000456 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 360109000457 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 360109000458 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 360109000459 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 360109000460 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 360109000461 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 360109000462 active site 360109000463 catalytic residues [active] 360109000464 metal binding site [ion binding]; metal-binding site 360109000465 Clp protease; Region: CLP_protease; pfam00574 360109000466 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 360109000467 oligomer interface [polypeptide binding]; other site 360109000468 active site residues [active] 360109000469 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 360109000470 homodecamer interface [polypeptide binding]; other site 360109000471 GTP cyclohydrolase I; Provisional; Region: PLN03044 360109000472 active site 360109000473 putative catalytic site residues [active] 360109000474 zinc binding site [ion binding]; other site 360109000475 GTP-CH-I/GFRP interaction surface; other site 360109000476 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 360109000477 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 360109000478 Walker A motif/ATP binding site; other site 360109000479 Walker B motif; other site 360109000480 amidophosphoribosyltransferase; Provisional; Region: PRK08525 360109000481 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 360109000482 active site 360109000483 tetramer interface [polypeptide binding]; other site 360109000484 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360109000485 active site 360109000486 dihydrodipicolinate reductase; Provisional; Region: PRK00048 360109000487 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 360109000488 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 360109000489 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 360109000490 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 360109000491 Walker A motif; other site 360109000492 ATP binding site [chemical binding]; other site 360109000493 Walker B motif; other site 360109000494 arginine finger; other site 360109000495 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 360109000496 Predicted membrane protein [Function unknown]; Region: COG1297 360109000497 putative oligopeptide transporter, OPT family; Region: TIGR00733 360109000498 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 360109000499 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 360109000500 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 360109000501 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 360109000502 active site 360109000503 dimer interface [polypeptide binding]; other site 360109000504 motif 1; other site 360109000505 motif 2; other site 360109000506 motif 3; other site 360109000507 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 360109000508 anticodon binding site; other site 360109000509 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 360109000510 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 360109000511 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 360109000512 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 360109000513 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 360109000514 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 360109000515 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 360109000516 putative acetyltransferase; Provisional; Region: PRK03624 360109000517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360109000518 Coenzyme A binding pocket [chemical binding]; other site 360109000519 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 360109000520 feedback inhibition sensing region; other site 360109000521 homohexameric interface [polypeptide binding]; other site 360109000522 nucleotide binding site [chemical binding]; other site 360109000523 N-acetyl-L-glutamate binding site [chemical binding]; other site 360109000524 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 360109000525 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 360109000526 inhibitor-cofactor binding pocket; inhibition site 360109000527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109000528 catalytic residue [active] 360109000529 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 360109000530 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 360109000531 S-adenosylmethionine binding site [chemical binding]; other site 360109000532 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 360109000533 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 360109000534 trimer interface [polypeptide binding]; other site 360109000535 putative metal binding site [ion binding]; other site 360109000536 putative nicotinate phosphoribosyltransferase; Region: NAPRTase_put; TIGR01513 360109000537 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 360109000538 active site 360109000539 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 360109000540 substrate binding pocket (H-site) [chemical binding]; other site 360109000541 N-terminal domain interface [polypeptide binding]; other site 360109000542 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 360109000543 dimer interface [polypeptide binding]; other site 360109000544 putative radical transfer pathway; other site 360109000545 diiron center [ion binding]; other site 360109000546 tyrosyl radical; other site 360109000547 RDD family; Region: RDD; pfam06271 360109000548 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360109000549 active site 360109000550 ribosome recycling factor; Reviewed; Region: frr; PRK00083 360109000551 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 360109000552 hinge region; other site 360109000553 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 360109000554 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 360109000555 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 360109000556 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 360109000557 active site clefts [active] 360109000558 zinc binding site [ion binding]; other site 360109000559 dimer interface [polypeptide binding]; other site 360109000560 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 360109000561 Mechanosensitive ion channel; Region: MS_channel; pfam00924 360109000562 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 360109000563 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 360109000564 trimerization site [polypeptide binding]; other site 360109000565 active site 360109000566 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 360109000567 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 360109000568 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 360109000569 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 360109000570 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360109000571 catalytic residue [active] 360109000572 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 360109000573 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 360109000574 23S rRNA binding site [nucleotide binding]; other site 360109000575 L21 binding site [polypeptide binding]; other site 360109000576 L13 binding site [polypeptide binding]; other site 360109000577 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 360109000578 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 360109000579 metabolite-proton symporter; Region: 2A0106; TIGR00883 360109000580 putative substrate translocation pore; other site 360109000581 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 360109000582 trimer interface [polypeptide binding]; other site 360109000583 dimer interface [polypeptide binding]; other site 360109000584 putative active site [active] 360109000585 Protein of unknown function (DUF493); Region: DUF493; pfam04359 360109000586 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 360109000587 putative catalytic site [active] 360109000588 putative metal binding site [ion binding]; other site 360109000589 putative phosphate binding site [ion binding]; other site 360109000590 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 360109000591 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 360109000592 Probable transposase; Region: OrfB_IS605; pfam01385 360109000593 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 360109000594 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 360109000595 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 360109000596 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360109000597 catalytic residue [active] 360109000598 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 360109000599 homotrimer interaction site [polypeptide binding]; other site 360109000600 putative active site [active] 360109000601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 360109000602 YheO-like PAS domain; Region: PAS_6; pfam08348 360109000603 HTH domain; Region: HTH_22; pfam13309 360109000604 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 360109000605 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 360109000606 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 360109000607 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 360109000608 tetramer interface [polypeptide binding]; other site 360109000609 heme binding pocket [chemical binding]; other site 360109000610 NADPH binding site [chemical binding]; other site 360109000611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4378 360109000612 flavodoxin FldA; Validated; Region: PRK09267 360109000613 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 360109000614 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360109000615 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 360109000616 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 360109000617 G1 box; other site 360109000618 putative GEF interaction site [polypeptide binding]; other site 360109000619 GTP/Mg2+ binding site [chemical binding]; other site 360109000620 Switch I region; other site 360109000621 G2 box; other site 360109000622 G3 box; other site 360109000623 Switch II region; other site 360109000624 G4 box; other site 360109000625 G5 box; other site 360109000626 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 360109000627 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 360109000628 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 360109000629 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 360109000630 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 360109000631 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 360109000632 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 360109000633 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360109000634 putative substrate translocation pore; other site 360109000635 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 360109000636 active site 360109000637 dimerization interface [polypeptide binding]; other site 360109000638 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 360109000639 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 360109000640 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 360109000641 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 360109000642 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360109000643 active site 360109000644 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 360109000645 Sulfate transporter family; Region: Sulfate_transp; pfam00916 360109000646 hypothetical protein; Provisional; Region: PRK08444 360109000647 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 360109000648 FeS/SAM binding site; other site 360109000649 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 360109000650 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 360109000651 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 360109000652 glutaminase active site [active] 360109000653 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 360109000654 dimer interface [polypeptide binding]; other site 360109000655 active site 360109000656 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 360109000657 dimer interface [polypeptide binding]; other site 360109000658 active site 360109000659 fumarate hydratase; Reviewed; Region: fumC; PRK00485 360109000660 Class II fumarases; Region: Fumarase_classII; cd01362 360109000661 active site 360109000662 tetramer interface [polypeptide binding]; other site 360109000663 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 360109000664 Domain of unknown function DUF20; Region: UPF0118; pfam01594 360109000665 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 360109000666 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 360109000667 Walker A motif; other site 360109000668 ATP binding site [chemical binding]; other site 360109000669 Walker B motif; other site 360109000670 arginine finger; other site 360109000671 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 360109000672 integrase; Provisional; Region: PRK09692 360109000673 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 360109000674 active site 360109000675 DNA binding site [nucleotide binding] 360109000676 Int/Topo IB signature motif; other site 360109000677 Helix-turn-helix domain; Region: HTH_17; pfam12728 360109000678 YopX protein; Region: YopX; pfam09643 360109000679 ORF6N domain; Region: ORF6N; pfam10543 360109000680 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 360109000681 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 360109000682 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 360109000683 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 360109000684 AntA/AntB antirepressor; Region: AntA; pfam08346 360109000685 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 360109000686 Catalytic site [active] 360109000687 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 360109000688 Terminase-like family; Region: Terminase_6; pfam03237 360109000689 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 360109000690 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 360109000691 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 360109000692 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 360109000693 putative substrate translocation pore; other site 360109000694 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 360109000695 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 360109000696 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 360109000697 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 360109000698 putative domain interface [polypeptide binding]; other site 360109000699 putative active site [active] 360109000700 catalytic site [active] 360109000701 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 360109000702 putative domain interface [polypeptide binding]; other site 360109000703 putative active site [active] 360109000704 catalytic site [active] 360109000705 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 360109000706 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 360109000707 Formate-dependent nitrite reductase, periplasmic cytochrome c552 subunit [Inorganic ion transport and metabolism]; Region: NrfA; COG3303 360109000708 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 360109000709 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 360109000710 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 360109000711 active site 360109000712 DNA binding site [nucleotide binding] 360109000713 Int/Topo IB signature motif; other site 360109000714 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 360109000715 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360109000716 Zonular occludens toxin (Zot); Region: Zot; cl17485 360109000717 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 360109000718 Restriction endonuclease; Region: Mrr_cat; pfam04471 360109000719 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 360109000720 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 360109000721 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 360109000722 GTP binding site; other site 360109000723 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 360109000724 Domain of unknown function (DUF814); Region: DUF814; pfam05670 360109000725 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 360109000726 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 360109000727 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]; Region: Dxr; COG0743 360109000728 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 360109000729 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 360109000730 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 360109000731 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 360109000732 active site 360109000733 Zn binding site [ion binding]; other site 360109000734 UGMP family protein; Validated; Region: PRK09604 360109000735 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 360109000736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 360109000737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 360109000738 flagellin; Reviewed; Region: PRK08411 360109000739 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360109000740 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 360109000741 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 360109000742 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 360109000743 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 360109000744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 360109000745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 360109000746 flagellin modification protein A; Provisional; Region: PRK09186 360109000747 classical (c) SDR, subgroup 8; Region: SDR_c8; cd08930 360109000748 putative NAD(P) binding site [chemical binding]; other site 360109000749 active site 360109000750 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 360109000751 ligand binding site; other site 360109000752 tetramer interface; other site 360109000753 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 360109000754 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 360109000755 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 360109000756 FOG: CBS domain [General function prediction only]; Region: COG0517 360109000757 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 360109000758 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 360109000759 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 360109000760 Substrate binding site; other site 360109000761 metal-binding site 360109000762 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 360109000763 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 360109000764 active site 360109000765 homodimer interface [polypeptide binding]; other site 360109000766 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 360109000767 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 360109000768 active site 360109000769 substrate binding site [chemical binding]; other site 360109000770 cosubstrate binding site; other site 360109000771 catalytic site [active] 360109000772 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 360109000773 active site 360109000774 hexamer interface [polypeptide binding]; other site 360109000775 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 360109000776 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 360109000777 active site 360109000778 homodimer interface [polypeptide binding]; other site 360109000779 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 360109000780 NeuB family; Region: NeuB; pfam03102 360109000781 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 360109000782 NeuB binding interface [polypeptide binding]; other site 360109000783 putative substrate binding site [chemical binding]; other site 360109000784 FemAB family; Region: FemAB; pfam02388 360109000785 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360109000786 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 360109000787 S-adenosylmethionine binding site [chemical binding]; other site 360109000788 N2227-like protein; Region: N2227; pfam07942 360109000789 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 360109000790 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 360109000791 inhibitor-cofactor binding pocket; inhibition site 360109000792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109000793 catalytic residue [active] 360109000794 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 360109000795 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 360109000796 NAD binding site [chemical binding]; other site 360109000797 substrate binding site [chemical binding]; other site 360109000798 active site 360109000799 pseudaminic acid synthase; Region: PseI; TIGR03586 360109000800 NeuB family; Region: NeuB; pfam03102 360109000801 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 360109000802 NeuB binding interface [polypeptide binding]; other site 360109000803 putative substrate binding site [chemical binding]; other site 360109000804 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 360109000805 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_III; cd01996 360109000806 Ligand Binding Site [chemical binding]; other site 360109000807 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13152 360109000808 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 360109000809 putative active site [active] 360109000810 oxyanion strand; other site 360109000811 catalytic triad [active] 360109000812 imidazole glycerol phosphate synthase subunit HisF; Provisional; Region: PRK01033 360109000813 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 360109000814 substrate binding site [chemical binding]; other site 360109000815 glutamase interaction surface [polypeptide binding]; other site 360109000816 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 360109000817 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360109000818 Coenzyme A binding pocket [chemical binding]; other site 360109000819 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 360109000820 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 360109000821 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 360109000822 ligand binding site; other site 360109000823 tetramer interface; other site 360109000824 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 360109000825 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360109000826 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 360109000827 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 360109000828 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 360109000829 acyl-activating enzyme (AAE) consensus motif; other site 360109000830 AMP binding site [chemical binding]; other site 360109000831 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 360109000832 Phosphopantetheine attachment site; Region: PP-binding; cl09936 360109000833 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12880 360109000834 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 360109000835 dimer interface [polypeptide binding]; other site 360109000836 active site 360109000837 CoA binding pocket [chemical binding]; other site 360109000838 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 360109000839 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 360109000840 active site 360109000841 motif I; other site 360109000842 motif II; other site 360109000843 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase_4; pfam13669 360109000844 active site 360109000845 metal binding site [ion binding]; metal-binding site 360109000846 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360109000847 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 360109000848 S-adenosylmethionine binding site [chemical binding]; other site 360109000849 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 360109000850 Aminoglycoside N3'-acetyltransferase [Defense mechanisms]; Region: COG2746 360109000851 Uncharacterized protein conserved in bacteria with an aminopeptidase-like domain [General function prediction only]; Region: COG4310 360109000852 M28 Zn-Peptidases; Region: M28_like_3; cd05644 360109000853 active site 360109000854 metal binding site [ion binding]; metal-binding site 360109000855 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360109000856 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 360109000857 inhibitor-cofactor binding pocket; inhibition site 360109000858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109000859 catalytic residue [active] 360109000860 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 360109000861 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 360109000862 NAD(P) binding site [chemical binding]; other site 360109000863 homodimer interface [polypeptide binding]; other site 360109000864 substrate binding site [chemical binding]; other site 360109000865 active site 360109000866 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 360109000867 trimer interface [polypeptide binding]; other site 360109000868 active site 360109000869 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 360109000870 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 360109000871 carboxyltransferase (CT) interaction site; other site 360109000872 biotinylation site [posttranslational modification]; other site 360109000873 biotin carboxylase; Validated; Region: PRK08462 360109000874 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360109000875 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 360109000876 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 360109000877 SurA N-terminal domain; Region: SurA_N; pfam09312 360109000878 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 360109000879 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 360109000880 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360109000881 active site 360109000882 HIGH motif; other site 360109000883 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360109000884 active site 360109000885 KMSKS motif; other site 360109000886 Malic enzyme, N-terminal domain; Region: malic; pfam00390 360109000887 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 360109000888 putative NAD(P) binding site [chemical binding]; other site 360109000889 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 360109000890 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 360109000891 TrkA-N domain; Region: TrkA_N; pfam02254 360109000892 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 360109000893 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 360109000894 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360109000895 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 360109000896 RNA binding surface [nucleotide binding]; other site 360109000897 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360109000898 active site 360109000899 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 360109000900 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 360109000901 Interdomain contacts; other site 360109000902 Cytokine receptor motif; other site 360109000903 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 360109000904 Interdomain contacts; other site 360109000905 Cytokine receptor motif; other site 360109000906 tRNA (guanine-N(7)-)-methyltransferase; Provisional; Region: PRK14121 360109000907 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360109000908 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360109000909 Walker A/P-loop; other site 360109000910 ATP binding site [chemical binding]; other site 360109000911 Q-loop/lid; other site 360109000912 ABC transporter signature motif; other site 360109000913 Walker B; other site 360109000914 D-loop; other site 360109000915 H-loop/switch region; other site 360109000916 FtsX-like permease family; Region: FtsX; pfam02687 360109000917 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360109000918 Peptidase family M23; Region: Peptidase_M23; pfam01551 360109000919 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 360109000920 putative nucleotide binding site [chemical binding]; other site 360109000921 uridine monophosphate binding site [chemical binding]; other site 360109000922 homohexameric interface [polypeptide binding]; other site 360109000923 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 360109000924 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 360109000925 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360109000926 Zn2+ binding site [ion binding]; other site 360109000927 Mg2+ binding site [ion binding]; other site 360109000928 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 360109000929 synthetase active site [active] 360109000930 NTP binding site [chemical binding]; other site 360109000931 metal binding site [ion binding]; metal-binding site 360109000932 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 360109000933 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 360109000934 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 360109000935 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 360109000936 active site 360109000937 HIGH motif; other site 360109000938 dimer interface [polypeptide binding]; other site 360109000939 KMSKS motif; other site 360109000940 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 360109000941 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 360109000942 FMN binding site [chemical binding]; other site 360109000943 substrate binding site [chemical binding]; other site 360109000944 putative catalytic residue [active] 360109000945 AMIN domain; Region: AMIN; pfam11741 360109000946 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 360109000947 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 360109000948 active site 360109000949 metal binding site [ion binding]; metal-binding site 360109000950 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 360109000951 Uncharacterized conserved protein [Function unknown]; Region: COG4121 360109000952 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 360109000953 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 360109000954 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 360109000955 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 360109000956 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 360109000957 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 360109000958 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 360109000959 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 360109000960 putative substrate-binding site; other site 360109000961 nickel binding site [ion binding]; other site 360109000962 recombination protein RecR; Reviewed; Region: recR; PRK00076 360109000963 RecR protein; Region: RecR; pfam02132 360109000964 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 360109000965 putative active site [active] 360109000966 putative metal-binding site [ion binding]; other site 360109000967 tetramer interface [polypeptide binding]; other site 360109000968 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360109000969 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 360109000970 dimer interface [polypeptide binding]; other site 360109000971 phosphorylation site [posttranslational modification] 360109000972 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 360109000973 ATP binding site [chemical binding]; other site 360109000974 Mg2+ binding site [ion binding]; other site 360109000975 G-X-G motif; other site 360109000976 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360109000977 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 360109000978 active site 360109000979 phosphorylation site [posttranslational modification] 360109000980 intermolecular recognition site; other site 360109000981 dimerization interface [polypeptide binding]; other site 360109000982 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 360109000983 DNA binding site [nucleotide binding] 360109000984 chaperone protein DnaJ; Provisional; Region: PRK10767 360109000985 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 360109000986 HSP70 interaction site [polypeptide binding]; other site 360109000987 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 360109000988 substrate binding site [polypeptide binding]; other site 360109000989 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 360109000990 Zn binding sites [ion binding]; other site 360109000991 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 360109000992 dimer interface [polypeptide binding]; other site 360109000993 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 360109000994 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 360109000995 Low molecular weight phosphatase family; Region: LMWPc; cd00115 360109000996 active site 360109000997 drug efflux system protein MdtG; Provisional; Region: PRK09874 360109000998 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 360109000999 putative substrate translocation pore; other site 360109001000 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 360109001001 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 360109001002 active site 1 [active] 360109001003 dimer interface [polypeptide binding]; other site 360109001004 hexamer interface [polypeptide binding]; other site 360109001005 