-- dump date 20140619_021703 -- class Genbank::misc_feature -- table misc_feature_note -- id note 354242000001 VirB8 protein; Region: VirB8; cl01500 354242000002 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 354242000003 VirB7 interaction site; other site 354242000004 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 354242000005 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 354242000006 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 354242000007 Walker A motif; other site 354242000008 hexamer interface [polypeptide binding]; other site 354242000009 ATP binding site [chemical binding]; other site 354242000010 Walker B motif; other site 354242000011 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 354242000012 Protein of unknown function (DUF418); Region: DUF418; pfam04235 354242000013 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 354242000014 Walker A motif; other site 354242000015 ATP binding site [chemical binding]; other site 354242000016 Walker B motif; other site 354242000017 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 354242000018 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 354242000019 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 354242000020 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 354242000021 active site 354242000022 interdomain interaction site; other site 354242000023 putative metal-binding site [ion binding]; other site 354242000024 nucleotide binding site [chemical binding]; other site 354242000025 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 354242000026 domain I; other site 354242000027 DNA binding groove [nucleotide binding] 354242000028 phosphate binding site [ion binding]; other site 354242000029 domain II; other site 354242000030 domain III; other site 354242000031 nucleotide binding site [chemical binding]; other site 354242000032 catalytic site [active] 354242000033 domain IV; other site 354242000034 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 354242000035 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 354242000036 dimer interface [polypeptide binding]; other site 354242000037 ssDNA binding site [nucleotide binding]; other site 354242000038 tetramer (dimer of dimers) interface [polypeptide binding]; other site 354242000039 ParA-like protein; Provisional; Region: PHA02518 354242000040 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 354242000041 P-loop; other site 354242000042 Magnesium ion binding site [ion binding]; other site 354242000043 Initiator Replication protein; Region: Rep_3; pfam01051 354242000044 TrbM; Region: TrbM; pfam07424 354242000045 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 354242000046 Toprim-like; Region: Toprim_2; pfam13155 354242000047 PemK-like protein; Region: PemK; pfam02452 354242000048 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 354242000049 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 354242000050 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 354242000051 AAA domain; Region: AAA_17; pfam13207 354242000052 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 354242000053 Walker B motif; other site 354242000054 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 354242000055 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 354242000056 Walker A motif; other site 354242000057 ATP binding site [chemical binding]; other site 354242000058 Walker B motif; other site 354242000059 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 354242000060 DnaA box-binding interface [nucleotide binding]; other site 354242000061 DNA polymerase III subunit beta; Validated; Region: PRK05643 354242000062 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 354242000063 putative DNA binding surface [nucleotide binding]; other site 354242000064 dimer interface [polypeptide binding]; other site 354242000065 beta-clamp/clamp loader binding surface; other site 354242000066 beta-clamp/translesion DNA polymerase binding surface; other site 354242000067 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 354242000068 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 354242000069 Mg2+ binding site [ion binding]; other site 354242000070 G-X-G motif; other site 354242000071 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 354242000072 anchoring element; other site 354242000073 dimer interface [polypeptide binding]; other site 354242000074 ATP binding site [chemical binding]; other site 354242000075 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 354242000076 active site 354242000077 putative metal-binding site [ion binding]; other site 354242000078 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 354242000079 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 354242000080 sulfite oxidase; Provisional; Region: PLN00177 354242000081 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 354242000082 Moco binding site; other site 354242000083 metal coordination site [ion binding]; other site 354242000084 dimerization interface [polypeptide binding]; other site 354242000085 Predicted permease [General function prediction only]; Region: COG2056 354242000086 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 354242000087 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 354242000088 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 354242000089 active site 354242000090 dimer interface [polypeptide binding]; other site 354242000091 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 354242000092 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 354242000093 active site 354242000094 FMN binding site [chemical binding]; other site 354242000095 substrate binding site [chemical binding]; other site 354242000096 3Fe-4S cluster binding site [ion binding]; other site 354242000097 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 354242000098 domain interface; other site 354242000099 Protein of unknown function DUF262; Region: DUF262; pfam03235 354242000100 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 354242000101 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 354242000102 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 354242000103 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 354242000104 RNA/DNA hybrid binding site [nucleotide binding]; other site 354242000105 active site 354242000106 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 354242000107 Helix-hairpin-helix motif; Region: HHH; pfam00633 354242000108 Rubrerythrin [Energy production and conversion]; Region: COG1592 354242000109 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 354242000110 binuclear metal center [ion binding]; other site 354242000111 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 354242000112 iron binding site [ion binding]; other site 354242000113 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 354242000114 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 354242000115 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 354242000116 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 354242000117 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 354242000118 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 354242000119 Ligand Binding Site [chemical binding]; other site 354242000120 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 354242000121 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 354242000122 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 354242000123 dimer interface [polypeptide binding]; other site 354242000124 putative CheW interface [polypeptide binding]; other site 354242000125 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 354242000126 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 354242000127 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 354242000128 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 354242000129 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 354242000130 active site 354242000131 adenylosuccinate lyase; Provisional; Region: PRK08470 354242000132 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 354242000133 tetramer interface [polypeptide binding]; other site 354242000134 active site 354242000135 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 354242000136 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 354242000137 ATP cone domain; Region: ATP-cone; pfam03477 354242000138 Class I ribonucleotide reductase; Region: RNR_I; cd01679 354242000139 active site 354242000140 dimer interface [polypeptide binding]; other site 354242000141 catalytic residues [active] 354242000142 effector binding site; other site 354242000143 R2 peptide binding site; other site 354242000144 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 354242000145 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 354242000146 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 354242000147 CTP synthetase; Validated; Region: pyrG; PRK05380 354242000148 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 354242000149 Catalytic site [active] 354242000150 active site 354242000151 UTP binding site [chemical binding]; other site 354242000152 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 354242000153 active site 354242000154 putative oxyanion hole; other site 354242000155 catalytic triad [active] 354242000156 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 354242000157 DHH family; Region: DHH; pfam01368 354242000158 DHHA1 domain; Region: DHHA1; pfam02272 354242000159 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 354242000160 active site 354242000161 homotetramer interface [polypeptide binding]; other site 354242000162 homodimer interface [polypeptide binding]; other site 354242000163 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 354242000164 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 354242000165 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 354242000166 heme-binding residues [chemical binding]; other site 354242000167 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 354242000168 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 