active site 2 [active] 360109001006 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 360109001007 putative active site [active] 360109001008 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 360109001009 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 360109001010 oligomer interface [polypeptide binding]; other site 360109001011 RNA binding site [nucleotide binding]; other site 360109001012 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 360109001013 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 360109001014 RNase E interface [polypeptide binding]; other site 360109001015 trimer interface [polypeptide binding]; other site 360109001016 active site 360109001017 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 360109001018 putative nucleic acid binding region [nucleotide binding]; other site 360109001019 G-X-X-G motif; other site 360109001020 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 360109001021 RNA binding site [nucleotide binding]; other site 360109001022 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 360109001023 OstA-like protein; Region: OstA; cl00844 360109001024 Organic solvent tolerance protein; Region: OstA_C; pfam04453 360109001025 Predicted membrane protein/domain [Function unknown]; Region: COG1714 360109001026 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 360109001027 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 360109001028 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 360109001029 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 360109001030 GMP synthase; Reviewed; Region: guaA; PRK00074 360109001031 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 360109001032 AMP/PPi binding site [chemical binding]; other site 360109001033 candidate oxyanion hole; other site 360109001034 catalytic triad [active] 360109001035 potential glutamine specificity residues [chemical binding]; other site 360109001036 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 360109001037 ATP Binding subdomain [chemical binding]; other site 360109001038 Ligand Binding sites [chemical binding]; other site 360109001039 Dimerization subdomain; other site 360109001040 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 360109001041 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 360109001042 GIY-YIG motif/motif A; other site 360109001043 active site 360109001044 catalytic site [active] 360109001045 putative DNA binding site [nucleotide binding]; other site 360109001046 metal binding site [ion binding]; metal-binding site 360109001047 UvrB/uvrC motif; Region: UVR; pfam02151 360109001048 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 360109001049 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 360109001050 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 360109001051 FeS/SAM binding site; other site 360109001052 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 360109001053 substrate binding site [chemical binding]; other site 360109001054 active site 360109001055 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 360109001056 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 360109001057 putative substrate translocation pore; other site 360109001058 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 360109001059 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 360109001060 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 360109001061 active site 360109001062 hydrophilic channel; other site 360109001063 dimerization interface [polypeptide binding]; other site 360109001064 catalytic residues [active] 360109001065 active site lid [active] 360109001066 exopolyphosphatase; Region: exo_poly_only; TIGR03706 360109001067 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 360109001068 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 360109001069 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360109001070 Peptidase family M23; Region: Peptidase_M23; pfam01551 360109001071 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 360109001072 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 360109001073 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 360109001074 motif II; other site 360109001075 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 360109001076 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 360109001077 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 360109001078 TrkA-N domain; Region: TrkA_N; pfam02254 360109001079 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 360109001080 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 360109001081 DNA binding residues [nucleotide binding] 360109001082 putative dimer interface [polypeptide binding]; other site 360109001083 chaperone protein DnaJ; Provisional; Region: PRK14299 360109001084 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 360109001085 HSP70 interaction site [polypeptide binding]; other site 360109001086 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 360109001087 substrate binding site [polypeptide binding]; other site 360109001088 dimer interface [polypeptide binding]; other site 360109001089 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 360109001090 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 360109001091 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 360109001092 protein binding site [polypeptide binding]; other site 360109001093 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 360109001094 protein binding site [polypeptide binding]; other site 360109001095 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360109001096 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 360109001097 active site 360109001098 phosphorylation site [posttranslational modification] 360109001099 intermolecular recognition site; other site 360109001100 dimerization interface [polypeptide binding]; other site 360109001101 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 360109001102 DNA binding site [nucleotide binding] 360109001103 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360109001104 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 360109001105 dimer interface [polypeptide binding]; other site 360109001106 phosphorylation site [posttranslational modification] 360109001107 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 360109001108 ATP binding site [chemical binding]; other site 360109001109 Mg2+ binding site [ion binding]; other site 360109001110 G-X-G motif; other site 360109001111 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360109001112 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 360109001113 active site 360109001114 phosphorylation site [posttranslational modification] 360109001115 intermolecular recognition site; other site 360109001116 dimerization interface [polypeptide binding]; other site 360109001117 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 360109001118 DNA binding site [nucleotide binding] 360109001119 chaperonin GroL; Region: GroEL; TIGR02348 360109001120 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 360109001121 ring oligomerisation interface [polypeptide binding]; other site 360109001122 ATP/Mg binding site [chemical binding]; other site 360109001123 stacking interactions; other site 360109001124 hinge regions; other site 360109001125 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 360109001126 oligomerisation interface [polypeptide binding]; other site 360109001127 mobile loop; other site 360109001128 roof hairpin; other site 360109001129 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 360109001130 Lumazine binding domain; Region: Lum_binding; pfam00677 360109001131 Lumazine binding domain; Region: Lum_binding; pfam00677 360109001132 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 360109001133 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 360109001134 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360109001135 Peptidase family M23; Region: Peptidase_M23; pfam01551 360109001136 FAD binding domain; Region: FAD_binding_4; pfam01565 360109001137 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 360109001138 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 360109001139 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360109001140 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 360109001141 phosphodiesterase; Provisional; Region: PRK12704 360109001142 KH domain; Region: KH_1; pfam00013 360109001143 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360109001144 Zn2+ binding site [ion binding]; other site 360109001145 Mg2+ binding site [ion binding]; other site 360109001146 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 360109001147 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360109001148 catalytic residues [active] 360109001149 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 360109001150 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 360109001151 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 360109001152 P loop; other site 360109001153 GTP binding site [chemical binding]; other site 360109001154 DNA repair protein RadA; Provisional; Region: PRK11823 360109001155 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 360109001156 Walker A motif; other site 360109001157 ATP binding site [chemical binding]; other site 360109001158 Walker B motif; other site 360109001159 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 360109001160 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 360109001161 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 360109001162 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 360109001163 FAD binding site [chemical binding]; other site 360109001164 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 360109001165 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 360109001166 THF binding site; other site 360109001167 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 360109001168 substrate binding site [chemical binding]; other site 360109001169 THF binding site; other site 360109001170 zinc-binding site [ion binding]; other site 360109001171 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 360109001172 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 360109001173 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 360109001174 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 360109001175 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 360109001176 S-ribosylhomocysteinase; Provisional; Region: PRK02260 360109001177 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 360109001178 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 360109001179 GatB domain; Region: GatB_Yqey; smart00845 360109001180 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 360109001181 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 360109001182 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 360109001183 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 360109001184 dihydroorotase; Provisional; Region: PRK08417 360109001185 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 360109001186 active site 360109001187 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 360109001188 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 360109001189 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360109001190 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 360109001191 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360109001192 dimer interface [polypeptide binding]; other site 360109001193 putative CheW interface [polypeptide binding]; other site 360109001194 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 360109001195 PAS domain; Region: PAS_9; pfam13426 360109001196 putative active site [active] 360109001197 heme pocket [chemical binding]; other site 360109001198 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 360109001199 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 360109001200 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 360109001201 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 360109001202 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; cl00938 360109001203 iron-sulfur cluster [ion binding]; other site 360109001204 [2Fe-2S] cluster binding site [ion binding]; other site 360109001205 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 360109001206 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 360109001207 intrachain domain interface; other site 360109001208 interchain domain interface [polypeptide binding]; other site 360109001209 heme bH binding site [chemical binding]; other site 360109001210 Qi binding site; other site 360109001211 heme bL binding site [chemical binding]; other site 360109001212 Qo binding site; other site 360109001213 interchain domain interface [polypeptide binding]; other site 360109001214 intrachain domain interface; other site 360109001215 Qi binding site; other site 360109001216 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 360109001217 Qo binding site; other site 360109001218 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 360109001219 Cytochrome c; Region: Cytochrom_C; pfam00034 360109001220 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 360109001221 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 360109001222 S-adenosylmethionine binding site [chemical binding]; other site 360109001223 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 360109001224 rRNA interaction site [nucleotide binding]; other site 360109001225 S8 interaction site; other site 360109001226 putative laminin-1 binding site; other site 360109001227 elongation factor Ts; Provisional; Region: tsf; PRK09377 360109001228 UBA/TS-N domain; Region: UBA; pfam00627 360109001229 Elongation factor TS; Region: EF_TS; pfam00889 360109001230 Elongation factor TS; Region: EF_TS; pfam00889 360109001231 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360109001232 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360109001233 Walker A/P-loop; other site 360109001234 ATP binding site [chemical binding]; other site 360109001235 Q-loop/lid; other site 360109001236 ABC transporter signature motif; other site 360109001237 Walker B; other site 360109001238 D-loop; other site 360109001239 H-loop/switch region; other site 360109001240 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 360109001241 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 360109001242 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 360109001243 catalytic site [active] 360109001244 G-X2-G-X-G-K; other site 360109001245 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 360109001246 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 360109001247 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 360109001248 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 360109001249 active site 360109001250 HIGH motif; other site 360109001251 KMSK motif region; other site 360109001252 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 360109001253 tRNA binding surface [nucleotide binding]; other site 360109001254 anticodon binding site; other site 360109001255 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 360109001256 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 360109001257 hypothetical protein; Provisional; Region: PRK12378 360109001258 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 360109001259 active site 360109001260 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 360109001261 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 360109001262 LDH/MDH dimer interface [polypeptide binding]; other site 360109001263 NAD(P) binding site [chemical binding]; other site 360109001264 substrate binding site [chemical binding]; other site 360109001265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 360109001266 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 360109001267 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 360109001268 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 360109001269 metal-binding site [ion binding] 360109001270 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360109001271 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 360109001272 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 360109001273 Walker A motif; other site 360109001274 ATP binding site [chemical binding]; other site 360109001275 DNA polymerase III subunit delta'; Validated; Region: PRK08485 360109001276 Walker B motif; other site 360109001277 transcription termination factor Rho; Provisional; Region: rho; PRK09376 360109001278 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 360109001279 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 360109001280 RNA binding site [nucleotide binding]; other site 360109001281 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 360109001282 multimer interface [polypeptide binding]; other site 360109001283 Walker A motif; other site 360109001284 ATP binding site [chemical binding]; other site 360109001285 Walker B motif; other site 360109001286 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 360109001287 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 360109001288 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 360109001289 metal-binding site [ion binding] 360109001290 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360109001291 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 360109001292 motif II; other site 360109001293 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 360109001294 Cytochrome c553 [Energy production and conversion]; Region: COG2863 360109001295 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 360109001296 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 360109001297 active site 360109001298 motif I; other site 360109001299 motif II; other site 360109001300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360109001301 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 360109001302 NAD(P) binding site [chemical binding]; other site 360109001303 active site 360109001304 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 360109001305 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 360109001306 putative ribose interaction site [chemical binding]; other site 360109001307 putative ADP binding site [chemical binding]; other site 360109001308 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 360109001309 active site 360109001310 nucleotide binding site [chemical binding]; other site 360109001311 HIGH motif; other site 360109001312 KMSKS motif; other site 360109001313 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 360109001314 dimer interface [polypeptide binding]; other site 360109001315 active site 360109001316 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 360109001317 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360109001318 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 360109001319 putative active site [active] 360109001320 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360109001321 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 360109001322 active site 360109001323 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 360109001324 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 360109001325 Ligand binding site; other site 360109001326 metal-binding site 360109001327 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360109001328 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 360109001329 active site 360109001330 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360109001331 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 360109001332 putative ADP-binding pocket [chemical binding]; other site 360109001333 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360109001334 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 360109001335 putative metal binding site; other site 360109001336 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 360109001337 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 360109001338 putative acyl-acceptor binding pocket; other site 360109001339 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360109001340 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 360109001341 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 360109001342 putative active site [active] 360109001343 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 360109001344 active site 360109001345 catalytic site [active] 360109001346 substrate binding site [chemical binding]; other site 360109001347 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 360109001348 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 360109001349 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 360109001350 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 360109001351 NAD binding site [chemical binding]; other site 360109001352 homodimer interface [polypeptide binding]; other site 360109001353 active site 360109001354 substrate binding site [chemical binding]; other site 360109001355 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360109001356 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 360109001357 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360109001358 Walker A/P-loop; other site 360109001359 ATP binding site [chemical binding]; other site 360109001360 Q-loop/lid; other site 360109001361 ABC transporter signature motif; other site 360109001362 Walker B; other site 360109001363 D-loop; other site 360109001364 H-loop/switch region; other site 360109001365 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360109001366 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 360109001367 putative ADP-binding pocket [chemical binding]; other site 360109001368 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360109001369 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 360109001370 active site 360109001371 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360109001372 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 360109001373 putative ADP-binding pocket [chemical binding]; other site 360109001374 Oligosaccharyl transferase STT3 subunit; Region: STT3; pfam02516 360109001375 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360109001376 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 360109001377 putative ADP-binding pocket [chemical binding]; other site 360109001378 Bacterial sugar transferase; Region: Bac_transf; pfam02397 360109001379 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 360109001380 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 360109001381 putative trimer interface [polypeptide binding]; other site 360109001382 putative CoA binding site [chemical binding]; other site 360109001383 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 360109001384 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 360109001385 inhibitor-cofactor binding pocket; inhibition site 360109001386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109001387 catalytic residue [active] 360109001388 Cache domain; Region: Cache_1; pfam02743 360109001389 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 360109001390 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 360109001391 active site 360109001392 phosphorylation site [posttranslational modification] 360109001393 intermolecular recognition site; other site 360109001394 dimerization interface [polypeptide binding]; other site 360109001395 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 360109001396 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 360109001397 S-adenosylmethionine binding site [chemical binding]; other site 360109001398 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 360109001399 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 360109001400 Walker A motif; other site 360109001401 ATP binding site [chemical binding]; other site 360109001402 Walker B motif; other site 360109001403 arginine finger; other site 360109001404 Peptidase family M41; Region: Peptidase_M41; pfam01434 360109001405 Phosphatidylserine decarboxylase [Lipid metabolism]; Region: Psd; COG0688 360109001406 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 360109001407 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 360109001408 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 360109001409 dinuclear metal binding motif [ion binding]; other site 360109001410 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 360109001411 methionine sulfoxide reductase B; Provisional; Region: PRK05508 360109001412 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 360109001413 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 360109001414 PAS domain; Region: PAS_9; pfam13426 360109001415 putative active site [active] 360109001416 heme pocket [chemical binding]; other site 360109001417 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 360109001418 PAS domain; Region: PAS_9; pfam13426 360109001419 putative active site [active] 360109001420 heme pocket [chemical binding]; other site 360109001421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360109001422 dimer interface [polypeptide binding]; other site 360109001423 putative CheW interface [polypeptide binding]; other site 360109001424 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 360109001425 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 360109001426 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 360109001427 Walker A motif; other site 360109001428 ATP binding site [chemical binding]; other site 360109001429 Walker B motif; other site 360109001430 arginine finger; other site 360109001431 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 360109001432 Walker A motif; other site 360109001433 ATP binding site [chemical binding]; other site 360109001434 Walker B motif; other site 360109001435 arginine finger; other site 360109001436 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 360109001437 Uncharacterized conserved protein [Function unknown]; Region: COG2127 360109001438 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360109001439 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 360109001440 SmpB-tmRNA interface; other site 360109001441 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 360109001442 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 360109001443 nitrogenase reductase; Reviewed; Region: nifH; PRK13233 360109001444 RNA-binding global regulator CsrA [Signal transduction mechanisms]; Region: CsrA; COG1551 360109001445 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK04099 360109001446 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 360109001447 active site 360109001448 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 360109001449 Part of AAA domain; Region: AAA_19; pfam13245 360109001450 Family description; Region: UvrD_C_2; pfam13538 360109001451 radical SAM/SPASM domain protein, GRRM system; Region: rSAM_GlyRichRpt; TIGR04261 360109001452 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 360109001453 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 360109001454 active site 360109001455 Zn binding site [ion binding]; other site 360109001456 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 360109001457 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360109001458 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 360109001459 Na+/serine symporter [Amino acid transport and metabolism]; Region: SstT; COG3633 360109001460 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360109001461 S-adenosylmethionine synthetase; Validated; Region: PRK05250 360109001462 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 360109001463 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 360109001464 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 360109001465 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 360109001466 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 360109001467 active site 360109001468 catalytic triad [active] 360109001469 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 360109001470 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 360109001471 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 360109001472 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 360109001473 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 360109001474 Protein export membrane protein; Region: SecD_SecF; pfam02355 360109001475 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 360109001476 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 360109001477 HIGH motif; other site 360109001478 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360109001479 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 360109001480 active site 360109001481 KMSKS motif; other site 360109001482 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360109001483 tRNA binding surface [nucleotide binding]; other site 360109001484 anticodon binding site; other site 360109001485 Lipopolysaccharide-assembly; Region: LptE; pfam04390 360109001486 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 360109001487 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360109001488 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 360109001489 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 360109001490 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 360109001491 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 360109001492 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 360109001493 ATP binding site [chemical binding]; other site 360109001494 putative Mg++ binding site [ion binding]; other site 360109001495 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 360109001496 nucleotide binding region [chemical binding]; other site 360109001497 ATP-binding site [chemical binding]; other site 360109001498 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 360109001499 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 360109001500 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 360109001501 Walker A motif; other site 360109001502 ATP binding site [chemical binding]; other site 360109001503 Walker B motif; other site 360109001504 arginine finger; other site 360109001505 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 360109001506 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360109001507 minor groove reading motif; other site 360109001508 helix-hairpin-helix signature motif; other site 360109001509 active site 360109001510 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 360109001511 substrate binding site [chemical binding]; other site 360109001512 dimer interface [polypeptide binding]; other site 360109001513 ATP binding site [chemical binding]; other site 360109001514 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 360109001515 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 360109001516 active site 360109001517 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 360109001518 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 360109001519 flagellar assembly protein FliW; Provisional; Region: PRK13282 360109001520 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 360109001521 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 360109001522 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 360109001523 Walker A motif; other site 360109001524 ATP binding site [chemical binding]; other site 360109001525 Walker B motif; other site 360109001526 arginine finger; other site 360109001527 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 360109001528 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 360109001529 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 360109001530 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 360109001531 dimer interface [polypeptide binding]; other site 360109001532 ssDNA binding site [nucleotide binding]; other site 360109001533 tetramer (dimer of dimers) interface [polypeptide binding]; other site 360109001534 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 360109001535 Protein of unknown function (DUF535); Region: DUF535; cl01128 360109001536 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 360109001537 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 360109001538 active site 360109001539 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 360109001540 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 360109001541 putative substrate binding region [chemical binding]; other site 360109001542 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 360109001543 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 360109001544 dimer interface [polypeptide binding]; other site 360109001545 FMN binding site [chemical binding]; other site 360109001546 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 360109001547 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 360109001548 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360109001549 active site 360109001550 HIGH motif; other site 360109001551 nucleotide binding site [chemical binding]; other site 360109001552 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360109001553 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 360109001554 active site 360109001555 KMSKS motif; other site 360109001556 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 360109001557 tRNA binding surface [nucleotide binding]; other site 360109001558 anticodon binding site; other site 360109001559 