354242000169 heme-binding residues [chemical binding]; other site 354242000170 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 354242000171 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 354242000172 catalytic residues [active] 354242000173 ResB-like family; Region: ResB; pfam05140 354242000174 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 354242000175 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 354242000176 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 354242000177 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 354242000178 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 354242000179 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 354242000180 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 354242000181 Transglycosylase; Region: Transgly; pfam00912 354242000182 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 354242000183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 354242000184 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 354242000185 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 354242000186 putative substrate translocation pore; other site 354242000187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 354242000188 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 354242000189 Cytochrome c [Energy production and conversion]; Region: COG3258 354242000190 Cytochrome c; Region: Cytochrom_C; pfam00034 354242000191 Cytochrome c; Region: Cytochrom_C; pfam00034 354242000192 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 354242000193 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 354242000194 G1 box; other site 354242000195 putative GEF interaction site [polypeptide binding]; other site 354242000196 GTP/Mg2+ binding site [chemical binding]; other site 354242000197 Switch I region; other site 354242000198 G2 box; other site 354242000199 G3 box; other site 354242000200 Switch II region; other site 354242000201 G4 box; other site 354242000202 G5 box; other site 354242000203 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 354242000204 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 354242000205 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 354242000206 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 354242000207 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 354242000208 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 354242000209 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 354242000210 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 354242000211 Protein of unknown function (DUF342); Region: DUF342; pfam03961 354242000212 Hemerythrin; Region: Hemerythrin; cd12107 354242000213 Fe binding site [ion binding]; other site 354242000214 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 354242000215 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 354242000216 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 354242000217 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 354242000218 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 354242000219 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 354242000220 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 354242000221 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 354242000222 Ligand Binding Site [chemical binding]; other site 354242000223 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 354242000224 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 354242000225 putative active site [active] 354242000226 Predicted double-glycine peptidase [General function prediction only]; Region: COG3271 354242000227 putative active site [active] 354242000228 flagellar motor switch protein FliY; Validated; Region: PRK08432 354242000229 flagellar motor switch protein FliN; Region: fliN; TIGR02480 354242000230 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 354242000231 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 354242000232 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 354242000233 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 354242000234 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 354242000235 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 354242000236 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 354242000237 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 354242000238 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 354242000239 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 354242000240 catalytic center binding site [active] 354242000241 ATP binding site [chemical binding]; other site 354242000242 Dehydroquinase class II; Region: DHquinase_II; pfam01220 354242000243 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 354242000244 trimer interface [polypeptide binding]; other site 354242000245 active site 354242000246 dimer interface [polypeptide binding]; other site 354242000247 chlorohydrolase; Provisional; Region: PRK08418 354242000248 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 354242000249 active site 354242000250 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 354242000251 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 354242000252 tandem repeat interface [polypeptide binding]; other site 354242000253 oligomer interface [polypeptide binding]; other site 354242000254 active site residues [active] 354242000255 Hemerythrin; Region: Hemerythrin; cd12107 354242000256 Uncharacterized conserved protein [Function unknown]; Region: COG1556 354242000257 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 354242000258 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 354242000259 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 354242000260 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 354242000261 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 354242000262 Cysteine-rich domain; Region: CCG; pfam02754 354242000263 Cysteine-rich domain; Region: CCG; pfam02754 354242000264 L-lactate permease; Region: Lactate_perm; cl00701 354242000265 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 354242000266 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 354242000267 CdtB, the catalytic DNase I-like subunit of cytolethal distending toxin (CDT) protein; Region: CdtB; cd09081 354242000268 putative catalytic site [active] 354242000269 CdtC interface [polypeptide binding]; other site 354242000270 heterotrimer interface [polypeptide binding]; other site 354242000271 CdtA interface [polypeptide binding]; other site 354242000272 putative metal binding site [ion binding]; other site 354242000273 putative phosphate binding site [ion binding]; other site 354242000274 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 354242000275 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 354242000276 putative sugar binding sites [chemical binding]; other site 354242000277 Q-X-W motif; other site 354242000278 Cytochrome bd-type quinol oxidase, subunit 1 [Energy production and conversion]; Region: CydA; COG1271 354242000279 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 354242000280 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 354242000281 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 354242000282 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 354242000283 aspartate racemase; Region: asp_race; TIGR00035 354242000284 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 354242000285 ligand binding site [chemical binding]; other site 354242000286 active site 354242000287 UGI interface [polypeptide binding]; other site 354242000288 catalytic site [active] 354242000289 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 354242000290 Aspartase; Region: Aspartase; cd01357 354242000291 active sites [active] 354242000292 tetramer interface [polypeptide binding]; other site 354242000293 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 354242000294 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 354242000295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 354242000296 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 354242000297 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 354242000298 putative dimer interface [polypeptide binding]; other site 354242000299 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 354242000300 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 354242000301 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 354242000302 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 354242000303 GTPase CgtA; Reviewed; Region: obgE; PRK12299 354242000304 GTP1/OBG; Region: GTP1_OBG; pfam01018 354242000305 Obg GTPase; Region: Obg; cd01898 354242000306 G1 box; other site 354242000307 GTP/Mg2+ binding site [chemical binding]; other site 354242000308 Switch I region; other site 354242000309 G2 box; other site 354242000310 G3 box; other site 354242000311 Switch II region; other site 354242000312 G4 box; other site 354242000313 G5 box; other site 354242000314 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 354242000315 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 354242000316 nucleotide binding site [chemical binding]; other site 354242000317 homotetrameric interface [polypeptide binding]; other site 354242000318 putative phosphate binding site [ion binding]; other site 354242000319 putative allosteric binding site; other site 354242000320 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 354242000321 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 354242000322 putative active site [active] 354242000323 substrate binding site [chemical binding]; other site 354242000324 putative cosubstrate binding site; other site 354242000325 catalytic site [active] 354242000326 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 354242000327 substrate binding site [chemical binding]; other site 354242000328 biotin--protein ligase; Provisional; Region: PRK08477 354242000329 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 354242000330 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 354242000331 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 354242000332 