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 360109001560 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 360109001561 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 360109001562 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 360109001563 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 360109001564 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 360109001565 active site 360109001566 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 360109001567 Predicted amidohydrolase [General function prediction only]; Region: COG0388 360109001568 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 360109001569 active site 360109001570 catalytic triad [active] 360109001571 dimer interface [polypeptide binding]; other site 360109001572 Predicted amidohydrolase [General function prediction only]; Region: COG0388 360109001573 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 360109001574 active site 360109001575 catalytic triad [active] 360109001576 dimer interface [polypeptide binding]; other site 360109001577 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 360109001578 active site 360109001579 catalytic site [active] 360109001580 Zn binding site [ion binding]; other site 360109001581 tetramer interface [polypeptide binding]; other site 360109001582 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 360109001583 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 360109001584 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 360109001585 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 360109001586 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 360109001587 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 360109001588 Na binding site [ion binding]; other site 360109001589 substrate binding site [chemical binding]; other site 360109001590 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 360109001591 Cache domain; Region: Cache_1; pfam02743 360109001592 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 360109001593 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 360109001594 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360109001595 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 360109001596 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360109001597 Walker A/P-loop; other site 360109001598 ATP binding site [chemical binding]; other site 360109001599 Q-loop/lid; other site 360109001600 ABC transporter signature motif; other site 360109001601 Walker B; other site 360109001602 D-loop; other site 360109001603 H-loop/switch region; other site 360109001604 Smr domain; Region: Smr; pfam01713 360109001605 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 360109001606 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 360109001607 LysE type translocator; Region: LysE; pfam01810 360109001608 succinyl-diaminopimelate desuccinylase, proteobacterial clade; Region: dapE_proteo; TIGR01246 360109001609 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 360109001610 metal binding site [ion binding]; metal-binding site 360109001611 dimer interface [polypeptide binding]; other site 360109001612 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 360109001613 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 360109001614 Methyltransferase domain; Region: Methyltransf_26; pfam13659 360109001615 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 360109001616 Staphylococcal nuclease homologues; Region: SNc; smart00318 360109001617 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 360109001618 Catalytic site; other site 360109001619 YopX protein; Region: YopX; pfam09643 360109001620 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 360109001621 PYR/PP interface [polypeptide binding]; other site 360109001622 dimer interface [polypeptide binding]; other site 360109001623 TPP binding site [chemical binding]; other site 360109001624 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 360109001625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360109001626 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 360109001627 NAD(P) binding site [chemical binding]; other site 360109001628 active site 360109001629 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 360109001630 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 360109001631 NADP binding site [chemical binding]; other site 360109001632 active site 360109001633 putative substrate binding site [chemical binding]; other site 360109001634 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 360109001635 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 360109001636 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 360109001637 inhibitor-cofactor binding pocket; inhibition site 360109001638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109001639 catalytic residue [active] 360109001640 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 360109001641 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 360109001642 Ligand binding site; other site 360109001643 metal-binding site 360109001644 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 360109001645 active site 360109001646 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 360109001647 active site 360109001648 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 360109001649 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 360109001650 UDP-galactopyranose mutase; Region: GLF; pfam03275 360109001651 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 360109001652 active site 360109001653 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360109001654 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 360109001655 active site 360109001656 Uncharacterized conserved protein [Function unknown]; Region: COG1739 360109001657 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 360109001658 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 360109001659 ligand binding site; other site 360109001660 tetramer interface; other site 360109001661 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 360109001662 substrate binding site [chemical binding]; other site 360109001663 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360109001664 active site 360109001665 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 360109001666 active site 360109001667 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 360109001668 active site 360109001669 catalytic residues [active] 360109001670 metal binding site [ion binding]; metal-binding site 360109001671 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 360109001672 thiS-thiF/thiG interaction site; other site 360109001673 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 360109001674 thiamine biosynthesis protein ThiF, family 2; Region: thiF_fam2; TIGR02354 360109001675 E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on...; Region: E1_ThiF_like; cd01487 360109001676 putative ATP binding site [chemical binding]; other site 360109001677 putative substrate interface [chemical binding]; other site 360109001678 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 360109001679 ThiS interaction site; other site 360109001680 putative active site [active] 360109001681 tetramer interface [polypeptide binding]; other site 360109001682 thiazole biosynthesis protein ThiH; Region: thiH; TIGR02351 360109001683 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 360109001684 FeS/SAM binding site; other site 360109001685 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 360109001686 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 360109001687 thiamine phosphate binding site [chemical binding]; other site 360109001688 active site 360109001689 pyrophosphate binding site [ion binding]; other site 360109001690 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 360109001691 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 360109001692 active site 360109001693 homodimer interface [polypeptide binding]; other site 360109001694 cell division protein FtsW; Region: ftsW; TIGR02614 360109001695 acetyl-CoA carboxylase subunit A; Validated; Region: PRK08463 360109001696 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360109001697 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360109001698 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 360109001699 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 360109001700 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 360109001701 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 360109001702 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 360109001703 HSP70 interaction site [polypeptide binding]; other site 360109001704 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 360109001705 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360109001706 HlyD family secretion protein; Region: HlyD_3; pfam13437 360109001707 Outer membrane efflux protein; Region: OEP; pfam02321 360109001708 Outer membrane efflux protein; Region: OEP; pfam02321 360109001709 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 360109001710 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 360109001711 N-terminal plug; other site 360109001712 ligand-binding site [chemical binding]; other site 360109001713 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360109001714 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360109001715 Walker A/P-loop; other site 360109001716 ATP binding site [chemical binding]; other site 360109001717 Q-loop/lid; other site 360109001718 ABC transporter signature motif; other site 360109001719 Walker B; other site 360109001720 D-loop; other site 360109001721 H-loop/switch region; other site 360109001722 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 360109001723 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 360109001724 intersubunit interface [polypeptide binding]; other site 360109001725 GTP-binding protein LepA; Provisional; Region: PRK05433 360109001726 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 360109001727 G1 box; other site 360109001728 putative GEF interaction site [polypeptide binding]; other site 360109001729 GTP/Mg2+ binding site [chemical binding]; other site 360109001730 Switch I region; other site 360109001731 G2 box; other site 360109001732 G3 box; other site 360109001733 Switch II region; other site 360109001734 G4 box; other site 360109001735 G5 box; other site 360109001736 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 360109001737 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 360109001738 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 360109001739 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 360109001740 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 360109001741 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360109001742 active site 360109001743 DNA gyrase subunit A; Validated; Region: PRK05560 360109001744 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 360109001745 CAP-like domain; other site 360109001746 active site 360109001747 primary dimer interface [polypeptide binding]; other site 360109001748 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360109001749 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360109001750 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360109001751 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360109001752 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360109001753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 360109001754 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 360109001755 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 360109001756 active site 360109001757 phosphorylation site [posttranslational modification] 360109001758 intermolecular recognition site; other site 360109001759 dimerization interface [polypeptide binding]; other site 360109001760 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 360109001761 Walker A motif; other site 360109001762 ATP binding site [chemical binding]; other site 360109001763 Walker B motif; other site 360109001764 arginine finger; other site 360109001765 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 360109001766 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 360109001767 Predicted membrane protein [Function unknown]; Region: COG2862 360109001768 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 360109001769 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 360109001770 Cytochrome c; Region: Cytochrom_C; cl11414 360109001771 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 360109001772 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 360109001773 putative ligand binding site [chemical binding]; other site 360109001774 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 360109001775 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 360109001776 putative ligand binding site [chemical binding]; other site 360109001777 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 360109001778 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 360109001779 TM-ABC transporter signature motif; other site 360109001780 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 360109001781 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 360109001782 TM-ABC transporter signature motif; other site 360109001783 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 360109001784 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 360109001785 Walker A/P-loop; other site 360109001786 ATP binding site [chemical binding]; other site 360109001787 Q-loop/lid; other site 360109001788 ABC transporter signature motif; other site 360109001789 Walker B; other site 360109001790 D-loop; other site 360109001791 H-loop/switch region; other site 360109001792 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 360109001793 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 360109001794 Walker A/P-loop; other site 360109001795 ATP binding site [chemical binding]; other site 360109001796 Q-loop/lid; other site 360109001797 ABC transporter signature motif; other site 360109001798 Walker B; other site 360109001799 D-loop; other site 360109001800 H-loop/switch region; other site 360109001801 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 360109001802 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 360109001803 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 360109001804 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 360109001805 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 360109001806 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 360109001807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 360109001808 TrkA-C domain; Region: TrkA_C; pfam02080 360109001809 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 360109001810 active site 360109001811 dimer interface [polypeptide binding]; other site 360109001812 metal binding site [ion binding]; metal-binding site 360109001813 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 360109001814 Mechanosensitive ion channel; Region: MS_channel; pfam00924 360109001815 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360109001816 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 360109001817 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 360109001818 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 360109001819 Walker A motif; other site 360109001820 ATP binding site [chemical binding]; other site 360109001821 Walker B motif; other site 360109001822 arginine finger; other site 360109001823 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 360109001824 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 360109001825 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 360109001826 catalytic core [active] 360109001827 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 360109001828 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360109001829 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 360109001830 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 360109001831 DNA binding residues [nucleotide binding] 360109001832 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 360109001833 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 360109001834 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 360109001835 dimerization interface [polypeptide binding]; other site 360109001836 active site 360109001837 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 360109001838 dimer interface [polypeptide binding]; other site 360109001839 active site 360109001840 Schiff base residues; other site 360109001841 ornithine carbamoyltransferase; Provisional; Region: PRK00779 360109001842 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360109001843 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 360109001844 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 360109001845 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 360109001846 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 360109001847 FeS/SAM binding site; other site 360109001848 HemN C-terminal domain; Region: HemN_C; pfam06969 360109001849 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 360109001850 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 360109001851 Cysteine-rich domain; Region: CCG; pfam02754 360109001852 Cysteine-rich domain; Region: CCG; pfam02754 360109001853 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 360109001854 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 360109001855 peptidase T; Region: peptidase-T; TIGR01882 360109001856 metal binding site [ion binding]; metal-binding site 360109001857 dimer interface [polypeptide binding]; other site 360109001858 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 360109001859 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 360109001860 metal binding site [ion binding]; metal-binding site 360109001861 putative dimer interface [polypeptide binding]; other site 360109001862 Protein of unknown function (DUF328); Region: DUF328; cl01143 360109001863 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 360109001864 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 360109001865 substrate binding pocket [chemical binding]; other site 360109001866 membrane-bound complex binding site; other site 360109001867 hinge residues; other site 360109001868 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 360109001869 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 360109001870 metal binding site [ion binding]; metal-binding site 360109001871 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 360109001872 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 360109001873 Catalytic site; other site 360109001874 HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PaaI; COG2050 360109001875 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360109001876 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 360109001877 S-adenosylmethionine binding site [chemical binding]; other site 360109001878 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 360109001879 active site 360109001880 pteridine reductase; Provisional; Region: PRK09135 360109001881 Uracil-DNA glycosylase [DNA replication, recombination, and repair]; Region: COG1573 360109001882 ligand binding site [chemical binding]; other site 360109001883 active site 360109001884 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360109001885 Coenzyme A binding pocket [chemical binding]; other site 360109001886 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 360109001887 RNase P protein component [Translation, ribosomal structure and biogenesis]; Region: RnpA; COG0594 360109001888 Uncharacterized conserved protein [Function unknown]; Region: COG0759 360109001889 membrane protein insertase; Provisional; Region: PRK01318 360109001890 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 360109001891 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 360109001892 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 360109001893 trmE is a tRNA modification GTPase; Region: trmE; cd04164 360109001894 G1 box; other site 360109001895 GTP/Mg2+ binding site [chemical binding]; other site 360109001896 Switch I region; other site 360109001897 G2 box; other site 360109001898 Switch II region; other site 360109001899 G3 box; other site 360109001900 G4 box; other site 360109001901 G5 box; other site 360109001902 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 360109001903 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 360109001904 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 360109001905 dimerization interface [polypeptide binding]; other site 360109001906 ATP binding site [chemical binding]; other site 360109001907 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 360109001908 dimerization interface [polypeptide binding]; other site 360109001909 ATP binding site [chemical binding]; other site 360109001910 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 360109001911 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 360109001912 putative metal binding site [ion binding]; other site 360109001913 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 360109001914 HSP70 interaction site [polypeptide binding]; other site 360109001915 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 360109001916 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 360109001917 purine monophosphate binding site [chemical binding]; other site 360109001918 dimer interface [polypeptide binding]; other site 360109001919 putative catalytic residues [active] 360109001920 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 360109001921 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 360109001922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 360109001923 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 360109001924 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 360109001925 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360109001926 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 360109001927 AAA-like domain; Region: AAA_10; pfam12846 360109001928 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 360109001929 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 360109001930 BRO family, N-terminal domain; Region: Bro-N; pfam02498 360109001931 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 360109001932 non-specific DNA binding site [nucleotide binding]; other site 360109001933 salt bridge; other site 360109001934 Helix-turn-helix; Region: HTH_3; pfam01381 360109001935 sequence-specific DNA binding site [nucleotide binding]; other site 360109001936 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 360109001937 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 360109001938 dimer interface [polypeptide binding]; other site 360109001939 ssDNA binding site [nucleotide binding]; other site 360109001940 tetramer (dimer of dimers) interface [polypeptide binding]; other site 360109001941 RecT family; Region: RecT; pfam03837 360109001942 AAA domain; Region: AAA_13; pfam13166 360109001943 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 360109001944 Thymidine kinase [Nucleotide transport and metabolism]; Region: Tdk; COG1435 360109001945 CHC2 zinc finger; Region: zf-CHC2; cl17510 360109001946 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 360109001947 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 360109001948 active site 360109001949 metal binding site [ion binding]; metal-binding site 360109001950 interdomain interaction site; other site 360109001951 endonuclease subunit; Provisional; Region: 46; PHA02562 360109001952 WGR domain; Region: WGR; cl01581 360109001953 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 360109001954 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 360109001955 active site 360109001956 DNA binding site [nucleotide binding] 360109001957 Int/Topo IB signature motif; other site 360109001958 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 360109001959 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360109001960 Na2 binding site [ion binding]; other site 360109001961 putative substrate binding site 1 [chemical binding]; other site 360109001962 Na binding site 1 [ion binding]; other site 360109001963 putative substrate binding site 2 [chemical binding]; other site 360109001964 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360109001965 Na2 binding site [ion binding]; other site 360109001966 putative substrate binding site 1 [chemical binding]; other site 360109001967 Na binding site 1 [ion binding]; other site 360109001968 putative substrate binding site 2 [chemical binding]; other site 360109001969 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 360109001970 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 360109001971 active site 360109001972 catalytic residues [active] 360109001973 metal binding site [ion binding]; metal-binding site 360109001974 homodimer binding site [polypeptide binding]; other site 360109001975 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 360109001976 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 360109001977 carboxyltransferase (CT) interaction site; other site 360109001978 biotinylation site [posttranslational modification]; other site 360109001979 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 360109001980 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 360109001981 active site 360109001982 substrate-binding site [chemical binding]; other site 360109001983 metal-binding site [ion binding] 360109001984 ATP binding site [chemical binding]; other site 360109001985 argininosuccinate lyase; Provisional; Region: PRK00855 360109001986 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 360109001987 active sites [active] 360109001988 tetramer interface [polypeptide binding]; other site 360109001989 GTP-binding protein YchF; Reviewed; Region: PRK09601 360109001990 YchF GTPase; Region: YchF; cd01900 360109001991 G1 box; other site 360109001992 GTP/Mg2+ binding site [chemical binding]; other site 360109001993 Switch I region; other site 360109001994 G2 box; other site 360109001995 Switch II region; other site 360109001996 G3 box; other site 360109001997 G4 box; other site 360109001998 G5 box; other site 360109001999 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 360109002000 multifunctional aminopeptidase A; Provisional; Region: PRK00913 360109002001 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 360109002002 interface (dimer of trimers) [polypeptide binding]; other site 360109002003 Substrate-binding/catalytic site; other site 360109002004 Zn-binding sites [ion binding]; other site 360109002005 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360109002006 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 360109002007 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360109002008 active site 360109002009 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 360109002010 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 360109002011 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 360109002012 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 360109002013 CheB methylesterase; Region: CheB_methylest; pfam01339 360109002014 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360109002015 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360109002016 Walker A/P-loop; other site 360109002017 ATP binding site [chemical binding]; other site 360109002018 Q-loop/lid; other site 360109002019 ABC transporter signature motif; other site 360109002020 Walker B; other site 360109002021 D-loop; other site 360109002022 H-loop/switch region; other site 360109002023 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 360109002024 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 360109002025 substrate binding pocket [chemical binding]; other site 360109002026 membrane-bound complex binding site; other site 360109002027 hinge residues; other site 360109002028 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 360109002029 dimer interface [polypeptide binding]; other site 360109002030 conserved gate region; other site 360109002031 putative PBP binding loops; other site 360109002032 ABC-ATPase subunit interface; other site 360109002033 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 360109002034 dimer interface [polypeptide binding]; other site 360109002035 conserved gate region; other site 360109002036 putative PBP binding loops; other site 360109002037 ABC-ATPase subunit interface; other site 360109002038 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 360109002039 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 360109002040 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360109002041 active site 360109002042 carbon starvation protein A; Provisional; Region: PRK15015 360109002043 Carbon starvation protein CstA; Region: CstA; pfam02554 360109002044 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 360109002045 Uncharacterized small protein [Function unknown]; Region: COG2879 360109002046 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 360109002047 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 360109002048 IHF dimer interface [polypeptide binding]; other site 360109002049 IHF - DNA interface [nucleotide binding]; other site 360109002050 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 360109002051 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 360109002052 dimer interface [polypeptide binding]; other site 360109002053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109002054 catalytic residue [active] 360109002055 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 360109002056 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 360109002057 Cu(I) binding site [ion binding]; other site 360109002058 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 360109002059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 360109002060 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 360109002061 alanine racemase; Reviewed; Region: alr; PRK00053 360109002062 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 360109002063 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360109002064 catalytic residue [active] 360109002065 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 360109002066 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360109002067 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360109002068 Walker A/P-loop; other site 360109002069 ATP binding site [chemical binding]; other site 360109002070 Q-loop/lid; other site 360109002071 ABC transporter signature motif; other site 360109002072 Walker B; other site 360109002073 D-loop; other site 360109002074 H-loop/switch region; other site 360109002075 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 360109002076 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 360109002077 dimer interface [polypeptide binding]; other site 360109002078 conserved gate region; other site 360109002079 putative PBP binding loops; other site 360109002080 ABC-ATPase subunit interface; other site 360109002081 DJ-1 family protein; Region: not_thiJ; TIGR01383 360109002082 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 360109002083 conserved cys residue [active] 360109002084 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 360109002085 nucleotide binding site/active site [active] 360109002086 HIT family signature motif; other site 360109002087 catalytic residue [active] 360109002088 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 360109002089 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 360109002090 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 360109002091 dimer interface [polypeptide binding]; other site 360109002092 motif 1; other site 360109002093 active site 360109002094 motif 2; other site 360109002095 motif 3; other site 360109002096 phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial; Region: pheT_bact; TIGR00472 360109002097 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 360109002098 putative tRNA-binding site [nucleotide binding]; other site 360109002099 B3/4 domain; Region: B3_4; pfam03483 360109002100 tRNA synthetase B5 domain; Region: B5; smart00874 360109002101 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 360109002102 dimer interface [polypeptide binding]; other site 360109002103 motif 1; other site 360109002104 motif 3; other site 360109002105 motif 2; other site 360109002106 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 360109002107 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 360109002108 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 360109002109 hinge; other site 360109002110 active site 360109002111 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 360109002112 LytB protein; Region: LYTB; pfam02401 360109002113 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 360109002114 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 360109002115 RNA binding site [nucleotide binding]; other site 360109002116 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 360109002117 RNA binding site [nucleotide binding]; other site 360109002118 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 360109002119 RNA binding site [nucleotide binding]; other site 360109002120 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 360109002121 RNA binding site [nucleotide binding]; other site 360109002122 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 360109002123 RNA binding site [nucleotide binding]; other site 360109002124 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 360109002125 RNA binding site [nucleotide binding]; other site 360109002126 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 360109002127 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 360109002128 ligand binding site [chemical binding]; other site 360109002129 NAD binding site [chemical binding]; other site 360109002130 dimerization interface [polypeptide binding]; other site 360109002131 catalytic site [active] 360109002132 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 360109002133 putative L-serine binding site [chemical binding]; other site 360109002134 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 360109002135 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360109002136 active site 360109002137 phosphorylation site [posttranslational modification] 360109002138 intermolecular recognition site; other site 360109002139 dimerization interface [polypeptide binding]; other site 360109002140 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 360109002141 DNA binding site [nucleotide binding] 360109002142 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360109002143 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 360109002144 ATP binding site [chemical binding]; other site 360109002145 Mg2+ binding site [ion binding]; other site 360109002146 G-X-G motif; other site 360109002147 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 360109002148 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360109002149 Walker A/P-loop; other site 360109002150 ATP binding site [chemical binding]; other site 360109002151 Q-loop/lid; other site 360109002152 ABC transporter signature motif; other site 360109002153 Walker B; other site 360109002154 D-loop; other site 360109002155 H-loop/switch region; other site 360109002156 ABC transporter; Region: ABC_tran_2; pfam12848 360109002157 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360109002158 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 360109002159 Part of AAA domain; Region: AAA_19; pfam13245 360109002160 Family description; Region: UvrD_C_2; pfam13538 360109002161 TraE protein; Region: TraE; cl05060 360109002162 TraK protein; Region: TraK; pfam06586 360109002163 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 360109002164 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 360109002165 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 360109002166 dimerization domain [polypeptide binding]; other site 360109002167 dimer interface [polypeptide binding]; other site 360109002168 catalytic residues [active] 360109002169 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 360109002170 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 360109002171 AAA-like domain; Region: AAA_10; pfam12846 360109002172 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 360109002173 conjugal transfer peptidase TraF; Provisional; Region: PRK13884 360109002174 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 360109002175 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 360109002176 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 360109002177 ligand binding surface [chemical binding]; other site 360109002178 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 360109002179 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 360109002180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 360109002181 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 360109002182 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 360109002183 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 360109002184 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 360109002185 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 360109002186 DNA methylase; Region: N6_N4_Mtase; pfam01555 360109002187 Helix-turn-helix domain; Region: HTH_36; pfam13730 360109002188 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 360109002189 putative active site [active] 360109002190 Fic/DOC family; Region: Fic; cl00960 360109002191 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 360109002192 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 360109002193 LETM1-like protein; Region: LETM1; pfam07766 360109002194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 360109002195 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 360109002196 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 360109002197 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 360109002198 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 360109002199 non-specific DNA binding site [nucleotide binding]; other site 360109002200 salt bridge; other site 360109002201 sequence-specific DNA binding site [nucleotide binding]; other site 360109002202 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 360109002203 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 360109002204 F plasmid transfer operon protein; Region: TraF; pfam13728 360109002205 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 360109002206 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 360109002207 substrate binding site [chemical binding]; other site 360109002208 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 360109002209 substrate binding site [chemical binding]; other site 360109002210 ligand binding site [chemical binding]; other site 360109002211 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 360109002212 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 360109002213 DNA binding site [nucleotide binding] 360109002214 active site 360109002215 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 360109002216 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 360109002217 active site 360109002218 HIGH motif; other site 360109002219 KMSKS motif; other site 360109002220 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 360109002221 tRNA binding surface [nucleotide binding]; other site 360109002222 anticodon binding site; other site 360109002223 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 360109002224 putative tRNA-binding site [nucleotide binding]; other site 360109002225 dimer interface [polypeptide binding]; other site 360109002226 Fructose-1,6-bisphosphatase [Carbohydrate transport and metabolism]; Region: Fbp; COG0158 360109002227 active site 360109002228 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 360109002229 Walker A motif; other site 360109002230 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 360109002231 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 360109002232 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360109002233 catalytic residue [active] 360109002234 YGGT family; Region: YGGT; pfam02325 360109002235 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 360109002236 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360109002237 active site 360109002238 HIGH motif; other site 360109002239 nucleotide binding site [chemical binding]; other site 360109002240 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360109002241 active site 360109002242 KMSKS motif; other site 360109002243 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 360109002244 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360109002245 putative active site [active] 360109002246 putative metal binding site [ion binding]; other site 360109002247 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 360109002248 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 360109002249 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 360109002250 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 360109002251 putative substrate translocation pore; other site 360109002252 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360109002253 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 360109002254 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 360109002255 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 360109002256 inhibitor-cofactor binding pocket; inhibition site 360109002257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109002258 catalytic residue [active] 360109002259 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14166 360109002260 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 360109002261 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 360109002262 homodimer interface [polypeptide binding]; other site 360109002263 NADP binding site [chemical binding]; other site 360109002264 substrate binding site [chemical binding]; other site 360109002265 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 360109002266 Catalytic site [active] 360109002267 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 360109002268 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 360109002269 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 360109002270 dimer interface [polypeptide binding]; other site 360109002271 putative functional site; other site 360109002272 putative MPT binding site; other site 360109002273 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 360109002274 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 360109002275 hinge; other site 360109002276 active site 360109002277 EamA-like transporter family; Region: EamA; pfam00892 360109002278 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 360109002279 Glutamine amidotransferase class-I; Region: GATase; pfam00117 360109002280 glutamine binding [chemical binding]; other site 360109002281 catalytic triad [active] 360109002282 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 360109002283 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 360109002284 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 360109002285 substrate-cofactor binding pocket; other site 360109002286 homodimer interface [polypeptide binding]; other site 360109002287 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109002288 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 360109002289 catalytic residue [active] 360109002290 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 360109002291 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 360109002292 active site 360109002293 DNA binding site [nucleotide binding] 360109002294 Int/Topo IB signature motif; other site 360109002295 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 360109002296 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 360109002297 catalytic residues [active] 360109002298 hinge region; other site 360109002299 alpha helical domain; other site 360109002300 putative disulfide oxidoreductase; Provisional; Region: PRK04307 360109002301 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 360109002302 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 360109002303 catalytic residues [active] 360109002304 hinge region; other site 360109002305 alpha helical domain; other site 360109002306 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 360109002307 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 360109002308 FHIPEP family; Region: FHIPEP; pfam00771 360109002309 Rrf2 family protein; Region: rrf2_super; TIGR00738 360109002310 Transcriptional regulator; Region: Rrf2; pfam02082 360109002311 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 360109002312 16S/18S rRNA binding site [nucleotide binding]; other site 360109002313 S13e-L30e interaction site [polypeptide binding]; other site 360109002314 25S rRNA binding site [nucleotide binding]; other site 360109002315 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 360109002316 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 360109002317 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 360109002318 lagellar hook-associated protein FlgL; Provisional; Region: PRK14692 360109002319 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360109002320 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 360109002321 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 360109002322 DNA binding site [nucleotide binding] 360109002323 active site 360109002324 Int/Topo IB signature motif; other site 360109002325 Autotransporter beta-domain; Region: Autotransporter; smart00869 360109002326 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 360109002327 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 360109002328 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 360109002329 dimerization interface [polypeptide binding]; other site 360109002330 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 360109002331 ATP binding site [chemical binding]; other site 360109002332 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 360109002333 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 360109002334 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 360109002335 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 360109002336 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 360109002337 Acylphosphatase; Region: Acylphosphatase; pfam00708 360109002338 HypF finger; Region: zf-HYPF; pfam07503 360109002339 HypF finger; Region: zf-HYPF; pfam07503 360109002340 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 360109002341 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 360109002342 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 360109002343 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 360109002344 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14269 360109002345 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 360109002346 Walker A/P-loop; other site 360109002347 ATP binding site [chemical binding]; other site 360109002348 Q-loop/lid; other site 360109002349 ABC transporter signature motif; other site 360109002350 Walker B; other site 360109002351 D-loop; other site 360109002352 H-loop/switch region; other site 360109002353 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 360109002354 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 360109002355 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 360109002356 dimer interface [polypeptide binding]; other site 360109002357 conserved gate region; other site 360109002358 putative PBP binding loops; other site 360109002359 ABC-ATPase subunit interface; other site 360109002360 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 360109002361 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 360109002362 dimer interface [polypeptide binding]; other site 360109002363 conserved gate region; other site 360109002364 putative PBP binding loops; other site 360109002365 ABC-ATPase subunit interface; other site 360109002366 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 360109002367 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 360109002368 Ferritin-like domain; Region: Ferritin; pfam00210 360109002369 ferroxidase diiron center [ion binding]; other site 360109002370 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 360109002371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2845 360109002372 active site 360109002373 catalytic triad [active] 360109002374 oxyanion hole [active] 360109002375 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 360109002376 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 360109002377 active site 360109002378 oxyanion hole [active] 360109002379 catalytic triad [active] 360109002380 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 360109002381 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360109002382 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 360109002383 Walker A/P-loop; other site 360109002384 ATP binding site [chemical binding]; other site 360109002385 Q-loop/lid; other site 360109002386 ABC transporter signature motif; other site 360109002387 Walker B; other site 360109002388 D-loop; other site 360109002389 H-loop/switch region; other site 360109002390 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360109002391 FtsX-like permease family; Region: FtsX; pfam02687 360109002392 macrolide transporter subunit MacA; Provisional; Region: PRK11578 360109002393 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360109002394 HlyD family secretion protein; Region: HlyD_3; pfam13437 360109002395 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 360109002396 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 360109002397 metal binding site [ion binding]; metal-binding site 360109002398 dimer interface [polypeptide binding]; other site 360109002399 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 360109002400 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 360109002401 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 360109002402 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 360109002403 DsbD alpha interface [polypeptide binding]; other site 360109002404 catalytic residues [active] 360109002405 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360109002406 Na2 binding site [ion binding]; other site 360109002407 putative substrate binding site 1 [chemical binding]; other site 360109002408 Na binding site 1 [ion binding]; other site 360109002409 putative substrate binding site 2 [chemical binding]; other site 360109002410 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 360109002411 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 360109002412 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360109002413 catalytic residue [active] 360109002414 hypothetical protein; Validated; Region: PRK09039 360109002415 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360109002416 ligand binding site [chemical binding]; other site 360109002417 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 360109002418 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 360109002419 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 360109002420 active site 360109002421 intersubunit interface [polypeptide binding]; other site 360109002422 zinc binding site [ion binding]; other site 360109002423 Na+ binding site [ion binding]; other site 360109002424 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 360109002425 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 360109002426 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360109002427 minor groove reading motif; other site 360109002428 helix-hairpin-helix signature motif; other site 360109002429 substrate binding pocket [chemical binding]; other site 360109002430 active site 360109002431 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 360109002432 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 360109002433 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 360109002434 active site 360109002435 substrate binding site [chemical binding]; other site 360109002436 Mg2+ binding site [ion binding]; other site 360109002437 Predicted membrane protein [Function unknown]; Region: COG2860 360109002438 UPF0126 domain; Region: UPF0126; pfam03458 360109002439 UPF0126 domain; Region: UPF0126; pfam03458 360109002440 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 360109002441 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 360109002442 S-adenosylmethionine binding site [chemical binding]; other site 360109002443 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 360109002444 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360109002445 active site 360109002446 nucleotide binding site [chemical binding]; other site 360109002447 HIGH motif; other site 360109002448 KMSKS motif; other site 360109002449 Riboflavin kinase; Region: Flavokinase; pfam01687 360109002450 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 360109002451 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 360109002452 S-adenosylmethionine binding site [chemical binding]; other site 360109002453 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 360109002454 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 360109002455 nucleotide binding pocket [chemical binding]; other site 360109002456 K-X-D-G motif; other site 360109002457 catalytic site [active] 360109002458 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 360109002459 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 360109002460 Dimer interface [polypeptide binding]; other site 360109002461 BRCT sequence motif; other site 360109002462 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 360109002463 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 360109002464 substrate binding pocket [chemical binding]; other site 360109002465 dimer interface [polypeptide binding]; other site 360109002466 inhibitor binding site; inhibition site 360109002467 DNA polymerase III subunit delta'; Validated; Region: PRK08485 360109002468 DNA replication regulator; Region: HobA; pfam12163 360109002469 aspartate kinase; Reviewed; Region: PRK06635 360109002470 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 360109002471 putative nucleotide binding site [chemical binding]; other site 360109002472 putative catalytic residues [active] 360109002473 putative Mg ion binding site [ion binding]; other site 360109002474 putative aspartate binding site [chemical binding]; other site 360109002475 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 360109002476 putative allosteric regulatory site; other site 360109002477 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 360109002478 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 360109002479 putative active site [active] 360109002480 Ap4A binding site [chemical binding]; other site 360109002481 nudix motif; other site 360109002482 putative metal binding site [ion binding]; other site 360109002483 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 360109002484 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 360109002485 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 360109002486 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 360109002487 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 360109002488 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 360109002489 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 360109002490 trimer interface [polypeptide binding]; other site 360109002491 active site 360109002492 UDP-GlcNAc binding site [chemical binding]; other site 360109002493 lipid binding site [chemical binding]; lipid-binding site 360109002494 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 360109002495 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 360109002496 putative valine binding site [chemical binding]; other site 360109002497 dimer interface [polypeptide binding]; other site 360109002498 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 360109002499 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08527 360109002500 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 360109002501 PYR/PP interface [polypeptide binding]; other site 360109002502 dimer interface [polypeptide binding]; other site 360109002503 TPP binding site [chemical binding]; other site 360109002504 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 360109002505 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 360109002506 TPP-binding site [chemical binding]; other site 360109002507 dimer interface [polypeptide binding]; other site 360109002508 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 360109002509 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 360109002510 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 360109002511 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 360109002512 active site 360109002513 Int/Topo IB signature motif; other site 360109002514 YopX protein; Region: YopX; pfam09643 360109002515 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 360109002516 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 360109002517 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 360109002518 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 360109002519 non-specific DNA binding site [nucleotide binding]; other site 360109002520 salt bridge; other site 360109002521 sequence-specific DNA binding site [nucleotide binding]; other site 360109002522 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 360109002523 Predicted transcriptional regulator [Transcription]; Region: COG2932 360109002524 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 360109002525 Catalytic site [active] 360109002526 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 360109002527 Terminase-like family; Region: Terminase_6; pfam03237 360109002528 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 360109002529 Spc7 kinetochore protein; Region: Spc7; smart00787 360109002530 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 360109002531 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 360109002532 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 360109002533 Autotransporter beta-domain; Region: Autotransporter; smart00869 360109002534 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 360109002535 dimer interface [polypeptide binding]; other site 360109002536 conserved gate region; other site 360109002537 putative PBP binding loops; other site 360109002538 ABC-ATPase subunit interface; other site 360109002539 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 360109002540 FtsX-like permease family; Region: FtsX; pfam02687 360109002541 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 360109002542 DEAD/DEAH box helicase; Region: DEAD; pfam00270 360109002543 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 360109002544 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 360109002545 nucleotide binding region [chemical binding]; other site 360109002546 ATP-binding site [chemical binding]; other site 360109002547 SEC-C motif; Region: SEC-C; pfam02810 360109002548 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 360109002549 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 360109002550 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 360109002551 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 360109002552 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 360109002553 NlpC/P60 family; Region: NLPC_P60; cl17555 360109002554 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 360109002555 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 360109002556 putative active site; other site 360109002557 catalytic triad [active] 360109002558 putative dimer interface [polypeptide binding]; other site 360109002559 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 360109002560 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 360109002561 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 360109002562 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 360109002563 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 360109002564 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 360109002565 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 360109002566 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 360109002567 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 360109002568 substrate binding site [chemical binding]; other site 360109002569 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 360109002570 substrate binding site [chemical binding]; other site 360109002571 ligand binding site [chemical binding]; other site 360109002572 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 360109002573 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 360109002574 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 360109002575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360109002576 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 360109002577 NAD(P) binding site [chemical binding]; other site 360109002578 active site 360109002579 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 360109002580 tRNA (Uracil-5-)-methyltransferase; Region: tRNA_U5-meth_tr; pfam05958 360109002581 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 360109002582 S-adenosylmethionine binding site [chemical binding]; other site 360109002583 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 360109002584 CoA binding domain; Region: CoA_binding; cl17356 360109002585 threonine dehydratase; Provisional; Region: PRK08526 360109002586 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 360109002587 tetramer interface [polypeptide binding]; other site 360109002588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109002589 catalytic residue [active] 360109002590 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 360109002591 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 360109002592 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 360109002593 dimerization interface 3.5A [polypeptide binding]; other site 360109002594 active site 360109002595 Predicted permeases [General function prediction only]; Region: COG0795 360109002596 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360109002597 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 360109002598 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 360109002599 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 360109002600 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 360109002601 catalytic residue [active] 360109002602 putative FPP diphosphate binding site; other site 360109002603 putative FPP binding hydrophobic cleft; other site 360109002604 dimer interface [polypeptide binding]; other site 360109002605 putative IPP diphosphate binding site; other site 360109002606 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 360109002607 Flavoprotein; Region: Flavoprotein; pfam02441 360109002608 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 360109002609 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 360109002610 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 360109002611 Substrate binding site; other site 360109002612 Mg++ binding site; other site 360109002613 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 360109002614 active site 360109002615 substrate binding site [chemical binding]; other site 360109002616 CoA binding site [chemical binding]; other site 360109002617 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 360109002618 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360109002619 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 360109002620 substrate binding pocket [chemical binding]; other site 360109002621 membrane-bound complex binding site; other site 360109002622 hinge residues; other site 360109002623 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 360109002624 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 360109002625 Ligand binding site; other site 360109002626 oligomer interface; other site 360109002627 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 360109002628 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 360109002629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109002630 catalytic residue [active] 360109002631 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 360109002632 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 360109002633 NAD synthetase; Provisional; Region: PRK13980 360109002634 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 360109002635 homodimer interface [polypeptide binding]; other site 360109002636 NAD binding pocket [chemical binding]; other site 360109002637 ATP binding pocket [chemical binding]; other site 360109002638 Mg binding site [ion binding]; other site 360109002639 active-site loop [active] 360109002640 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 360109002641 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 360109002642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360109002643 NAD(P) binding site [chemical binding]; other site 360109002644 active site 360109002645 dihydrodipicolinate synthase; Region: dapA; TIGR00674 360109002646 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 360109002647 dimer interface [polypeptide binding]; other site 360109002648 active site 360109002649 catalytic residue [active] 360109002650 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360109002651 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360109002652 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360109002653 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 360109002654 Dihydroorotate dehydrogenase (DHOD) class 2. 