P-loop; other site 354242000333 Magnesium ion binding site [ion binding]; other site 354242000334 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 354242000335 Magnesium ion binding site [ion binding]; other site 354242000336 ParB-like nuclease domain; Region: ParB; smart00470 354242000337 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 354242000338 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 354242000339 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 354242000340 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 354242000341 F0F1 ATP synthase subunit delta; Validated; Region: PRK08474 354242000342 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 354242000343 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 354242000344 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 354242000345 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 354242000346 beta subunit interaction interface [polypeptide binding]; other site 354242000347 Walker A motif; other site 354242000348 ATP binding site [chemical binding]; other site 354242000349 Walker B motif; other site 354242000350 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 354242000351 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 354242000352 core domain interface [polypeptide binding]; other site 354242000353 delta subunit interface [polypeptide binding]; other site 354242000354 epsilon subunit interface [polypeptide binding]; other site 354242000355 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 354242000356 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 354242000357 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 354242000358 alpha subunit interaction interface [polypeptide binding]; other site 354242000359 Walker A motif; other site 354242000360 ATP binding site [chemical binding]; other site 354242000361 Walker B motif; other site 354242000362 inhibitor binding site; inhibition site 354242000363 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 354242000364 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 354242000365 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 354242000366 gamma subunit interface [polypeptide binding]; other site 354242000367 epsilon subunit interface [polypeptide binding]; other site 354242000368 LBP interface [polypeptide binding]; other site 354242000369 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 354242000370 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 354242000371 TolR protein; Region: tolR; TIGR02801 354242000372 TonB C terminal; Region: TonB_2; pfam13103 354242000373 translocation protein TolB; Provisional; Region: tolB; PRK04043 354242000374 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 354242000375 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 354242000376 ligand binding site [chemical binding]; other site 354242000377 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 354242000378 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 354242000379 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 354242000380 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 354242000381 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 354242000382 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 354242000383 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 354242000384 Ligand Binding Site [chemical binding]; other site 354242000385 Isochorismatase family; Region: Isochorismatase; pfam00857 354242000386 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 354242000387 catalytic triad [active] 354242000388 conserved cis-peptide bond; other site 354242000389 putative recombination protein RecO; Provisional; Region: PRK13908 354242000390 metal-binding heat shock protein; Provisional; Region: PRK00016 354242000391 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 354242000392 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 354242000393 FMN binding site [chemical binding]; other site 354242000394 active site 354242000395 catalytic residues [active] 354242000396 substrate binding site [chemical binding]; other site 354242000397 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 354242000398 Uncharacterized conserved protein [Function unknown]; Region: COG1576 354242000399 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 354242000400 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 354242000401 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 354242000402 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 354242000403 putative active site [active] 354242000404 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 354242000405 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 354242000406 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 354242000407 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 354242000408 Surface antigen; Region: Bac_surface_Ag; pfam01103 354242000409 prephenate dehydrogenase; Validated; Region: PRK08507 354242000410 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 354242000411 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 354242000412 Peptidase family M23; Region: Peptidase_M23; pfam01551 354242000413 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 354242000414 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 354242000415 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 354242000416 Homoserine kinase [Amino acid transport and metabolism]; Region: ThrB; COG0083 354242000417 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 354242000418 Predicted nucleic-acid-binding protein implicated in transcription termination [Transcription]; Region: COG2740 354242000419 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 354242000420 translation initiation factor IF-2; Region: IF-2; TIGR00487 354242000421 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 354242000422 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 354242000423 G1 box; other site 354242000424 putative GEF interaction site [polypeptide binding]; other site 354242000425 GTP/Mg2+ binding site [chemical binding]; other site 354242000426 Switch I region; other site 354242000427 G2 box; other site 354242000428 G3 box; other site 354242000429 Switch II region; other site 354242000430 G4 box; other site 354242000431 G5 box; other site 354242000432 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 354242000433 Translation-initiation factor 2; Region: IF-2; pfam11987 354242000434 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 354242000435 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 354242000436 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 354242000437 Sm and related proteins; Region: Sm_like; cl00259 354242000438 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 354242000439 putative oligomer interface [polypeptide binding]; other site 354242000440 putative RNA binding site [nucleotide binding]; other site 354242000441 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 354242000442 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 354242000443 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 354242000444 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 354242000445 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 354242000446 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 354242000447 dimer interface [polypeptide binding]; other site 354242000448 putative PBP binding regions; other site 354242000449 ABC-ATPase subunit interface; other site 354242000450 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 354242000451 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 354242000452 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 354242000453 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 354242000454 putative metal binding residues [ion binding]; other site 354242000455 Cache domain; Region: Cache_1; pfam02743 354242000456 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 354242000457 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 354242000458 dimer interface [polypeptide binding]; other site 354242000459 putative CheW interface [polypeptide binding]; other site 354242000460 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 354242000461 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 354242000462 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 354242000463 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 354242000464 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 354242000465 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 354242000466 catalytic residues [active] 354242000467 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 354242000468 homoserine dehydrogenase; Provisional; Region: PRK06349 354242000469 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 354242000470 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 354242000471 aspartate aminotransferase; Provisional; Region: PRK08636 354242000472 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 354242000473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242000474 homodimer interface [polypeptide binding]; other site 354242000475 catalytic residue [active] 354242000476 Helix-turn-helix domain; Region: HTH_25; pfam13413 354242000477 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 354242000478 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 354242000479 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 354242000480 Predicted methyltransferases [General function prediction only]; Region: COG0313 354242000481 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 354242000482 putative SAM binding site [chemical binding]; other site 354242000483 putative homodimer interface [polypeptide binding]; other site 354242000484 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 354242000485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 354242000486 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 354242000487 queuosine biosynthesis protein QueD; Region: queuosine_QueD; TIGR03367 354242000488 active site 354242000489 