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 nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 360109002655 quinone interaction residues [chemical binding]; other site 360109002656 active site 360109002657 catalytic residues [active] 360109002658 FMN binding site [chemical binding]; other site 360109002659 substrate binding site [chemical binding]; other site 360109002660 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 360109002661 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360109002662 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360109002663 Walker A/P-loop; other site 360109002664 ATP binding site [chemical binding]; other site 360109002665 Q-loop/lid; other site 360109002666 ABC transporter signature motif; other site 360109002667 Walker B; other site 360109002668 D-loop; other site 360109002669 H-loop/switch region; other site 360109002670 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 360109002671 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360109002672 active site 360109002673 HIGH motif; other site 360109002674 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360109002675 KMSKS motif; other site 360109002676 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360109002677 tRNA binding surface [nucleotide binding]; other site 360109002678 anticodon binding site; other site 360109002679 integral membrane protein MviN; Region: mviN; TIGR01695 360109002680 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 360109002681 Protein of unknown function (DUF342); Region: DUF342; pfam03961 360109002682 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14601 360109002683 RuvA N terminal domain; Region: RuvA_N; pfam01330 360109002684 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 360109002685 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 360109002686 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 360109002687 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 360109002688 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360109002689 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 360109002690 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360109002691 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 360109002692 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360109002693 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360109002694 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 360109002695 dimer interface [polypeptide binding]; other site 360109002696 phosphorylation site [posttranslational modification] 360109002697 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 360109002698 ATP binding site [chemical binding]; other site 360109002699 Mg2+ binding site [ion binding]; other site 360109002700 G-X-G motif; other site 360109002701 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 360109002702 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 360109002703 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 360109002704 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360109002705 catalytic residue [active] 360109002706 Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]; Region: PurU; COG0788 360109002707 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 360109002708 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 360109002709 putative active site [active] 360109002710 putative substrate binding site [chemical binding]; other site 360109002711 putative cosubstrate binding site; other site 360109002712 catalytic site [active] 360109002713 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 360109002714 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 360109002715 active site 360109002716 NTP binding site [chemical binding]; other site 360109002717 metal binding triad [ion binding]; metal-binding site 360109002718 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 360109002719 NapD protein; Region: NapD; cl01163 360109002720 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 360109002721 dimer interface [polypeptide binding]; other site 360109002722 catalytic triad [active] 360109002723 peroxidatic and resolving cysteines [active] 360109002724 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 360109002725 Part of AAA domain; Region: AAA_19; pfam13245 360109002726 Family description; Region: UvrD_C_2; pfam13538 360109002727 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 360109002728 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360109002729 active site 360109002730 HIGH motif; other site 360109002731 nucleotide binding site [chemical binding]; other site 360109002732 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360109002733 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 360109002734 active site 360109002735 KMSKS motif; other site 360109002736 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 360109002737 tRNA binding surface [nucleotide binding]; other site 360109002738 anticodon binding site; other site 360109002739 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 360109002740 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 360109002741 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 360109002742 Walker A/P-loop; other site 360109002743 ATP binding site [chemical binding]; other site 360109002744 Q-loop/lid; other site 360109002745 ABC transporter signature motif; other site 360109002746 Walker B; other site 360109002747 D-loop; other site 360109002748 H-loop/switch region; other site 360109002749 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 360109002750 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 360109002751 dimer interface [polypeptide binding]; other site 360109002752 conserved gate region; other site 360109002753 ABC-ATPase subunit interface; other site 360109002754 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 360109002755 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 360109002756 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 360109002757 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 360109002758 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 360109002759 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 360109002760 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 360109002761 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 360109002762 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 360109002763 Flavoprotein; Region: Flavoprotein; pfam02441 360109002764 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 360109002765 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 360109002766 active site 360109002767 (T/H)XGH motif; other site 360109002768 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 360109002769 thymidylate kinase; Validated; Region: tmk; PRK00698 360109002770 TMP-binding site; other site 360109002771 ATP-binding site [chemical binding]; other site 360109002772 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 360109002773 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 360109002774 dimer interface [polypeptide binding]; other site 360109002775 motif 1; other site 360109002776 active site 360109002777 motif 2; other site 360109002778 motif 3; other site 360109002779 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 360109002780 anticodon binding site; other site 360109002781 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 360109002782 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 360109002783 dimer interface [polypeptide binding]; other site 360109002784 active site 360109002785 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360109002786 catalytic residues [active] 360109002787 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 360109002788 serine O-acetyltransferase; Region: cysE; TIGR01172 360109002789 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 360109002790 trimer interface [polypeptide binding]; other site 360109002791 active site 360109002792 substrate binding site [chemical binding]; other site 360109002793 CoA binding site [chemical binding]; other site 360109002794 aspartate aminotransferase; Provisional; Region: PRK05764 360109002795 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 360109002796 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109002797 homodimer interface [polypeptide binding]; other site 360109002798 catalytic residue [active] 360109002799 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 360109002800 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 360109002801 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 360109002802 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 360109002803 Probable transposase; Region: OrfB_IS605; pfam01385 360109002804 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 360109002805 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 360109002806 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 360109002807 nucleotide binding site [chemical binding]; other site 360109002808 NEF interaction site [polypeptide binding]; other site 360109002809 SBD interface [polypeptide binding]; other site 360109002810 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 360109002811 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 360109002812 dimer interface [polypeptide binding]; other site 360109002813 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 360109002814 heat-inducible transcription repressor; Provisional; Region: PRK03911 360109002815 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 360109002816 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 360109002817 N-terminal plug; other site 360109002818 ligand-binding site [chemical binding]; other site 360109002819 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 360109002820 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 360109002821 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 360109002822 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 360109002823 putative substrate translocation pore; other site 360109002824 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 360109002825 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 360109002826 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 360109002827 active site 360109002828 dimer interface [polypeptide binding]; other site 360109002829 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 360109002830 dimer interface [polypeptide binding]; other site 360109002831 active site 360109002832 glucokinase; Provisional; Region: glk; PRK00292 360109002833 glucokinase, proteobacterial type; Region: glk; TIGR00749 360109002834 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 360109002835 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 360109002836 putative active site [active] 360109002837 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 360109002838 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 360109002839 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 360109002840 6-phosphogluconate dehydratase; Region: edd; TIGR01196 360109002841 phosphogluconate dehydratase; Validated; Region: PRK09054 360109002842 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 360109002843 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 360109002844 active site 360109002845 intersubunit interface [polypeptide binding]; other site 360109002846 catalytic residue [active] 360109002847 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 360109002848 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360109002849 substrate binding pocket [chemical binding]; other site 360109002850 membrane-bound complex binding site; other site 360109002851 hinge residues; other site 360109002852 TPR repeat; Region: TPR_11; pfam13414 360109002853 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360109002854 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 360109002855 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 360109002856 oligomer interface [polypeptide binding]; other site 360109002857 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 360109002858 MPT binding site; other site 360109002859 trimer interface [polypeptide binding]; other site 360109002860 Peptidase family M48; Region: Peptidase_M48; pfam01435 360109002861 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 360109002862 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 360109002863 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 360109002864 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360109002865 Predicted enzyme with a TIM-barrel fold [General function prediction only]; Region: COG0325 360109002866 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360109002867 catalytic residue [active] 360109002868 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 360109002869 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 360109002870 active site 360109002871 PHP Thumb interface [polypeptide binding]; other site 360109002872 metal binding site [ion binding]; metal-binding site 360109002873 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 360109002874 generic binding surface I; other site 360109002875 generic binding surface II; other site 360109002876 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360109002877 ArsC family; Region: ArsC; pfam03960 360109002878 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 360109002879 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 360109002880 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 360109002881 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 360109002882 RimM N-terminal domain; Region: RimM; pfam01782 360109002883 PRC-barrel domain; Region: PRC; pfam05239 360109002884 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 360109002885 KH domain; Region: KH_4; pfam13083 360109002886 G-X-X-G motif; other site 360109002887 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 360109002888 signal recognition particle protein; Provisional; Region: PRK10867 360109002889 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 360109002890 P loop; other site 360109002891 GTP binding site [chemical binding]; other site 360109002892 Signal peptide binding domain; Region: SRP_SPB; pfam02978 360109002893 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360109002894 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360109002895 active site 360109002896 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 360109002897 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 360109002898 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 360109002899 Putative zinc ribbon domain; Region: DUF164; pfam02591 360109002900 Uncharacterized conserved protein [Function unknown]; Region: COG0327 360109002901 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 360109002902 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 360109002903 dimer interface [polypeptide binding]; other site 360109002904 motif 1; other site 360109002905 active site 360109002906 motif 2; other site 360109002907 motif 3; other site 360109002908 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 360109002909 AIR carboxylase; Region: AIRC; smart01001 360109002910 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 360109002911 Peptidase family U32; Region: Peptidase_U32; pfam01136 360109002912 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 360109002913 glutamine synthetase, type I; Region: GlnA; TIGR00653 360109002914 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 360109002915 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 360109002916 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 360109002917 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360109002918 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360109002919 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 360109002920 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360109002921 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 360109002922 cell division protein FtsZ; Validated; Region: PRK09330 360109002923 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 360109002924 nucleotide binding site [chemical binding]; other site 360109002925 SulA interaction site; other site 360109002926 cell division protein FtsA; Region: ftsA; TIGR01174 360109002927 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 360109002928 nucleotide binding site [chemical binding]; other site 360109002929 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 360109002930 Cell division protein FtsA; Region: FtsA; pfam14450 360109002931 SurA N-terminal domain; Region: SurA_N_3; cl07813 360109002932 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 360109002933 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 360109002934 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 360109002935 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 360109002936 S-adenosylmethionine binding site [chemical binding]; other site 360109002937 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 360109002938 propionate/acetate kinase; Provisional; Region: PRK12379 360109002939 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 360109002940 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 360109002941 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 360109002942 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 360109002943 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 360109002944 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360109002945 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360109002946 primosome assembly protein PriA; Validated; Region: PRK05580 360109002947 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 360109002948 ATP binding site [chemical binding]; other site 360109002949 putative Mg++ binding site [ion binding]; other site 360109002950 helicase superfamily c-terminal domain; Region: HELICc; smart00490 360109002951 ATP-binding site [chemical binding]; other site 360109002952 excinuclease ABC subunit B; Provisional; Region: PRK05298 360109002953 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 360109002954 ATP binding site [chemical binding]; other site 360109002955 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 360109002956 nucleotide binding region [chemical binding]; other site 360109002957 ATP-binding site [chemical binding]; other site 360109002958 Ultra-violet resistance protein B; Region: UvrB; pfam12344 360109002959 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 360109002960 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 360109002961 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 360109002962 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 360109002963 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 360109002964 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 360109002965 Walker A/P-loop; other site 360109002966 ATP binding site [chemical binding]; other site 360109002967 Q-loop/lid; other site 360109002968 ABC transporter signature motif; other site 360109002969 Walker B; other site 360109002970 D-loop; other site 360109002971 H-loop/switch region; other site 360109002972 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 360109002973 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]; Region: COG1188 360109002974 RNA binding surface [nucleotide binding]; other site 360109002975 argininosuccinate synthase; Provisional; Region: PRK13820 360109002976 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 360109002977 ANP binding site [chemical binding]; other site 360109002978 Substrate Binding Site II [chemical binding]; other site 360109002979 Substrate Binding Site I [chemical binding]; other site 360109002980 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 360109002981 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 360109002982 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 360109002983 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 360109002984 active site 360109002985 HslU subunit interaction site [polypeptide binding]; other site 360109002986 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 360109002987 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 360109002988 Walker A motif; other site 360109002989 ATP binding site [chemical binding]; other site 360109002990 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 360109002991 Walker B motif; other site 360109002992 arginine finger; other site 360109002993 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 360109002994 GTPase Era; Reviewed; Region: era; PRK00089 360109002995 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 360109002996 G1 box; other site 360109002997 GTP/Mg2+ binding site [chemical binding]; other site 360109002998 Switch I region; other site 360109002999 G2 box; other site 360109003000 Switch II region; other site 360109003001 G3 box; other site 360109003002 G4 box; other site 360109003003 G5 box; other site 360109003004 KH domain; Region: KH_2; pfam07650 360109003005 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 360109003006 POT family; Region: PTR2; cl17359 360109003007 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 360109003008 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 360109003009 putative substrate translocation pore; other site 360109003010 POT family; Region: PTR2; cl17359 360109003011 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 360109003012 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 360109003013 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 360109003014 active site 360109003015 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 360109003016 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 360109003017 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360109003018 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 360109003019 G1 box; other site 360109003020 GTP/Mg2+ binding site [chemical binding]; other site 360109003021 Switch I region; other site 360109003022 G2 box; other site 360109003023 G3 box; other site 360109003024 Switch II region; other site 360109003025 G4 box; other site 360109003026 G5 box; other site 360109003027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 360109003028 OstA-like protein; Region: OstA; pfam03968 360109003029 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 360109003030 active site 360109003031 motif I; other site 360109003032 motif II; other site 360109003033 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 360109003034 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 360109003035 Sporulation related domain; Region: SPOR; pfam05036 360109003036 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 360109003037 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 360109003038 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360109003039 catalytic residue [active] 360109003040 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 360109003041 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360109003042 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 360109003043 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 360109003044 active site 360109003045 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 360109003046 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 360109003047 active site 360109003048 phosphorylation site [posttranslational modification] 360109003049 intermolecular recognition site; other site 360109003050 dimerization interface [polypeptide binding]; other site 360109003051 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 360109003052 active site 360109003053 phosphorylation site [posttranslational modification] 360109003054 intermolecular recognition site; other site 360109003055 dimerization interface [polypeptide binding]; other site 360109003056 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360109003057 metal binding site [ion binding]; metal-binding site 360109003058 active site 360109003059 I-site; other site 360109003060 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 360109003061 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360109003062 Walker A/P-loop; other site 360109003063 ATP binding site [chemical binding]; other site 360109003064 Q-loop/lid; other site 360109003065 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 360109003066 ABC transporter signature motif; other site 360109003067 Walker B; other site 360109003068 D-loop; other site 360109003069 H-loop/switch region; other site 360109003070 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: pnk; PRK14077 360109003071 ATP-NAD kinase; Region: NAD_kinase; pfam01513 360109003072 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 360109003073 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 360109003074 dimer interface [polypeptide binding]; other site 360109003075 anticodon binding site; other site 360109003076 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 360109003077 homodimer interface [polypeptide binding]; other site 360109003078 motif 1; other site 360109003079 active site 360109003080 motif 2; other site 360109003081 GAD domain; Region: GAD; pfam02938 360109003082 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 360109003083 active site 360109003084 motif 3; other site 360109003085 adenylate kinase; Reviewed; Region: adk; PRK00279 360109003086 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 360109003087 AMP-binding site [chemical binding]; other site 360109003088 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 360109003089 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 360109003090 dimer interface [polypeptide binding]; other site 360109003091 substrate binding site [chemical binding]; other site 360109003092 metal binding sites [ion binding]; metal-binding site 360109003093 methionine sulfoxide reductase A; Provisional; Region: PRK14054 360109003094 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 360109003095 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 360109003096 DNA protecting protein DprA; Region: dprA; TIGR00732 360109003097 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 360109003098 putative active site [active] 360109003099 NodB motif; other site 360109003100 ketol-acid reductoisomerase; Provisional; Region: PRK05479 360109003101 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 360109003102 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 360109003103 Exoribonuclease R [Transcription]; Region: VacB; COG0557 360109003104 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 360109003105 RNB domain; Region: RNB; pfam00773 360109003106 DNA polymerase III subunit delta; Validated; Region: PRK08487 360109003107 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 360109003108 Autotransporter beta-domain; Region: Autotransporter; smart00869 360109003109 replicative DNA helicase; Provisional; Region: PRK08506 360109003110 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 360109003111 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 360109003112 Walker A motif; other site 360109003113 ATP binding site [chemical binding]; other site 360109003114 Walker B motif; other site 360109003115 DNA binding loops [nucleotide binding] 360109003116 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 360109003117 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360109003118 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360109003119 Predicted membrane protein [Function unknown]; Region: COG1289 360109003120 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 360109003121 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 360109003122 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 360109003123 Predicted membrane protein [Function unknown]; Region: COG3817 360109003124 Protein of unknown function (DUF979); Region: DUF979; pfam06166 360109003125 Predicted membrane protein [Function unknown]; Region: COG3819 360109003126 elongation factor P; Validated; Region: PRK00529 360109003127 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 360109003128 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 360109003129 RNA binding site [nucleotide binding]; other site 360109003130 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 360109003131 RNA binding site [nucleotide binding]; other site 360109003132 flagellar protein FliS; Validated; Region: fliS; PRK05685 360109003133 flagellar capping protein; Provisional; Region: PRK12765 360109003134 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 360109003135 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 360109003136 flagellar protein FlaG; Provisional; Region: PRK08452 360109003137 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 360109003138 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 360109003139 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; cl17708 360109003140 domain interfaces; other site 360109003141 active site 360109003142 prolyl-tRNA synthetase; Provisional; Region: PRK09194 360109003143 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 360109003144 dimer interface [polypeptide binding]; other site 360109003145 motif 1; other site 360109003146 active site 360109003147 motif 2; other site 360109003148 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 360109003149 putative deacylase active site [active] 360109003150 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 360109003151 active site 360109003152 motif 3; other site 360109003153 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 360109003154 anticodon binding site; other site 360109003155 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 360109003156 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 360109003157 tRNA; other site 360109003158 putative tRNA binding site [nucleotide binding]; other site 360109003159 putative NADP binding site [chemical binding]; other site 360109003160 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 360109003161 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 360109003162 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 360109003163 substrate binding pocket [chemical binding]; other site 360109003164 chain length determination region; other site 360109003165 substrate-Mg2+ binding site; other site 360109003166 catalytic residues [active] 360109003167 aspartate-rich region 1; other site 360109003168 active site lid residues [active] 360109003169 aspartate-rich region 2; other site 360109003170 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 360109003171 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 360109003172 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 360109003173 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 360109003174 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 360109003175 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 360109003176 TPP-binding site [chemical binding]; other site 360109003177 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 360109003178 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 360109003179 dimer interface [polypeptide binding]; other site 360109003180 PYR/PP interface [polypeptide binding]; other site 360109003181 TPP binding site [chemical binding]; other site 360109003182 substrate binding site [chemical binding]; other site 360109003183 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 360109003184 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 360109003185 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 360109003186 CoA binding domain; Region: CoA_binding; smart00881 360109003187 CoA-ligase; Region: Ligase_CoA; pfam00549 360109003188 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 360109003189 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 360109003190 CoA-ligase; Region: Ligase_CoA; pfam00549 360109003191 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 360109003192 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 360109003193 NAD(P) binding site [chemical binding]; other site 360109003194 LDH/MDH dimer interface [polypeptide binding]; other site 360109003195 substrate binding site [chemical binding]; other site 360109003196 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 360109003197 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 360109003198 Protein of unknown function; Region: DUF3971; pfam13116 360109003199 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 360109003200 YceG-like family; Region: YceG; pfam02618 360109003201 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 360109003202 dimerization interface [polypeptide binding]; other site 360109003203 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 360109003204 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 360109003205 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 360109003206 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360109003207 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360109003208 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 360109003209 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 360109003210 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 360109003211 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360109003212 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 360109003213 active site residue [active] 360109003214 heat shock protein 90; Provisional; Region: PRK05218 360109003215 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 360109003216 ATP binding site [chemical binding]; other site 360109003217 Mg2+ binding site [ion binding]; other site 360109003218 G-X-G motif; other site 360109003219 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 360109003220 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 360109003221 putative active site [active] 360109003222 catalytic triad [active] 360109003223 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 360109003224 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 360109003225 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 360109003226 active site 360109003227 ATP binding site [chemical binding]; other site 360109003228 substrate binding site [chemical binding]; other site 360109003229 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 360109003230 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 360109003231 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 360109003232 protein binding site [polypeptide binding]; other site 360109003233 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 360109003234 Catalytic dyad [active] 360109003235 Uncharacterized family 1; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_1; cd10158 360109003236 putative homodimer interface [polypeptide binding]; other site 360109003237 putative homotetramer interface [polypeptide binding]; other site 360109003238 putative metal binding site [ion binding]; other site 360109003239 putative homodimer-homodimer interface [polypeptide binding]; other site 360109003240 putative allosteric switch controlling residues; other site 360109003241 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 360109003242 Clp amino terminal domain; Region: Clp_N; pfam02861 360109003243 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 360109003244 Walker A motif; other site 360109003245 ATP binding site [chemical binding]; other site 360109003246 Walker B motif; other site 360109003247 arginine finger; other site 360109003248 Protein of unknown function (DUF972); Region: DUF972; pfam06156 360109003249 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 360109003250 Walker A motif; other site 360109003251 ATP binding site [chemical binding]; other site 360109003252 Walker B motif; other site 360109003253 arginine finger; other site 360109003254 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 360109003255 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 360109003256 classical (c) SDRs; Region: SDR_c; cd05233 360109003257 NAD(P) binding site [chemical binding]; other site 360109003258 active site 360109003259 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 360109003260 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360109003261 active site 360109003262 CoA binding site [chemical binding]; other site 360109003263 AMP binding site [chemical binding]; other site 360109003264 Transglycosylase; Region: Transgly; pfam00912 360109003265 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 360109003266 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 360109003267 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 360109003268 Maf-like protein; Region: Maf; pfam02545 360109003269 active site 360109003270 dimer interface [polypeptide binding]; other site 360109003271 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 360109003272 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 360109003273 motif 1; other site 360109003274 active site 360109003275 motif 2; other site 360109003276 motif 3; other site 360109003277 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 360109003278 DHHA1 domain; Region: DHHA1; pfam02272 360109003279 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360109003280 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 360109003281 inhibitor-cofactor binding pocket; inhibition site 360109003282 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109003283 catalytic residue [active] 360109003284 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 360109003285 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 360109003286 ferrochelatase; Reviewed; Region: hemH; PRK00035 360109003287 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 360109003288 C-terminal domain interface [polypeptide binding]; other site 360109003289 active site 360109003290 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 360109003291 active site 360109003292 N-terminal domain interface [polypeptide binding]; other site 360109003293 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 360109003294 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 360109003295 Predicted ATPase [General function prediction only]; Region: COG2603 360109003296 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 360109003297 active site residue [active] 360109003298 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 360109003299 nucleotide binding site/active site [active] 360109003300 HIT family signature motif; other site 360109003301 catalytic residue [active] 360109003302 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 360109003303 active site 360109003304 substrate (anthranilate) binding pocket [chemical binding]; other site 360109003305 product (indole) binding pocket [chemical binding]; other site 360109003306 ribulose/triose binding site [chemical binding]; other site 360109003307 phosphate binding site [ion binding]; other site 360109003308 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 360109003309 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 360109003310 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 360109003311 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 360109003312 S-adenosylmethionine binding site [chemical binding]; other site 360109003313 elongation factor G; Reviewed; Region: PRK00007 360109003314 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 360109003315 G1 box; other site 360109003316 putative GEF interaction site [polypeptide binding]; other site 360109003317 GTP/Mg2+ binding site [chemical binding]; other site 360109003318 Switch I region; other site 360109003319 G2 box; other site 360109003320 G3 box; other site 360109003321 Switch II region; other site 360109003322 G4 box; other site 360109003323 G5 box; other site 360109003324 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 360109003325 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 360109003326 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 360109003327 30S ribosomal protein S7; Validated; Region: PRK05302 360109003328 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 360109003329 S17 interaction site [polypeptide binding]; other site 360109003330 S8 interaction site; other site 360109003331 16S rRNA interaction site [nucleotide binding]; other site 360109003332 streptomycin interaction site [chemical binding]; other site 360109003333 23S rRNA interaction site [nucleotide binding]; other site 360109003334 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 360109003335 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 360109003336 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 360109003337 NAD binding site [chemical binding]; other site 360109003338 catalytic residues [active] 360109003339 substrate binding site [chemical binding]; other site 360109003340 Uncharacterized conserved protein [Function unknown]; Region: COG3254 360109003341 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 360109003342 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 360109003343 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 360109003344 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 360109003345 putative substrate translocation pore; other site 360109003346 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 360109003347 short chain dehydrogenase; Provisional; Region: PRK08628 360109003348 classical (c) SDRs; Region: SDR_c; cd05233 360109003349 NAD(P) binding site [chemical binding]; other site 360109003350 active site 360109003351 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 360109003352 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 360109003353 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 360109003354 inhibitor site; inhibition site 360109003355 active site 360109003356 dimer interface [polypeptide binding]; other site 360109003357 catalytic residue [active] 360109003358 Transcriptional regulator [Transcription]; Region: IclR; COG1414 360109003359 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 360109003360 putative DNA binding site [nucleotide binding]; other site 360109003361 putative Zn2+ binding site [ion binding]; other site 360109003362 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 360109003363 L11 interface [polypeptide binding]; other site 360109003364 putative EF-Tu interaction site [polypeptide binding]; other site 360109003365 putative EF-G interaction site [polypeptide binding]; other site 360109003366 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 360109003367 23S rRNA interface [nucleotide binding]; other site 360109003368 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 360109003369 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 360109003370 mRNA/rRNA interface [nucleotide binding]; other site 360109003371 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 360109003372 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 360109003373 23S rRNA interface [nucleotide binding]; other site 360109003374 L7/L12 interface [polypeptide binding]; other site 360109003375 putative thiostrepton binding site; other site 360109003376 L25 interface [polypeptide binding]; other site 360109003377 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 360109003378 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 360109003379 putative homodimer interface [polypeptide binding]; other site 360109003380 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 360109003381 heterodimer interface [polypeptide binding]; other site 360109003382 homodimer interface [polypeptide binding]; other site 360109003383 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 360109003384 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 360109003385 elongation factor Tu; Reviewed; Region: PRK00049 360109003386 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 360109003387 G1 box; other site 360109003388 GEF interaction site [polypeptide binding]; other site 360109003389 GTP/Mg2+ binding site [chemical binding]; other site 360109003390 Switch I region; other site 360109003391 G2 box; other site 360109003392 G3 box; other site 360109003393 Switch II region; other site 360109003394 G4 box; other site 360109003395 G5 box; other site 360109003396 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 360109003397 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 360109003398 Antibiotic Binding Site [chemical binding]; other site 360109003399 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360109003400 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360109003401 Walker A/P-loop; other site 360109003402 ATP binding site [chemical binding]; other site 360109003403 Q-loop/lid; other site 360109003404 ABC transporter signature motif; other site 360109003405 Walker B; other site 360109003406 D-loop; other site 360109003407 H-loop/switch region; other site 360109003408 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 360109003409 dimer interface [polypeptide binding]; other site 360109003410 conserved gate region; other site 360109003411 putative PBP binding loops; other site 360109003412 ABC-ATPase subunit interface; other site 360109003413 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 360109003414 dimer interface [polypeptide binding]; other site 360109003415 conserved gate region; other site 360109003416 putative PBP binding loops; other site 360109003417 ABC-ATPase subunit interface; other site 360109003418 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 360109003419 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 360109003420 ligand binding site [chemical binding]; other site 360109003421 flexible hinge region; other site 360109003422 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 360109003423 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 360109003424 apolar tunnel; other site 360109003425 heme binding site [chemical binding]; other site 360109003426 dimerization interface [polypeptide binding]; other site 360109003427 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 360109003428 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 360109003429 generic binding surface II; other site 360109003430 ssDNA binding site; other site 360109003431 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 360109003432 ATP binding site [chemical binding]; other site 360109003433 putative Mg++ binding site [ion binding]; other site 360109003434 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 360109003435 nucleotide binding region [chemical binding]; other site 360109003436 ATP-binding site [chemical binding]; other site 360109003437 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360109003438 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360109003439 hypothetical protein; Provisional; Region: PRK08445 360109003440 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 360109003441 FeS/SAM binding site; other site 360109003442 H+ Antiporter protein; Region: 2A0121; TIGR00900 360109003443 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 360109003444 NusA N-terminal domain; Region: NusA_N; pfam08529 360109003445 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 360109003446 RNA binding site [nucleotide binding]; other site 360109003447 homodimer interface [polypeptide binding]; other site 360109003448 NusA-like KH domain; Region: KH_5; pfam13184 360109003449 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 360109003450 G-X-X-G motif; other site 360109003451 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360109003452 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 360109003453 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 360109003454 FeS/SAM binding site; other site 360109003455 TRAM domain; Region: TRAM; pfam01938 360109003456 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 360109003457 putative acyl-acceptor binding pocket; other site 360109003458 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 360109003459 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 360109003460 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 360109003461 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 360109003462 substrate binding site [chemical binding]; other site 360109003463 hexamer interface [polypeptide binding]; other site 360109003464 metal binding site [ion binding]; metal-binding site 360109003465 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 360109003466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 360109003467 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 360109003468 dimer interface [polypeptide binding]; other site 360109003469 ADP-ribose binding site [chemical binding]; other site 360109003470 active site 360109003471 nudix motif; other site 360109003472 metal binding site [ion binding]; metal-binding site 360109003473 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 360109003474 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 360109003475 N-terminal plug; other site 360109003476 ligand-binding site [chemical binding]; other site 360109003477 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 360109003478 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 360109003479 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 360109003480 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 360109003481 dimer interface [polypeptide binding]; other site 360109003482 active site 360109003483 acyl carrier protein; Provisional; Region: acpP; PRK00982 360109003484 Putative transcription activator [Transcription]; Region: TenA; COG0819 360109003485 Uncharacterized conserved protein [Function unknown]; Region: COG5015 360109003486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360109003487 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 360109003488 NAD(P) binding site [chemical binding]; other site 360109003489 active site 360109003490 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 360109003491 phosphoglyceromutase; Provisional; Region: PRK05434 360109003492 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 360109003493 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 360109003494 Mg++ binding site [ion binding]; other site 360109003495 putative catalytic motif [active] 360109003496 putative substrate binding site [chemical binding]; other site 360109003497 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 360109003498 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360109003499 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360109003500 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 360109003501 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360109003502 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 360109003503 S-adenosylmethionine binding site [chemical binding]; other site 360109003504 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 360109003505 Uncharacterized conserved protein [Function unknown]; Region: COG1739 360109003506 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 360109003507 S-layer like family, C-terminal region; Region: S_layer_C; pfam05124 360109003508 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 360109003509 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360109003510 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360109003511 ABC transporter; Region: ABC_tran_2; pfam12848 360109003512 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360109003513 CCC1-related family of proteins; Region: CCC1_like; cl00278 360109003514 Uncharacterized conserved protein [Function unknown]; Region: COG2353 360109003515 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 360109003516 HIT family signature motif; other site 360109003517 catalytic residue [active] 360109003518 SprA-related family; Region: SprA-related; pfam12118 360109003519 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360109003520 Sel1-like repeats; Region: SEL1; smart00671 360109003521 Sel1-like repeats; Region: SEL1; smart00671 360109003522 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 360109003523 Dynamin family; Region: Dynamin_N; pfam00350 360109003524 G1 box; other site 360109003525 GTP/Mg2+ binding site [chemical binding]; other site 360109003526 G2 box; other site 360109003527 Switch I region; other site 360109003528 G3 box; other site 360109003529 Switch II region; other site 360109003530 G4 box; other site 360109003531 G5 box; other site 360109003532 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 360109003533 Dynamin family; Region: Dynamin_N; pfam00350 360109003534 G1 box; other site 360109003535 GTP/Mg2+ binding site [chemical binding]; other site 360109003536 G2 box; other site 360109003537 Switch I region; other site 360109003538 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 360109003539 G3 box; other site 360109003540 Switch II region; other site 360109003541 GTP/Mg2+ binding site [chemical binding]; other site 360109003542 G4 box; other site 360109003543 G5 box; other site 360109003544 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 360109003545 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 360109003546 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 360109003547 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 360109003548 L-aspartate oxidase; Provisional; Region: PRK06175 360109003549 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 360109003550 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 360109003551 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 360109003552 Iron-sulfur protein interface; other site 360109003553 proximal heme binding site [chemical binding]; other site 360109003554 distal heme binding site [chemical binding]; other site 360109003555 dimer interface [polypeptide binding]; other site 360109003556 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 360109003557 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 360109003558 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 360109003559 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 360109003560 shikimate binding site; other site 360109003561 NAD(P) binding site [chemical binding]; other site 360109003562 Sporulation related domain; Region: SPOR; pfam05036 360109003563 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 360109003564 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 360109003565 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 360109003566 dimer interface [polypeptide binding]; other site 360109003567 active site 360109003568 glycine-pyridoxal phosphate binding site [chemical binding]; other site 360109003569 folate binding site [chemical binding]; other site 360109003570 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 360109003571 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 360109003572 dimer interface [polypeptide binding]; other site 360109003573 putative anticodon binding site; other site 360109003574 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 360109003575 motif 1; other site 360109003576 active site 360109003577 motif 2; other site 360109003578 motif 3; other site 360109003579 ferric uptake regulator; Provisional; Region: fur; PRK09462 360109003580 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360109003581 metal binding site 2 [ion binding]; metal-binding site 360109003582 putative DNA binding helix; other site 360109003583 metal binding site 1 [ion binding]; metal-binding site 360109003584 dimer interface [polypeptide binding]; other site 360109003585 structural Zn2+ binding site [ion binding]; other site 360109003586 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 360109003587 Colicin V production protein; Region: Colicin_V; pfam02674 360109003588 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 360109003589 PQQ-like domain; Region: PQQ_2; pfam13360 360109003590 pantothenate kinase; Reviewed; Region: PRK13333 360109003591 Predicted dehydrogenase [General function prediction only]; Region: COG0579 360109003592 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 360109003593 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 360109003594 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 360109003595 domain interfaces; other site 360109003596 active site 360109003597 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 360109003598 binding surface 360109003599 TPR motif; other site 360109003600 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 360109003601 TPR motif; other site 360109003602 seryl-tRNA synthetase; Provisional; Region: PRK05431 360109003603 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 360109003604 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 360109003605 dimer interface [polypeptide binding]; other site 360109003606 active site 360109003607 motif 1; other site 360109003608 motif 2; other site 360109003609 motif 3; other site 360109003610 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 360109003611 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 360109003612 active site 360109003613 HIGH motif; other site 360109003614 dimer interface [polypeptide binding]; other site 360109003615 KMSKS motif; other site 360109003616 shikimate kinase; Reviewed; Region: aroK; PRK00131 360109003617 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 360109003618 ADP binding site [chemical binding]; other site 360109003619 magnesium binding site [ion binding]; other site 360109003620 putative shikimate binding site; other site 360109003621 GTP-binding protein Der; Reviewed; Region: PRK00093 360109003622 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 360109003623 G1 box; other site 360109003624 GTP/Mg2+ binding site [chemical binding]; other site 360109003625 Switch I region; other site 360109003626 G2 box; other site 360109003627 Switch II region; other site 360109003628 G3 box; other site 360109003629 G4 box; other site 360109003630 G5 box; other site 360109003631 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 360109003632 GTP/Mg2+ binding site [chemical binding]; other site 360109003633 Switch I region; other site 360109003634 G2 box; other site 360109003635 G3 box; other site 360109003636 Switch II region; other site 360109003637 G4 box; other site 360109003638 G5 box; other site 360109003639 EamA-like transporter family; Region: EamA; pfam00892 360109003640 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 360109003641 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 360109003642 homopentamer interface [polypeptide binding]; other site 360109003643 active site 360109003644 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 360109003645 putative RNA binding site [nucleotide binding]; other site 360109003646 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 360109003647 active site 360109003648 dimer interface [polypeptide binding]; other site 360109003649 TMAO/DMSO reductase; Reviewed; Region: PRK05363 360109003650 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 360109003651 Moco binding site; other site 360109003652 metal coordination site [ion binding]; other site 360109003653 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 360109003654 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 360109003655 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 360109003656 Walker A motif; other site 360109003657 ATP binding site [chemical binding]; other site 360109003658 Walker B motif; other site 360109003659 arginine finger; other site 360109003660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 360109003661 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 360109003662 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 360109003663 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 360109003664 putative ligand binding site [chemical binding]; other site 360109003665 putative NAD binding site [chemical binding]; other site 360109003666 catalytic site [active] 360109003667 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 360109003668 hypothetical protein; Provisional; Region: PRK04081 360109003669 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 360109003670 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 360109003671 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360109003672 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 360109003673 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 360109003674 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 360109003675 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 360109003676 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 360109003677 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360109003678 HlyD family secretion protein; Region: HlyD_3; pfam13437 360109003679 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 360109003680 Protein export membrane protein; Region: SecD_SecF; cl14618 360109003681 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 360109003682 Lipoprotein signal peptidase [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: LspA; COG0597 360109003683 lipoprotein signal peptidase; Provisional; Region: PRK14787 360109003684 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 360109003685 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 360109003686 active site 360109003687 substrate binding site [chemical binding]; other site 360109003688 metal binding site [ion binding]; metal-binding site 360109003689 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 360109003690 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 360109003691 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360109003692 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 360109003693 active site 360109003694 phosphorylation site [posttranslational modification] 360109003695 intermolecular recognition site; other site 360109003696 dimerization interface [polypeptide binding]; other site 360109003697 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 360109003698 DNA binding site [nucleotide binding] 360109003699 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 360109003700 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 360109003701 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 360109003702 flagellar motor switch protein; Validated; Region: PRK08433 360109003703 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 360109003704 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 360109003705 substrate binding site [chemical binding]; other site 360109003706 active site 360109003707 catalytic residues [active] 360109003708 heterodimer interface [polypeptide binding]; other site 360109003709 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 360109003710 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 360109003711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109003712 catalytic residue [active] 360109003713 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 360109003714 active site 360109003715 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK14607 360109003716 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 360109003717 glutamine binding [chemical binding]; other site 360109003718 catalytic triad [active] 360109003719 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 360109003720 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 360109003721 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 360109003722 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 360109003723 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 360109003724 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 360109003725 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360109003726 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360109003727 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 360109003728 Predicted membrane protein [Function unknown]; Region: COG1238 360109003729 DNA polymerase I; Provisional; Region: PRK05755 360109003730 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 360109003731 active site 360109003732 metal binding site 1 [ion binding]; metal-binding site 360109003733 putative 5' ssDNA interaction site; other site 360109003734 metal binding site 3; metal-binding site 360109003735 metal binding site 2 [ion binding]; metal-binding site 360109003736 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 360109003737 putative DNA binding site [nucleotide binding]; other site 360109003738 putative metal binding site [ion binding]; other site 360109003739 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 360109003740 active site 360109003741 catalytic site [active] 360109003742 substrate binding site [chemical binding]; other site 360109003743 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 360109003744 active site 360109003745 DNA binding site [nucleotide binding] 360109003746 catalytic site [active] 360109003747 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 360109003748 flagellar motor protein MotA; Validated; Region: PRK08456 360109003749 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 360109003750 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 360109003751 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360109003752 ligand binding site [chemical binding]; other site 360109003753 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 360109003754 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 360109003755 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 360109003756 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 360109003757 dimer interface [polypeptide binding]; other site 360109003758 decamer (pentamer of dimers) interface [polypeptide binding]; other site 360109003759 catalytic triad [active] 360109003760 peroxidatic and resolving cysteines [active] 360109003761 Ferredoxin [Energy production and conversion]; Region: COG1146 360109003762 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 360109003763 active site 360109003764 multimer interface [polypeptide binding]; other site 360109003765 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 360109003766 putative phosphate acyltransferase; Provisional; Region: PRK05331 360109003767 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 360109003768 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 360109003769 dimer interface [polypeptide binding]; other site 360109003770 active site 360109003771 CoA binding pocket [chemical binding]; other site 360109003772 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 360109003773 homodimer interface [polypeptide binding]; other site 360109003774 substrate-cofactor binding pocket; other site 360109003775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109003776 catalytic residue [active] 360109003777 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 360109003778 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 360109003779 generic binding surface II; other site 360109003780 generic binding surface I; other site 360109003781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 360109003782 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 360109003783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 360109003784 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 360109003785 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 360109003786 S-adenosylmethionine binding site [chemical binding]; other site 360109003787 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360109003788 metal binding site 2 [ion binding]; metal-binding site 360109003789 putative DNA binding helix; other site 360109003790 metal binding site 1 [ion binding]; metal-binding site 360109003791 structural Zn2+ binding site [ion binding]; other site 360109003792 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 360109003793 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 360109003794 TPP-binding site; other site 360109003795 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 