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 354242000490 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 354242000491 FeS/SAM binding site; other site 354242000492 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 354242000493 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 354242000494 FeS/SAM binding site; other site 354242000495 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 354242000496 prenyltransferase; Reviewed; Region: ubiA; PRK12874 354242000497 UbiA prenyltransferase family; Region: UbiA; pfam01040 354242000498 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 354242000499 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 354242000500 Predicted membrane protein [Function unknown]; Region: COG1971 354242000501 Domain of unknown function DUF; Region: DUF204; pfam02659 354242000502 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 354242000503 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 354242000504 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 354242000505 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 354242000506 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 354242000507 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 354242000508 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 354242000509 NAD(P) binding pocket [chemical binding]; other site 354242000510 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 354242000511 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 354242000512 Walker A/P-loop; other site 354242000513 ATP binding site [chemical binding]; other site 354242000514 Q-loop/lid; other site 354242000515 ABC transporter signature motif; other site 354242000516 Walker B; other site 354242000517 D-loop; other site 354242000518 H-loop/switch region; other site 354242000519 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 354242000520 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 354242000521 dimer interface [polypeptide binding]; other site 354242000522 conserved gate region; other site 354242000523 putative PBP binding loops; other site 354242000524 ABC-ATPase subunit interface; other site 354242000525 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 354242000526 dimer interface [polypeptide binding]; other site 354242000527 conserved gate region; other site 354242000528 putative PBP binding loops; other site 354242000529 ABC-ATPase subunit interface; other site 354242000530 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 354242000531 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 354242000532 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 354242000533 Domain of unknown function DUF21; Region: DUF21; pfam01595 354242000534 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 354242000535 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 354242000536 Transporter associated domain; Region: CorC_HlyC; smart01091 354242000537 Predicted kinase [General function prediction only]; Region: COG4639 354242000538 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 354242000539 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 354242000540 active site 354242000541 metal binding site [ion binding]; metal-binding site 354242000542 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 354242000543 PhnA protein; Region: PhnA; pfam03831 354242000544 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 354242000545 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 354242000546 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 354242000547 active site 354242000548 substrate binding site [chemical binding]; other site 354242000549 cosubstrate binding site; other site 354242000550 catalytic site [active] 354242000551 Uncharacterized conserved protein [Function unknown]; Region: COG0062 354242000552 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 354242000553 putative substrate binding site [chemical binding]; other site 354242000554 putative ATP binding site [chemical binding]; other site 354242000555 Uncharacterized conserved protein [Function unknown]; Region: COG1432 354242000556 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 354242000557 putative metal binding site [ion binding]; other site 354242000558 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 354242000559 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 354242000560 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 354242000561 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 354242000562 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 354242000563 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 354242000564 active site 354242000565 catalytic residues [active] 354242000566 metal binding site [ion binding]; metal-binding site 354242000567 Clp protease; Region: CLP_protease; pfam00574 354242000568 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 354242000569 oligomer interface [polypeptide binding]; other site 354242000570 active site residues [active] 354242000571 trigger factor; Provisional; Region: tig; PRK01490 354242000572 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 354242000573 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 354242000574 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 354242000575 homodecamer interface [polypeptide binding]; other site 354242000576 GTP cyclohydrolase I; Provisional; Region: PLN03044 354242000577 active site 354242000578 putative catalytic site residues [active] 354242000579 zinc binding site [ion binding]; other site 354242000580 GTP-CH-I/GFRP interaction surface; other site 354242000581 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 354242000582 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 354242000583 Walker A motif/ATP binding site; other site 354242000584 Walker B motif; other site 354242000585 amidophosphoribosyltransferase; Provisional; Region: PRK08525 354242000586 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 354242000587 active site 354242000588 tetramer interface [polypeptide binding]; other site 354242000589 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 354242000590 active site 354242000591 dihydrodipicolinate reductase; Provisional; Region: PRK00048 354242000592 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 354242000593 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 354242000594 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 354242000595 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 354242000596 Walker A motif; other site 354242000597 ATP binding site [chemical binding]; other site 354242000598 Walker B motif; other site 354242000599 arginine finger; other site 354242000600 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 354242000601 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 354242000602 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 354242000603 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 354242000604 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 354242000605 Citrate transporter; Region: CitMHS; pfam03600 354242000606 Predicted membrane protein [Function unknown]; Region: COG1297 354242000607 putative oligopeptide transporter, OPT family; Region: TIGR00733 354242000608 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 354242000609 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 354242000610 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 354242000611 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 354242000612 active site 354242000613 dimer interface [polypeptide binding]; other site 354242000614 motif 1; other site 354242000615 motif 2; other site 354242000616 motif 3; other site 354242000617 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 354242000618 anticodon binding site; other site 354242000619 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 354242000620 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 354242000621 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 354242000622 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 354242000623 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 354242000624 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 354242000625 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 354242000626 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 354242000627 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 354242000628 putative acetyltransferase; Provisional; Region: PRK03624 354242000629 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 354242000630 Coenzyme A binding pocket [chemical binding]; other site 354242000631 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 354242000632 feedback inhibition sensing region; other site 354242000633 homohexameric interface [polypeptide binding]; other site 354242000634 nucleotide binding site [chemical binding]; other site 354242000635 N-acetyl-L-glutamate binding site [chemical binding]; other site 354242000636 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 354242000637 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 354242000638 inhibitor-cofactor binding pocket; inhibition site 354242000639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242000640 catalytic residue [active] 354242000641 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 354242000642 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 354242000643 S-adenosylmethionine binding site [chemical binding]; other site 354242000644 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 354242000645 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 354242000646 trimer interface [polypeptide binding]; other site 354242000647 putative metal binding site [ion binding]; other site 354242000648 putative nicotinate phosphoribosyltransferase; Region: NAPRTase_put; TIGR01513 354242000649 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 354242000650 active site 354242000651 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 354242000652 dimer interface [polypeptide binding]; other site 354242000653 putative radical transfer pathway; other