360109003796 PYR/PP interface [polypeptide binding]; other site 360109003797 dimer interface [polypeptide binding]; other site 360109003798 TPP binding site [chemical binding]; other site 360109003799 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360109003800 flagellar assembly protein H; Validated; Region: fliH; PRK06669 360109003801 Flagellar assembly protein FliH; Region: FliH; pfam02108 360109003802 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 360109003803 FliG C-terminal domain; Region: FliG_C; pfam01706 360109003804 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 360109003805 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 360109003806 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 360109003807 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 360109003808 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 360109003809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109003810 homodimer interface [polypeptide binding]; other site 360109003811 catalytic residue [active] 360109003812 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 360109003813 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 360109003814 Prephenate dehydratase; Region: PDT; pfam00800 360109003815 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 360109003816 putative L-Phe binding site [chemical binding]; other site 360109003817 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 360109003818 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 360109003819 active site 360109003820 motif I; other site 360109003821 motif II; other site 360109003822 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 360109003823 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 360109003824 DNA methylase; Region: N6_N4_Mtase; pfam01555 360109003825 diaminopimelate decarboxylase; Region: lysA; TIGR01048 360109003826 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 360109003827 active site 360109003828 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360109003829 substrate binding site [chemical binding]; other site 360109003830 catalytic residues [active] 360109003831 dimer interface [polypeptide binding]; other site 360109003832 Predicted permeases [General function prediction only]; Region: COG0795 360109003833 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360109003834 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 360109003835 putative active site [active] 360109003836 catalytic residue [active] 360109003837 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 360109003838 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 360109003839 5S rRNA interface [nucleotide binding]; other site 360109003840 CTC domain interface [polypeptide binding]; other site 360109003841 L16 interface [polypeptide binding]; other site 360109003842 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 360109003843 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 360109003844 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 360109003845 AAA domain; Region: AAA_26; pfam13500 360109003846 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 360109003847 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 360109003848 inhibitor-cofactor binding pocket; inhibition site 360109003849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109003850 catalytic residue [active] 360109003851 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 360109003852 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 360109003853 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360109003854 catalytic residue [active] 360109003855 Protein of unknown function (DUF452); Region: DUF452; cl01062 360109003856 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 360109003857 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 360109003858 S-adenosylmethionine binding site [chemical binding]; other site 360109003859 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 360109003860 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 360109003861 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 360109003862 oligomerization interface [polypeptide binding]; other site 360109003863 active site 360109003864 metal binding site [ion binding]; metal-binding site 360109003865 pantoate--beta-alanine ligase; Region: panC; TIGR00018 360109003866 Pantoate-beta-alanine ligase; Region: PanC; cd00560 360109003867 active site 360109003868 ATP-binding site [chemical binding]; other site 360109003869 pantoate-binding site; other site 360109003870 HXXH motif; other site 360109003871 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 360109003872 tetramerization interface [polypeptide binding]; other site 360109003873 active site 360109003874 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 360109003875 ATP binding site [chemical binding]; other site 360109003876 substrate interface [chemical binding]; other site 360109003877 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 360109003878 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 360109003879 DNA methylase; Region: N6_N4_Mtase; pfam01555 360109003880 DEAD-like helicases superfamily; Region: DEXDc; smart00487 360109003881 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 360109003882 ATP binding site [chemical binding]; other site 360109003883 putative Mg++ binding site [ion binding]; other site 360109003884 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 360109003885 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 360109003886 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 360109003887 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 360109003888 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 360109003889 active site 360109003890 metal binding site [ion binding]; metal-binding site 360109003891 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 360109003892 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 360109003893 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360109003894 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 360109003895 active site 360109003896 phosphorylation site [posttranslational modification] 360109003897 intermolecular recognition site; other site 360109003898 dimerization interface [polypeptide binding]; other site 360109003899 chemotaxis protein CheA; Provisional; Region: PRK10547 360109003900 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 360109003901 putative binding surface; other site 360109003902 active site 360109003903 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 360109003904 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 360109003905 ATP binding site [chemical binding]; other site 360109003906 Mg2+ binding site [ion binding]; other site 360109003907 G-X-G motif; other site 360109003908 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 360109003909 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360109003910 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 360109003911 active site 360109003912 phosphorylation site [posttranslational modification] 360109003913 intermolecular recognition site; other site 360109003914 dimerization interface [polypeptide binding]; other site 360109003915 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 360109003916 putative CheA interaction surface; other site 360109003917 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 360109003918 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 360109003919 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 360109003920 motif II; other site 360109003921 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 360109003922 putative active site [active] 360109003923 transaldolase; Provisional; Region: PRK03903 360109003924 catalytic residue [active] 360109003925 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 360109003926 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 360109003927 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360109003928 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 360109003929 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 360109003930 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360109003931 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360109003932 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 360109003933 IMP binding site; other site 360109003934 dimer interface [polypeptide binding]; other site 360109003935 interdomain contacts; other site 360109003936 partial ornithine binding site; other site 360109003937 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 360109003938 rod shape-determining protein MreC; Region: MreC; pfam04085 360109003939 rod shape-determining protein MreB; Provisional; Region: PRK13927 360109003940 MreB and similar proteins; Region: MreB_like; cd10225 360109003941 nucleotide binding site [chemical binding]; other site 360109003942 Mg binding site [ion binding]; other site 360109003943 putative protofilament interaction site [polypeptide binding]; other site 360109003944 RodZ interaction site [polypeptide binding]; other site 360109003945 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 360109003946 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 360109003947 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 360109003948 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 360109003949 Walker A motif; other site 360109003950 ATP binding site [chemical binding]; other site 360109003951 Walker B motif; other site 360109003952 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 360109003953 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 360109003954 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 360109003955 active site 360109003956 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 360109003957 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 360109003958 Ligand Binding Site [chemical binding]; other site 360109003959 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 360109003960 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 360109003961 catalytic triad [active] 360109003962 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 360109003963 active site 1 [active] 360109003964 dimer interface [polypeptide binding]; other site 360109003965 hexamer interface [polypeptide binding]; other site 360109003966 active site 2 [active] 360109003967 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 360109003968 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 360109003969 intersubunit interface [polypeptide binding]; other site 360109003970 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 360109003971 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 360109003972 intersubunit interface [polypeptide binding]; other site 360109003973 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 360109003974 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 360109003975 ABC-ATPase subunit interface; other site 360109003976 dimer interface [polypeptide binding]; other site 360109003977 putative PBP binding regions; other site 360109003978 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360109003979 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360109003980 Walker A/P-loop; other site 360109003981 ATP binding site [chemical binding]; other site 360109003982 ABC transporter signature motif; other site 360109003983 Walker B; other site 360109003984 D-loop; other site 360109003985 H-loop/switch region; other site 360109003986 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 360109003987 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 360109003988 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360109003989 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 360109003990 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 360109003991 homodimer interface [polypeptide binding]; other site 360109003992 substrate-cofactor binding pocket; other site 360109003993 catalytic residue [active] 360109003994 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 360109003995 SPFH domain / Band 7 family; Region: Band_7; pfam01145 360109003996 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 360109003997 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 360109003998 Cache domain; Region: Cache_1; pfam02743 360109003999 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 360109004000 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360109004001 dimer interface [polypeptide binding]; other site 360109004002 putative CheW interface [polypeptide binding]; other site 360109004003 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 360109004004 S-adenosylmethionine binding site [chemical binding]; other site 360109004005 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 360109004006 active site 360109004007 substrate binding pocket [chemical binding]; other site 360109004008 dimer interface [polypeptide binding]; other site 360109004009 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 360109004010 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 360109004011 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 360109004012 Sulfatase; Region: Sulfatase; pfam00884 360109004013 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 360109004014 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 360109004015 Probable transposase; Region: OrfB_IS605; pfam01385 360109004016 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 360109004017 FeoA domain; Region: FeoA; cl00838 360109004018 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 360109004019 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 360109004020 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 360109004021 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 360109004022 NAD binding site [chemical binding]; other site 360109004023 homotetramer interface [polypeptide binding]; other site 360109004024 homodimer interface [polypeptide binding]; other site 360109004025 substrate binding site [chemical binding]; other site 360109004026 active site 360109004027 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 360109004028 triosephosphate isomerase; Provisional; Region: PRK14565 360109004029 substrate binding site [chemical binding]; other site 360109004030 dimer interface [polypeptide binding]; other site 360109004031 catalytic triad [active] 360109004032 Phosphoglycerate kinase; Region: PGK; pfam00162 360109004033 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 360109004034 substrate binding site [chemical binding]; other site 360109004035 hinge regions; other site 360109004036 ADP binding site [chemical binding]; other site 360109004037 catalytic site [active] 360109004038 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 360109004039 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 360109004040 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 360109004041 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 360109004042 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 360109004043 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 360109004044 active site 360109004045 substrate binding site [chemical binding]; other site 360109004046 metal binding site [ion binding]; metal-binding site 360109004047 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 360109004048 Phosphopantetheinyl transferase (holo-ACP synthase) [Lipid metabolism]; Region: AcpS; COG0736 360109004049 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 360109004050 Cytochrome P450; Region: p450; cl12078 360109004051 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 360109004052 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 360109004053 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 360109004054 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 360109004055 ligand-binding site [chemical binding]; other site 360109004056 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 360109004057 active site 360109004058 metal-binding site 360109004059 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 360109004060 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 360109004061 conserved cys residue [active] 360109004062 hypothetical protein; Provisional; Region: PRK05849 360109004063 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 360109004064 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 360109004065 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 360109004066 S-adenosylmethionine binding site [chemical binding]; other site 360109004067 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360109004068 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 360109004069 S-adenosylmethionine binding site [chemical binding]; other site 360109004070 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 360109004071 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 360109004072 Substrate binding site; other site 360109004073 Mg++ binding site; other site 360109004074 metal-binding site 360109004075 Mg++ binding site; other site 360109004076 metal-binding site 360109004077 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 360109004078 dimer interface [polypeptide binding]; other site 360109004079 active site 360109004080 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 360109004081 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 360109004082 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 360109004083 extended (e) SDRs; Region: SDR_e; cd08946 360109004084 NAD(P) binding site [chemical binding]; other site 360109004085 active site 360109004086 substrate binding site [chemical binding]; other site 360109004087 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 360109004088 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 360109004089 NADP-binding site; other site 360109004090 homotetramer interface [polypeptide binding]; other site 360109004091 substrate binding site [chemical binding]; other site 360109004092 homodimer interface [polypeptide binding]; other site 360109004093 active site 360109004094 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 360109004095 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 360109004096 NADP binding site [chemical binding]; other site 360109004097 active site 360109004098 putative substrate binding site [chemical binding]; other site 360109004099 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 360109004100 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 360109004101 NADP binding site [chemical binding]; other site 360109004102 active site 360109004103 putative substrate binding site [chemical binding]; other site 360109004104 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 360109004105 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 360109004106 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 360109004107 KpsF/GutQ family protein; Region: kpsF; TIGR00393 360109004108 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 360109004109 putative active site [active] 360109004110 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 360109004111 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 360109004112 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 360109004113 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 360109004114 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 360109004115 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 360109004116 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 360109004117 Walker A/P-loop; other site 360109004118 ATP binding site [chemical binding]; other site 360109004119 Q-loop/lid; other site 360109004120 ABC transporter signature motif; other site 360109004121 Walker B; other site 360109004122 D-loop; other site 360109004123 H-loop/switch region; other site 360109004124 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 360109004125 ABC-2 type transporter; Region: ABC2_membrane; cl17235 360109004126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 360109004127 dUTPase; Region: dUTPase_2; pfam08761 360109004128 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 360109004129 active site 360109004130 homodimer interface [polypeptide binding]; other site 360109004131 metal binding site [ion binding]; metal-binding site 360109004132 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 360109004133 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 360109004134 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 360109004135 Ligand Binding Site [chemical binding]; other site 360109004136 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 360109004137 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360109004138 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 360109004139 FeS/SAM binding site; other site 360109004140 peptide chain release factor 2; Validated; Region: prfB; PRK00578 360109004141 This domain is found in peptide chain release factors; Region: PCRF; smart00937 360109004142 RF-1 domain; Region: RF-1; pfam00472 360109004143 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 360109004144 catalytic nucleophile [active] 360109004145 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 360109004146 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 360109004147 Permutation of conserved domain; other site 360109004148 active site 360109004149 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 360109004150 thiamine monophosphate kinase; Provisional; Region: PRK05731 360109004151 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 360109004152 ATP binding site [chemical binding]; other site 360109004153 dimerization interface [polypeptide binding]; other site 360109004154 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 360109004155 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 360109004156 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 360109004157 S-adenosylmethionine binding site [chemical binding]; other site 360109004158 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 360109004159 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360109004160 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 360109004161 S-adenosylmethionine binding site [chemical binding]; other site 360109004162 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 360109004163 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 360109004164 Ligand binding site; other site 360109004165 capsule biosynthesis phosphatase; Region: EcbF-BcbF; TIGR01689 360109004166 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 360109004167 Ligand binding site; other site 360109004168 Cupin domain; Region: Cupin_2; cl17218 360109004169 SnoaL-like domain; Region: SnoaL_2; pfam12680 360109004170 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 360109004171 Ligand binding site; other site 360109004172 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 360109004173 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 360109004174 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 360109004175 motif II; other site 360109004176 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 360109004177 active site 360109004178 catalytic site [active] 360109004179 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360109004180 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 360109004181 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 360109004182 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 360109004183 Rod binding protein; Region: Rod-binding; cl01626 360109004184 FlgN protein; Region: FlgN; pfam05130 360109004185 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 360109004186 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360109004187 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 360109004188 hypothetical protein; Provisional; Region: PRK10621 360109004189 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 360109004190 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 360109004191 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 360109004192 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 360109004193 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 360109004194 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 360109004195 Walker A motif; other site 360109004196 ATP binding site [chemical binding]; other site 360109004197 Walker B motif; other site 360109004198 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 360109004199 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 360109004200 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360109004201 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 360109004202 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 360109004203 dimer interface [polypeptide binding]; other site 360109004204 PYR/PP interface [polypeptide binding]; other site 360109004205 TPP binding site [chemical binding]; other site 360109004206 substrate binding site [chemical binding]; other site 360109004207 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 360109004208 Domain of unknown function; Region: EKR; pfam10371 360109004209 4Fe-4S binding domain; Region: Fer4_6; pfam12837 360109004210 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 360109004211 TPP-binding site [chemical binding]; other site 360109004212 dimer interface [polypeptide binding]; other site 360109004213 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 360109004214 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 360109004215 motif II; other site 360109004216 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 360109004217 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 360109004218 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360109004219 ligand binding site [chemical binding]; other site 360109004220 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 360109004221 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 360109004222 23S rRNA interface [nucleotide binding]; other site 360109004223 L3 interface [polypeptide binding]; other site 360109004224 Part of AAA domain; Region: AAA_19; pfam13245 360109004225 putative recombination protein RecB; Provisional; Region: PRK13909 360109004226 Family description; Region: UvrD_C_2; pfam13538 360109004227 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 360109004228 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 360109004229 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 360109004230 FixH; Region: FixH; pfam05751 360109004231 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 360109004232 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 360109004233 Cytochrome c; Region: Cytochrom_C; cl11414 360109004234 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 360109004235 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 360109004236 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 360109004237 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 360109004238 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 360109004239 Low-spin heme binding site [chemical binding]; other site 360109004240 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 360109004241 D-pathway; other site 360109004242 Putative water exit pathway; other site 360109004243 Binuclear center (active site) [active] 360109004244 K-pathway; other site 360109004245 Putative proton exit pathway; other site 360109004246 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360109004247 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 360109004248 active site 360109004249 phosphorylation site [posttranslational modification] 360109004250 intermolecular recognition site; other site 360109004251 dimerization interface [polypeptide binding]; other site 360109004252 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 360109004253 DNA binding site [nucleotide binding] 360109004254 Uncharacterized conserved protein [Function unknown]; Region: COG2836 360109004255 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 360109004256 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 360109004257 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 360109004258 catalytic site [active] 360109004259 subunit interface [polypeptide binding]; other site 360109004260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 360109004261 Uncharacterized conserved protein [Function unknown]; Region: COG3334 360109004262 Flagellar FliJ protein; Region: FliJ; pfam02050 360109004263 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 360109004264 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 360109004265 GDP-binding site [chemical binding]; other site 360109004266 ACT binding site; other site 360109004267 IMP binding site; other site 360109004268 putative inner membrane protein; Provisional; Region: PRK11099 360109004269 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 360109004270 Sulphur transport; Region: Sulf_transp; pfam04143 360109004271 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 360109004272 CPxP motif; other site 360109004273 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 360109004274 HsdM N-terminal domain; Region: HsdM_N; pfam12161 360109004275 Methyltransferase domain; Region: Methyltransf_26; pfam13659 360109004276 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 360109004277 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360109004278 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360109004279 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 360109004280 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 360109004281 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 360109004282 ATP binding site [chemical binding]; other site 360109004283 putative Mg++ binding site [ion binding]; other site 360109004284 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 360109004285 Na binding site [ion binding]; other site 360109004286 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 360109004287 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 360109004288 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 360109004289 NAD(P) binding site [chemical binding]; other site 360109004290 catalytic residues [active] 360109004291 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 360109004292 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 360109004293 CPxP motif; other site 360109004294 Cache domain; Region: Cache_1; pfam02743 360109004295 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 360109004296 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360109004297 dimer interface [polypeptide binding]; other site 360109004298 putative CheW interface [polypeptide binding]; other site 360109004299 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 360109004300 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 360109004301 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 360109004302 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 360109004303 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 360109004304 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 360109004305 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 360109004306 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 360109004307 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 360109004308 dimer interface [polypeptide binding]; other site 360109004309 active site 360109004310 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360109004311 catalytic residues [active] 360109004312 substrate binding site [chemical binding]; other site 360109004313 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 360109004314 Multicopper oxidase; Region: Cu-oxidase; pfam00394 360109004315 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 360109004316 ThiS family; Region: ThiS; pfam02597 360109004317 charged pocket; other site 360109004318 hydrophobic patch; other site 360109004319 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 360109004320 MoaE homodimer interface [polypeptide binding]; other site 360109004321 MoaD interaction [polypeptide binding]; other site 360109004322 active site residues [active] 360109004323 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 360109004324 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 360109004325 dimer interface [polypeptide binding]; other site 360109004326 putative functional site; other site 360109004327 putative MPT binding site; other site 360109004328 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 360109004329 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 360109004330 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 360109004331 CRISPR/Cas system-associated protein Cas9; Region: Csn1; cd09643 360109004332 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 360109004333 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 360109004334 dimerization interface [polypeptide binding]; other site 360109004335 putative ATP binding site [chemical binding]; other site 360109004336 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 360109004337 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 360109004338 CoA-binding site [chemical binding]; other site 360109004339 ATP-binding [chemical binding]; other site 360109004340 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 360109004341 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 360109004342 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 