site 354242000654 diiron center [ion binding]; other site 354242000655 tyrosyl radical; other site 354242000656 RDD family; Region: RDD; pfam06271 354242000657 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 354242000658 active site 354242000659 ribosome recycling factor; Reviewed; Region: frr; PRK00083 354242000660 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 354242000661 hinge region; other site 354242000662 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 354242000663 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 354242000664 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 354242000665 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 354242000666 active site clefts [active] 354242000667 zinc binding site [ion binding]; other site 354242000668 dimer interface [polypeptide binding]; other site 354242000669 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 354242000670 Mechanosensitive ion channel; Region: MS_channel; pfam00924 354242000671 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 354242000672 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 354242000673 trimerization site [polypeptide binding]; other site 354242000674 active site 354242000675 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 354242000676 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 354242000677 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 354242000678 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 354242000679 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 354242000680 catalytic residue [active] 354242000681 Hemerythrin; Region: Hemerythrin; cd12107 354242000682 Fe binding site [ion binding]; other site 354242000683 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 354242000684 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 354242000685 23S rRNA binding site [nucleotide binding]; other site 354242000686 L21 binding site [polypeptide binding]; other site 354242000687 L13 binding site [polypeptide binding]; other site 354242000688 FIST C domain; Region: FIST_C; pfam10442 354242000689 FIST N domain; Region: FIST; cl10701 354242000690 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 354242000691 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 354242000692 metabolite-proton symporter; Region: 2A0106; TIGR00883 354242000693 putative substrate translocation pore; other site 354242000694 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 354242000695 trimer interface [polypeptide binding]; other site 354242000696 dimer interface [polypeptide binding]; other site 354242000697 putative active site [active] 354242000698 Protein of unknown function (DUF493); Region: DUF493; pfam04359 354242000699 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 354242000700 putative catalytic site [active] 354242000701 putative metal binding site [ion binding]; other site 354242000702 putative phosphate binding site [ion binding]; other site 354242000703 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 354242000704 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 354242000705 Sulfatase; Region: Sulfatase; pfam00884 354242000706 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 354242000707 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 354242000708 active site 354242000709 substrate binding pocket [chemical binding]; other site 354242000710 dimer interface [polypeptide binding]; other site 354242000711 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 354242000712 S-adenosylmethionine binding site [chemical binding]; other site 354242000713 Cache domain; Region: Cache_1; pfam02743 354242000714 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 354242000715 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 354242000716 dimer interface [polypeptide binding]; other site 354242000717 putative CheW interface [polypeptide binding]; other site 354242000718 zinc transporter ZupT; Provisional; Region: PRK04201 354242000719 ZIP Zinc transporter; Region: Zip; pfam02535 354242000720 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 354242000721 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 354242000722 molybdopterin cofactor binding site [chemical binding]; other site 354242000723 substrate binding site [chemical binding]; other site 354242000724 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 354242000725 molybdopterin cofactor binding site; other site 354242000726 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 354242000727 Cytochrome c; Region: Cytochrom_C; cl11414 354242000728 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 354242000729 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 354242000730 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 354242000731 SPFH domain / Band 7 family; Region: Band_7; pfam01145 354242000732 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 354242000733 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 354242000734 homodimer interface [polypeptide binding]; other site 354242000735 substrate-cofactor binding pocket; other site 354242000736 catalytic residue [active] 354242000737 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 354242000738 active site 1 [active] 354242000739 dimer interface [polypeptide binding]; other site 354242000740 hexamer interface [polypeptide binding]; other site 354242000741 active site 2 [active] 354242000742 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 354242000743 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 354242000744 catalytic triad [active] 354242000745 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 354242000746 Ligand Binding Site [chemical binding]; other site 354242000747 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 354242000748 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 354242000749 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 354242000750 active site 354242000751 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 354242000752 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 354242000753 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 354242000754 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 354242000755 Walker A motif; other site 354242000756 ATP binding site [chemical binding]; other site 354242000757 Walker B motif; other site 354242000758 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 354242000759 rod shape-determining protein MreB; Provisional; Region: PRK13927 354242000760 MreB and similar proteins; Region: MreB_like; cd10225 354242000761 nucleotide binding site [chemical binding]; other site 354242000762 Mg binding site [ion binding]; other site 354242000763 putative protofilament interaction site [polypeptide binding]; other site 354242000764 RodZ interaction site [polypeptide binding]; other site 354242000765 rod shape-determining protein MreC; Provisional; Region: PRK13922 354242000766 rod shape-determining protein MreC; Region: MreC; pfam04085 354242000767 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 354242000768 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 354242000769 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 354242000770 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 354242000771 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 354242000772 ATP-grasp domain; Region: ATP-grasp_4; cl17255 354242000773 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 354242000774 IMP binding site; other site 354242000775 dimer interface [polypeptide binding]; other site 354242000776 interdomain contacts; other site 354242000777 partial ornithine binding site; other site 354242000778 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 354242000779 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 354242000780 putative active site [active] 354242000781 transaldolase; Provisional; Region: PRK03903 354242000782 catalytic residue [active] 354242000783 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 354242000784 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 354242000785 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 354242000786 motif II; other site 354242000787 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 354242000788 putative CheA interaction surface; other site 354242000789 chemotaxis protein CheA; Provisional; Region: PRK10547 354242000790 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 354242000791 putative binding surface; other site 354242000792 active site 354242000793 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 354242000794 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 354242000795 ATP binding site [chemical binding]; other site 354242000796 Mg2+ binding site [ion binding]; other site 354242000797 G-X-G motif; other site 354242000798 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 354242000799 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 354242000800 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 354242000801 active site 354242000802 phosphorylation site [posttranslational modification] 354242000803 intermolecular recognition site; other site 354242000804 dimerization interface [polypeptide binding]; other site 354242000805 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 354242000806 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 354242000807 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 354242000808 active site 354242000809 phosphorylation site [posttranslational modification] 354242000810 intermolecular recognition site; other site 354242000811 dimerization interface [polypeptide binding]; other site 354242000812 active site 354242000813 metal binding site [ion binding]; metal-binding site 354242000814 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 354242000815 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 354242000816 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 354242000817 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 354242000818 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 354242000819 