360109004343 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 360109004344 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 360109004345 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 360109004346 AAA domain; Region: AAA_14; pfam13173 360109004347 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 360109004348 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 360109004349 active site 360109004350 dimer interface [polypeptide binding]; other site 360109004351 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 360109004352 dimer interface [polypeptide binding]; other site 360109004353 active site 360109004354 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 360109004355 active site 360109004356 tetramer interface; other site 360109004357 acetyl-CoA synthetase; Provisional; Region: PRK00174 360109004358 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 360109004359 active site 360109004360 CoA binding site [chemical binding]; other site 360109004361 acyl-activating enzyme (AAE) consensus motif; other site 360109004362 AMP binding site [chemical binding]; other site 360109004363 acetate binding site [chemical binding]; other site 360109004364 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 360109004365 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360109004366 Walker A/P-loop; other site 360109004367 ATP binding site [chemical binding]; other site 360109004368 Q-loop/lid; other site 360109004369 ABC transporter signature motif; other site 360109004370 Walker B; other site 360109004371 D-loop; other site 360109004372 H-loop/switch region; other site 360109004373 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 360109004374 dimer interface [polypeptide binding]; other site 360109004375 conserved gate region; other site 360109004376 putative PBP binding loops; other site 360109004377 ABC-ATPase subunit interface; other site 360109004378 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 360109004379 PBP superfamily domain; Region: PBP_like_2; pfam12849 360109004380 putative acyltransferase; Provisional; Region: PRK05790 360109004381 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 360109004382 putative active site [active] 360109004383 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 360109004384 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 360109004385 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 360109004386 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 360109004387 EamA-like transporter family; Region: EamA; pfam00892 360109004388 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 360109004389 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 360109004390 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 360109004391 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 360109004392 putative NAD(P) binding site [chemical binding]; other site 360109004393 putative substrate binding site [chemical binding]; other site 360109004394 catalytic Zn binding site [ion binding]; other site 360109004395 structural Zn binding site [ion binding]; other site 360109004396 dimer interface [polypeptide binding]; other site 360109004397 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 360109004398 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 360109004399 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360109004400 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 360109004401 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360109004402 Fic family protein [Function unknown]; Region: COG3177 360109004403 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 360109004404 Fic/DOC family; Region: Fic; pfam02661 360109004405 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 360109004406 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360109004407 dimer interface [polypeptide binding]; other site 360109004408 putative CheW interface [polypeptide binding]; other site 360109004409 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15490 360109004410 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 360109004411 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360109004412 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 360109004413 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360109004414 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 360109004415 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 360109004416 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360109004417 NADH:ubiquinone oxidoreductase subunit 11 or 4L (chain K) [Energy production and conversion]; Region: NuoK; COG0713 360109004418 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 360109004419 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 360109004420 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 360109004421 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 360109004422 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 360109004423 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 360109004424 NADH dehydrogenase subunit G; Validated; Region: PRK08493 360109004425 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 360109004426 catalytic loop [active] 360109004427 iron binding site [ion binding]; other site 360109004428 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 360109004429 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 360109004430 NADH dehydrogenase subunit D; Validated; Region: PRK06075 360109004431 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 360109004432 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 360109004433 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 360109004434 NADH dehydrogenase subunit B; Validated; Region: PRK06411 360109004435 NADH dehydrogenase subunit A; Validated; Region: PRK08489 360109004436 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360109004437 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360109004438 Walker A/P-loop; other site 360109004439 ATP binding site [chemical binding]; other site 360109004440 Q-loop/lid; other site 360109004441 ABC transporter signature motif; other site 360109004442 Walker B; other site 360109004443 D-loop; other site 360109004444 H-loop/switch region; other site 360109004445 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360109004446 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 360109004447 Walker A/P-loop; other site 360109004448 ATP binding site [chemical binding]; other site 360109004449 Q-loop/lid; other site 360109004450 ABC transporter signature motif; other site 360109004451 Walker B; other site 360109004452 D-loop; other site 360109004453 H-loop/switch region; other site 360109004454 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 360109004455 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 360109004456 putative PBP binding loops; other site 360109004457 ABC-ATPase subunit interface; other site 360109004458 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360109004459 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 360109004460 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 360109004461 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_19; cd08518 360109004462 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 360109004463 FAD binding domain; Region: FAD_binding_4; pfam01565 360109004464 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 360109004465 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 360109004466 heme-binding site [chemical binding]; other site 360109004467 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 360109004468 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360109004469 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 360109004470 Walker A/P-loop; other site 360109004471 ATP binding site [chemical binding]; other site 360109004472 Q-loop/lid; other site 360109004473 ABC transporter signature motif; other site 360109004474 Walker B; other site 360109004475 D-loop; other site 360109004476 H-loop/switch region; other site 360109004477 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 360109004478 rRNA binding site [nucleotide binding]; other site 360109004479 predicted 30S ribosome binding site; other site 360109004480 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 360109004481 30S ribosomal protein S13; Region: bact_S13; TIGR03631 360109004482 30S ribosomal protein S11; Validated; Region: PRK05309 360109004483 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 360109004484 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 360109004485 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 360109004486 RNA binding surface [nucleotide binding]; other site 360109004487 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 360109004488 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 360109004489 alphaNTD homodimer interface [polypeptide binding]; other site 360109004490 alphaNTD - beta interaction site [polypeptide binding]; other site 360109004491 alphaNTD - beta' interaction site [polypeptide binding]; other site 360109004492 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 360109004493 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 360109004494 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 360109004495 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 360109004496 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 360109004497 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 360109004498 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 360109004499 NAD binding site [chemical binding]; other site 360109004500 dimerization interface [polypeptide binding]; other site 360109004501 product binding site; other site 360109004502 substrate binding site [chemical binding]; other site 360109004503 zinc binding site [ion binding]; other site 360109004504 catalytic residues [active] 360109004505 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 360109004506 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 360109004507 active site 360109004508 motif I; other site 360109004509 motif II; other site 360109004510 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 360109004511 putative active site pocket [active] 360109004512 4-fold oligomerization interface [polypeptide binding]; other site 360109004513 metal binding residues [ion binding]; metal-binding site 360109004514 3-fold/trimer interface [polypeptide binding]; other site 360109004515 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 360109004516 DNA methylase; Region: N6_N4_Mtase; pfam01555 360109004517 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 360109004518 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 360109004519 putative active site [active] 360109004520 oxyanion strand; other site 360109004521 catalytic triad [active] 360109004522 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 360109004523 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 360109004524 catalytic residues [active] 360109004525 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 360109004526 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 360109004527 substrate binding site [chemical binding]; other site 360109004528 glutamase interaction surface [polypeptide binding]; other site 360109004529 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 360109004530 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 360109004531 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 360109004532 metal binding site [ion binding]; metal-binding site 360109004533 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 360109004534 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 360109004535 putative trimer interface [polypeptide binding]; other site 360109004536 putative CoA binding site [chemical binding]; other site 360109004537 antiporter inner membrane protein; Provisional; Region: PRK11670 360109004538 Domain of unknown function DUF59; Region: DUF59; pfam01883 360109004539 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 360109004540 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 360109004541 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 360109004542 substrate binding site; other site 360109004543 dimer interface; other site 360109004544 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 360109004545 homotrimer interaction site [polypeptide binding]; other site 360109004546 zinc binding site [ion binding]; other site 360109004547 CDP-binding sites; other site 360109004548 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360109004549 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 360109004550 active site 360109004551 intermolecular recognition site; other site 360109004552 dimerization interface [polypeptide binding]; other site 360109004553 ATP sulfurylase (sulfate adenylyltransferase) [Inorganic ion transport and metabolism]; Region: MET3; COG2046 360109004554 ATP-sulfurylase; Region: ATP-sulfurylase; pfam01747 360109004555 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 360109004556 tetramer interfaces [polypeptide binding]; other site 360109004557 binuclear metal-binding site [ion binding]; other site 360109004558 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 360109004559 peptide chain release factor 1; Validated; Region: prfA; PRK00591 360109004560 This domain is found in peptide chain release factors; Region: PCRF; smart00937 360109004561 RF-1 domain; Region: RF-1; pfam00472 360109004562 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 360109004563 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 360109004564 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 360109004565 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 360109004566 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 360109004567 N-terminal plug; other site 360109004568 ligand-binding site [chemical binding]; other site 360109004569 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 360109004570 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 360109004571 ABC-ATPase subunit interface; other site 360109004572 dimer interface [polypeptide binding]; other site 360109004573 putative PBP binding regions; other site 360109004574 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360109004575 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360109004576 Walker A/P-loop; other site 360109004577 ATP binding site [chemical binding]; other site 360109004578 Q-loop/lid; other site 360109004579 ABC transporter signature motif; other site 360109004580 Walker B; other site 360109004581 D-loop; other site 360109004582 H-loop/switch region; other site 360109004583 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 360109004584 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 360109004585 intersubunit interface [polypeptide binding]; other site 360109004586 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 360109004587 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 360109004588 putative substrate translocation pore; other site 360109004589 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 360109004590 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360109004591 minor groove reading motif; other site 360109004592 helix-hairpin-helix signature motif; other site 360109004593 substrate binding pocket [chemical binding]; other site 360109004594 active site 360109004595 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 360109004596 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 360109004597 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 360109004598 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 360109004599 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 360109004600 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 360109004601 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 360109004602 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360109004603 TonB system transport protein ExbD, group 2; Region: ExbD_2; TIGR02804 360109004604 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 360109004605 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 360109004606 Ligand Binding Site [chemical binding]; other site 360109004607 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 360109004608 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 360109004609 Tetramer interface [polypeptide binding]; other site 360109004610 active site 360109004611 FMN-binding site [chemical binding]; other site 360109004612 ribonuclease III; Reviewed; Region: rnc; PRK00102 360109004613 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 360109004614 dimerization interface [polypeptide binding]; other site 360109004615 active site 360109004616 metal binding site [ion binding]; metal-binding site 360109004617 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 360109004618 dsRNA binding site [nucleotide binding]; other site 360109004619 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 360109004620 RNA/DNA hybrid binding site [nucleotide binding]; other site 360109004621 active site 360109004622 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 360109004623 TPR motif; other site 360109004624 binding surface 360109004625 Tetratricopeptide repeat; Region: TPR_16; pfam13432 360109004626 Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have...; Region: ZZ; cl00295 360109004627 Zinc-binding sites [ion binding]; other site 360109004628 zinc cluster 1 [ion binding]; other site 360109004629 putative charged binding surface; other site 360109004630 putative hydrophobic binding surface; other site 360109004631 zinc cluster 2 [ion binding]; other site 360109004632 DNA primase; Validated; Region: dnaG; PRK05667 360109004633 CHC2 zinc finger; Region: zf-CHC2; pfam01807 360109004634 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 360109004635 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 360109004636 active site 360109004637 metal binding site [ion binding]; metal-binding site 360109004638 interdomain interaction site; other site 360109004639 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 360109004640 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 360109004641 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360109004642 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360109004643 hypothetical protein; Provisional; Region: PRK03762 360109004644 PDZ domain; Region: PDZ_2; pfam13180 360109004645 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 360109004646 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 360109004647 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 360109004648 substrate binding pocket [chemical binding]; other site 360109004649 chain length determination region; other site 360109004650 substrate-Mg2+ binding site; other site 360109004651 catalytic residues [active] 360109004652 aspartate-rich region 1; other site 360109004653 active site lid residues [active] 360109004654 aspartate-rich region 2; other site 360109004655 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 360109004656 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 360109004657 TPP-binding site [chemical binding]; other site 360109004658 dimer interface [polypeptide binding]; other site 360109004659 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 360109004660 PYR/PP interface [polypeptide binding]; other site 360109004661 dimer interface [polypeptide binding]; other site 360109004662 TPP binding site [chemical binding]; other site 360109004663 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360109004664 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 360109004665 anti sigma factor interaction site; other site 360109004666 regulatory phosphorylation site [posttranslational modification]; other site 360109004667 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 360109004668 Permease; Region: Permease; pfam02405 360109004669 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 360109004670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360109004671 Walker A/P-loop; other site 360109004672 ATP binding site [chemical binding]; other site 360109004673 Q-loop/lid; other site 360109004674 ABC transporter signature motif; other site 360109004675 Walker B; other site 360109004676 D-loop; other site 360109004677 H-loop/switch region; other site 360109004678 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 360109004679 mce related protein; Region: MCE; pfam02470 360109004680 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 360109004681 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 360109004682 active site 360109004683 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 360109004684 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 360109004685 Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: NhaA; COG3004 360109004686 Putative motility protein; Region: YjfB_motility; pfam14070 360109004687 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 360109004688 Predicted membrane protein [Function unknown]; Region: COG4280 360109004689 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 360109004690 Predicted membrane protein [Function unknown]; Region: COG4393 360109004691 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 360109004692 Uncharacterized conserved protein [Function unknown]; Region: COG3350 360109004693 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360109004694 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 360109004695 FtsX-like permease family; Region: FtsX; pfam02687 360109004696 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360109004697 FtsX-like permease family; Region: FtsX; pfam02687 360109004698 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 360109004699 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360109004700 Walker A/P-loop; other site 360109004701 ATP binding site [chemical binding]; other site 360109004702 Q-loop/lid; other site 360109004703 ABC transporter signature motif; other site 360109004704 Walker B; other site 360109004705 D-loop; other site 360109004706 H-loop/switch region; other site 360109004707 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360109004708 H-loop/switch region; other site 360109004709 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 360109004710 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360109004711 catalytic residues [active] 360109004712 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360109004713 Predicted metal-binding protein [General function prediction only]; Region: COG3019 360109004714 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 360109004715 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 360109004716 YcfA-like protein; Region: YcfA; pfam07927 360109004717 DNA ligase; Provisional; Region: PRK09125 360109004718 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 360109004719 DNA binding site [nucleotide binding] 360109004720 active site 360109004721 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 360109004722 DNA binding site [nucleotide binding] 360109004723 AMIN domain; Region: AMIN; pfam11741 360109004724 enolase; Provisional; Region: eno; PRK00077 360109004725 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 360109004726 dimer interface [polypeptide binding]; other site 360109004727 metal binding site [ion binding]; metal-binding site 360109004728 substrate binding pocket [chemical binding]; other site 360109004729 recombinase A; Provisional; Region: recA; PRK09354 360109004730 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 360109004731 hexamer interface [polypeptide binding]; other site 360109004732 Walker A motif; other site 360109004733 ATP binding site [chemical binding]; other site 360109004734 Walker B motif; other site 360109004735 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 360109004736 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 360109004737 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 360109004738 FAD binding domain; Region: FAD_binding_4; pfam01565 360109004739 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 360109004740 TPR repeat; Region: TPR_11; pfam13414 360109004741 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 360109004742 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 360109004743 active site 360109004744 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 360109004745 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 360109004746 dimer interface [polypeptide binding]; other site 360109004747 active site 360109004748 citrylCoA binding site [chemical binding]; other site 360109004749 NADH binding [chemical binding]; other site 360109004750 cationic pore residues; other site 360109004751 oxalacetate/citrate binding site [chemical binding]; other site 360109004752 coenzyme A binding site [chemical binding]; other site 360109004753 catalytic triad [active] 360109004754 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 360109004755 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 360109004756 biotin synthase; Provisional; Region: PRK08508 360109004757 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 360109004758 FeS/SAM binding site; other site 360109004759 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 360109004760 DNA topoisomerase I; Validated; Region: PRK05582 360109004761 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 360109004762 active site 360109004763 interdomain interaction site; other site 360109004764 putative metal-binding site [ion binding]; other site 360109004765 nucleotide binding site [chemical binding]; other site 360109004766 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 360109004767 domain I; other site 360109004768 DNA binding groove [nucleotide binding] 360109004769 phosphate binding site [ion binding]; other site 360109004770 domain II; other site 360109004771 domain III; other site 360109004772 nucleotide binding site [chemical binding]; other site 360109004773 catalytic site [active] 360109004774 domain IV; other site 360109004775 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360109004776 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360109004777 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 360109004778 putative substrate translocation pore; other site 360109004779 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360109004780 Predicted acyl esterases [General function prediction only]; Region: COG2936 360109004781 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 360109004782 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 360109004783 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 360109004784 putative substrate translocation pore; other site 360109004785 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360109004786 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 360109004787 SecY translocase; Region: SecY; pfam00344 360109004788 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 360109004789 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 360109004790 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 360109004791 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 360109004792 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 360109004793 5S rRNA interface [nucleotide binding]; other site 360109004794 23S rRNA interface [nucleotide binding]; other site 360109004795 L5 interface [polypeptide binding]; other site 360109004796 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 360109004797 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360109004798 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360109004799 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 360109004800 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 360109004801 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 360109004802 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 360109004803 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 360109004804 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 360109004805 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 360109004806 RNA binding site [nucleotide binding]; other site 360109004807 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 360109004808 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 360109004809 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 360109004810 putative translocon interaction site; other site 360109004811 23S rRNA interface [nucleotide binding]; other site 360109004812 signal recognition particle (SRP54) interaction site; other site 360109004813 L23 interface [polypeptide binding]; other site 360109004814 trigger factor interaction site; other site 360109004815 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 360109004816 23S rRNA interface [nucleotide binding]; other site 360109004817 5S rRNA interface [nucleotide binding]; other site 360109004818 putative antibiotic binding site [chemical binding]; other site 360109004819 L25 interface [polypeptide binding]; other site 360109004820 L27 interface [polypeptide binding]; other site 360109004821 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 360109004822 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 360109004823 G-X-X-G motif; other site 360109004824 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 360109004825 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 360109004826 putative translocon binding site; other site 360109004827 protein-rRNA interface [nucleotide binding]; other site 360109004828 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 360109004829 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 360109004830 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 360109004831 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 360109004832 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 360109004833 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 360109004834 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 360109004835 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 360109004836 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 360109004837 S4 RNA-binding domain; Region: S4; smart00363 360109004838 RNA binding surface [nucleotide binding]; other site 360109004839 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 360109004840 active site 360109004841 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 360109004842 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 360109004843 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 360109004844 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 360109004845 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 360109004846 S-adenosylmethionine binding site [chemical binding]; other site 360109004847 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 360109004848 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 360109004849 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 360109004850 FeS/SAM binding site; other site 360109004851 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360109004852 Coenzyme A binding pocket [chemical binding]; other site 360109004853 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 360109004854 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 360109004855 substrate binding site [chemical binding]; other site 360109004856 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 360109004857 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 360109004858 substrate binding site [chemical binding]; other site 360109004859 ligand binding site [chemical binding]; other site 360109004860 tartrate dehydrogenase; Region: TTC; TIGR02089 360109004861 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 360109004862 2-isopropylmalate synthase; Validated; Region: PRK00915 360109004863 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 360109004864 active site 360109004865 catalytic residues [active] 360109004866 metal binding site [ion binding]; metal-binding site 360109004867 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 360109004868 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 360109004869 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 360109004870 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360109004871 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 360109004872 CPxP motif; other site 360109004873 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 360109004874 Sulphur transport; Region: Sulf_transp; pfam04143 360109004875 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 360109004876 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 360109004877 homodimer interface [polypeptide binding]; other site 360109004878 substrate-cofactor binding pocket; other site 360109004879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360109004880 catalytic residue [active] 360109004881 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 360109004882 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360109004883 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 360109004884 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360109004885 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 360109004886 active site 360109004887 putative DNA-binding cleft [nucleotide binding]; other site 360109004888 dimer interface [polypeptide binding]; other site