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 354242000820 Accessory colonization factor AcfC, contains ABC-type periplasmic domain [General function prediction only]; Region: AcfC; COG4588 354242000821 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 354242000822 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 354242000823 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 354242000824 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 354242000825 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 354242000826 ATP binding site [chemical binding]; other site 354242000827 substrate interface [chemical binding]; other site 354242000828 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 354242000829 tetramerization interface [polypeptide binding]; other site 354242000830 active site 354242000831 pantoate--beta-alanine ligase; Region: panC; TIGR00018 354242000832 Pantoate-beta-alanine ligase; Region: PanC; cd00560 354242000833 active site 354242000834 ATP-binding site [chemical binding]; other site 354242000835 pantoate-binding site; other site 354242000836 HXXH motif; other site 354242000837 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 354242000838 active site 354242000839 oligomerization interface [polypeptide binding]; other site 354242000840 metal binding site [ion binding]; metal-binding site 354242000841 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 354242000842 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 354242000843 Walker A/P-loop; other site 354242000844 ATP binding site [chemical binding]; other site 354242000845 Q-loop/lid; other site 354242000846 ABC transporter signature motif; other site 354242000847 Walker B; other site 354242000848 D-loop; other site 354242000849 H-loop/switch region; other site 354242000850 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 354242000851 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 354242000852 dimer interface [polypeptide binding]; other site 354242000853 conserved gate region; other site 354242000854 putative PBP binding loops; other site 354242000855 ABC-ATPase subunit interface; other site 354242000856 TOBE domain; Region: TOBE; cl01440 354242000857 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 354242000858 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 354242000859 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 354242000860 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 354242000861 S-adenosylmethionine binding site [chemical binding]; other site 354242000862 Protein of unknown function (DUF452); Region: DUF452; cl01062 354242000863 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 354242000864 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 354242000865 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 354242000866 catalytic residue [active] 354242000867 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 354242000868 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 354242000869 inhibitor-cofactor binding pocket; inhibition site 354242000870 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242000871 catalytic residue [active] 354242000872 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 354242000873 AAA domain; Region: AAA_26; pfam13500 354242000874 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 354242000875 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 354242000876 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 354242000877 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 354242000878 5S rRNA interface [nucleotide binding]; other site 354242000879 CTC domain interface [polypeptide binding]; other site 354242000880 L16 interface [polypeptide binding]; other site 354242000881 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 354242000882 putative active site [active] 354242000883 catalytic residue [active] 354242000884 Predicted permeases [General function prediction only]; Region: COG0795 354242000885 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 354242000886 diaminopimelate decarboxylase; Region: lysA; TIGR01048 354242000887 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 354242000888 active site 354242000889 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 354242000890 substrate binding site [chemical binding]; other site 354242000891 catalytic residues [active] 354242000892 dimer interface [polypeptide binding]; other site 354242000893 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 354242000894 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 354242000895 active site 354242000896 motif I; other site 354242000897 motif II; other site 354242000898 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 354242000899 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 354242000900 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 354242000901 Prephenate dehydratase; Region: PDT; pfam00800 354242000902 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 354242000903 putative L-Phe binding site [chemical binding]; other site 354242000904 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 354242000905 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 354242000906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242000907 homodimer interface [polypeptide binding]; other site 354242000908 catalytic residue [active] 354242000909 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 354242000910 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 354242000911 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 354242000912 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 354242000913 FliG C-terminal domain; Region: FliG_C; pfam01706 354242000914 flagellar assembly protein H; Validated; Region: fliH; PRK06669 354242000915 Flagellar assembly protein FliH; Region: FliH; pfam02108 354242000916 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 354242000917 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 354242000918 TPP-binding site; other site 354242000919 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 354242000920 PYR/PP interface [polypeptide binding]; other site 354242000921 dimer interface [polypeptide binding]; other site 354242000922 TPP binding site [chemical binding]; other site 354242000923 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 354242000924 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 354242000925 metal binding site 2 [ion binding]; metal-binding site 354242000926 putative DNA binding helix; other site 354242000927 metal binding site 1 [ion binding]; metal-binding site 354242000928 structural Zn2+ binding site [ion binding]; other site 354242000929 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 354242000930 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 354242000931 S-adenosylmethionine binding site [chemical binding]; other site 354242000932 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 354242000933 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 354242000934 generic binding surface II; other site 354242000935 generic binding surface I; other site 354242000936 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 354242000937 homodimer interface [polypeptide binding]; other site 354242000938 substrate-cofactor binding pocket; other site 354242000939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242000940 catalytic residue [active] 354242000941 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 354242000942 homotrimer interaction site [polypeptide binding]; other site 354242000943 putative active site [active] 354242000944 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 354242000945 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 354242000946 dimer interface [polypeptide binding]; other site 354242000947 active site 354242000948 CoA binding pocket [chemical binding]; other site 354242000949 putative phosphate acyltransferase; Provisional; Region: PRK05331 354242000950 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 354242000951 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 354242000952 active site 354242000953 multimer interface [polypeptide binding]; other site 354242000954 Ferredoxin [Energy production and conversion]; Region: COG1146 354242000955 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 354242000956 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 354242000957 dimer interface [polypeptide binding]; other site 354242000958 decamer (pentamer of dimers) interface [polypeptide binding]; other site 354242000959 catalytic triad [active] 354242000960 peroxidatic and resolving cysteines [active] 354242000961 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 354242000962 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 354242000963 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 354242000964 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 354242000965 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 354242000966 ligand binding site [chemical binding]; other site 354242000967 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 354242000968 flagellar motor protein MotA; Validated; Region: PRK08456 354242000969 DNA polymerase I; Provisional; Region: PRK05755 354242000970 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 354242000971 active site 354242000972 metal binding site 1 [ion binding]; metal-binding site 354242000973 putative 5' ssDNA interaction site; other site 354242000974 metal binding site 3; metal-binding site 354242000975 metal binding site 2 [ion binding]; metal-binding site 354242000976 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 354242000977 putative DNA binding site [nucleotide binding]; other site 354242000978 putative metal binding site [ion binding]; other site 354242000979 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 354242000980 active site 354242000981 catalytic site [active] 354242000982 substrate binding site [chemical binding]; other site 354242000983 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 354242000984 active site 354242000985 DNA binding site [nucleotide binding] 354242000986 catalytic site [active] 354242000987 metabolite-proton symporter; Region: 2A0106; TIGR00883 354242000988 shikimate transporter; Provisional; Region: PRK09952 354242000989 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 354242000990 putative substrate translocation pore; other site 354242000991 nuc_hydro_CjNH. Nucleoside hydrolases similar to Campylobacter jejuni nucleoside hydrolase. This group contains eukaryotic and bacterial proteins similar to C. jejuni nucleoside hydrolase. Nucleoside hydrolases cleave the N-glycosidic bond in...; Region: nuc_hydro_CjNH; cd02654 354242000992 active site 354242000993 Predicted membrane protein [Function unknown]; Region: COG1238 354242000994 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 354242000995 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 354242000996 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 354242000997 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 354242000998 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 354242000999 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 354242001000 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 354242001001 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 354242001002 Glutamine amidotransferase class-I; Region: GATase; pfam00117 354242001003 glutamine binding [chemical binding]; other site 354242001004 catalytic triad [active] 354242001005 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 354242001006 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 354242001007 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 354242001008 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 354242001009 active site 354242001010 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 354242001011 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 354242001012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242001013 catalytic residue [active] 354242001014 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 354242001015 substrate binding site [chemical binding]; other site 354242001016 active site 354242001017 catalytic residues [active] 354242001018 heterodimer interface [polypeptide binding]; other site 354242001019 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 354242001020 flagellar motor switch protein; Validated; Region: PRK08433 354242001021 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 354242001022 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 354242001023 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 354242001024 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 354242001025 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 354242001026 active site 354242001027 phosphorylation site [posttranslational modification] 354242001028 intermolecular recognition site; other site 354242001029 dimerization interface [polypeptide binding]; other site 354242001030 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 354242001031 DNA binding site [nucleotide binding] 354242001032 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 354242001033 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 354242001034 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 354242001035 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 354242001036 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 354242001037 active site 354242001038 substrate binding site [chemical binding]; other site 354242001039 metal binding site [ion binding]; metal-binding site 354242001040 Lipoprotein signal peptidase [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: LspA; COG0597 354242001041 lipoprotein signal peptidase; Provisional; Region: PRK14787 354242001042 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 354242001043 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 354242001044 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 354242001045 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 354242001046 Protein export membrane protein; Region: SecD_SecF; cl14618 354242001047 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 354242001048 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 354242001049 E3 interaction surface; other site 354242001050 lipoyl attachment site [posttranslational modification]; other site 354242001051 HlyD family secretion protein; Region: HlyD_3; pfam13437 354242001052 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 354242001053 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 354242001054 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 354242001055 4Fe-4S binding domain; Region: Fer4_5; pfam12801 354242001056 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 354242001057 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 354242001058 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 354242001059 hypothetical protein; Provisional; Region: PRK04081 354242001060 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 354242001061 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 354242001062 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 354242001063 putative ligand binding site [chemical binding]; other site 354242001064 putative NAD binding site [chemical binding]; other site 354242001065 catalytic site [active] 354242001066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 354242001067 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 354242001068 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 354242001069 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 354242001070 Walker A motif; other site 354242001071 ATP binding site [chemical binding]; other site 354242001072 Walker B motif; other site 354242001073 arginine finger; other site 354242001074 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 354242001075 TMAO/DMSO reductase; Reviewed; Region: PRK05363 354242001076 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 354242001077 Moco binding site; other site 354242001078 metal coordination site [ion binding]; other site 354242001079 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 354242001080 active site 354242001081 dimer interface [polypeptide binding]; other site 354242001082 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 354242001083 putative RNA binding site [nucleotide binding]; other site 354242001084 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 354242001085 homopentamer interface [polypeptide binding]; other site 354242001086 active site 354242001087 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 354242001088 EamA-like transporter family; Region: EamA; pfam00892 354242001089 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 354242001090 GTP-binding protein Der; Reviewed; Region: PRK00093 354242001091 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 354242001092 G1 box; other site 354242001093 GTP/Mg2+ binding site [chemical binding]; other site 354242001094 Switch I region; other site 354242001095 G2 box; other site 354242001096 Switch II region; other site 354242001097 G3 box; other site 354242001098 G4 box; other site 354242001099 G5 box; other site 354242001100 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 354242001101 GTP/Mg2+ binding site [chemical binding]; other site 354242001102 Switch I region; other site 354242001103 G2 box; other site 354242001104 G3 box; other site 354242001105 Switch II region; other site 354242001106 G4 box; other site 354242001107 G5 box; other site 354242001108 shikimate kinase; Reviewed; Region: aroK; PRK00131 354242001109 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 354242001110 ADP binding site [chemical binding]; other site 354242001111 magnesium binding site [ion binding]; other site 354242001112 putative shikimate binding site; other site 354242001113 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 354242001114 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 354242001115 active site 354242001116 HIGH motif; other site 354242001117 dimer interface [polypeptide binding]; other site 354242001118 KMSKS motif; other site 354242001119 seryl-tRNA synthetase; Provisional; Region: PRK05431 354242001120 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 354242001121 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 354242001122 dimer interface [polypeptide binding]; other site 354242001123 active site 354242001124 motif 1; other site 354242001125 motif 2; other site 354242001126 motif 3; other site 354242001127 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 354242001128 binding surface 354242001129 TPR motif; other site 354242001130 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 354242001131 TPR motif; other site 354242001132 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 354242001133 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 354242001134 domain interfaces; other site 354242001135 active site 354242001136 Predicted dehydrogenase [General function prediction only]; Region: COG0579 354242001137 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 354242001138 pantothenate kinase; Reviewed; Region: PRK13333 354242001139 PQQ-like domain; Region: PQQ_2; pfam13360 354242001140 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 354242001141 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 354242001142 Colicin V production protein; Region: Colicin_V; pfam02674 354242001143 ferric uptake regulator; Provisional; Region: fur; PRK09462 354242001144 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 354242001145 metal binding site 2 [ion binding]; metal-binding site 354242001146 putative DNA binding helix; other site 354242001147 metal binding site 1 [ion binding]; metal-binding site 354242001148 dimer interface [polypeptide binding]; other site 354242001149 structural Zn2+ binding site [ion binding]; other site 354242001150 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 354242001151 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 354242001152 dimer interface [polypeptide binding]; other site 354242001153 putative anticodon binding site; other site 354242001154 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 354242001155 motif 1; other site 354242001156 active site 354242001157 motif 2; other site 354242001158 motif 3; other site 354242001159 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 354242001160 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 354242001161 dimer interface [polypeptide binding]; other site 354242001162 active site 354242001163 glycine-pyridoxal phosphate binding site [chemical binding]; other site 354242001164 folate binding site [chemical binding]; other site 354242001165 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 354242001166 Sporulation related domain; Region: SPOR; pfam05036 354242001167 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 354242001168 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 354242001169 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 354242001170 shikimate binding site; other site 354242001171 NAD(P) binding site [chemical binding]; other site 354242001172 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 354242001173 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 354242001174 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 354242001175 Iron-sulfur protein interface; other site 354242001176 proximal heme binding site [chemical binding]; other site 354242001177 distal heme binding site [chemical binding]; other site 354242001178 dimer interface [polypeptide binding]; other site 354242001179 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 354242001180 L-aspartate oxidase; Provisional; Region: PRK06175 354242001181 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 354242001182 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 354242001183 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 354242001184 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 354242001185 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 354242001186 Dynamin family; Region: Dynamin_N; pfam00350 354242001187 G1 box; other site 354242001188 GTP/Mg2+ binding site [chemical binding]; other site 354242001189 G2 box; other site 354242001190 Switch I region; other site 354242001191 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 354242001192 G3 box; other site 354242001193 Switch II region; other site 354242001194 GTP/Mg2+ binding site [chemical binding]; other site 354242001195 G4 box; other site 354242001196 G5 box; other site 354242001197 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 354242001198 Dynamin family; Region: Dynamin_N; pfam00350 354242001199 G1 box; other site 354242001200 GTP/Mg2+ binding site [chemical binding]; other site 354242001201 G2 box; other site 354242001202 Switch I region; other site 354242001203 G3 box; other site 354242001204 Switch II region; other site 354242001205 G4 box; other site 354242001206 G5 box; other site 354242001207 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 354242001208 Sel1-like repeats; Region: SEL1; smart00671 354242001209 Sel1-like repeats; Region: SEL1; smart00671 354242001210 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 354242001211 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 354242001212 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 354242001213 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 354242001214 SprA-related family; Region: SprA-related; pfam12118 354242001215 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 354242001216 HIT family signature motif; other site 354242001217 catalytic residue [active] 354242001218 Uncharacterized conserved protein [Function unknown]; Region: COG2353 354242001219 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 354242001220 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 354242001221 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 354242001222 ABC transporter; Region: ABC_tran_2; pfam12848 354242001223 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 354242001224 S-layer like family, C-terminal region; Region: S_layer_C; pfam05124 354242001225 Uncharacterized conserved protein [Function unknown]; Region: COG1739 354242001226 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 354242001227 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 354242001228 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 354242001229 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 354242001230 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 354242001231 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 354242001232 Mg++ binding site [ion binding]; other site 354242001233 putative catalytic motif [active] 354242001234 putative substrate binding site [chemical binding]; other site 354242001235 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 354242001236 phosphoglyceromutase; Provisional; Region: PRK05434 354242001237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 354242001238 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 354242001239 NAD(P) binding site [chemical binding]; other site 354242001240 active site 354242001241 Uncharacterized conserved protein [Function unknown]; Region: COG5015 354242001242 L-aspartate oxidase; Provisional; Region: PRK06175 354242001243 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 354242001244 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 354242001245 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 354242001246 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 354242001247 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 354242001248 Cysteine-rich domain; Region: CCG; pfam02754 354242001249 Cysteine-rich domain; Region: CCG; pfam02754 354242001250 Putative transcription activator [Transcription]; Region: TenA; COG0819 354242001251 acyl carrier protein; Provisional; Region: acpP; PRK00982 354242001252 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 354242001253 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 354242001254 dimer interface [polypeptide binding]; other site 354242001255 active site 354242001256 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 354242001257 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 354242001258 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 354242001259 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 354242001260 N-terminal plug; other site 354242001261 ligand-binding site [chemical binding]; other site 354242001262 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 354242001263 dimer interface [polypeptide binding]; other site 354242001264 ADP-ribose binding site [chemical binding]; other site 354242001265 active site 354242001266 nudix motif; other site 354242001267 metal binding site [ion binding]; metal-binding site 354242001268 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 354242001269 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 354242001270 dimer interface [polypeptide binding]; other site 354242001271 putative CheW interface [polypeptide binding]; other site 354242001272 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 354242001273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 354242001274 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 354242001275 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 354242001276 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 354242001277 substrate binding site [chemical binding]; other site 354242001278 hexamer interface [polypeptide binding]; other site 354242001279 metal binding site [ion binding]; metal-binding site 354242001280 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 354242001281 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 354242001282 active site 354242001283 catalytic site [active] 354242001284 substrate binding site [chemical binding]; other site 354242001285 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 354242001286 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 354242001287 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 354242001288 putative acyl-acceptor binding pocket; other site 354242001289 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 354242001290 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 354242001291 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 354242001292 FeS/SAM binding site; other site 354242001293 TRAM domain; Region: TRAM; pfam01938 354242001294 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 354242001295 NusA N-terminal domain; Region: NusA_N; pfam08529 354242001296 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 354242001297 RNA binding site [nucleotide binding]; other site 354242001298 homodimer interface [polypeptide binding]; other site 354242001299 NusA-like KH domain; Region: KH_5; pfam13184 354242001300 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 354242001301 G-X-X-G motif; other site 354242001302 H+ Antiporter protein; Region: 2A0121; TIGR00900 354242001303 hypothetical protein; Provisional; Region: PRK08445 354242001304 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 354242001305 FeS/SAM binding site; other site 354242001306 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 354242001307 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 354242001308 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 354242001309 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 354242001310 generic binding surface II; other site 354242001311 ssDNA binding site; other site 354242001312 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 354242001313 ATP binding site [chemical binding]; other site 354242001314 putative Mg++ binding site [ion binding]; other site 354242001315 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 354242001316 nucleotide binding region [chemical binding]; other site 354242001317 ATP-binding site [chemical binding]; other site 354242001318 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 354242001319 apolar tunnel; other site 354242001320 heme binding site [chemical binding]; other site 354242001321 dimerization interface [polypeptide binding]; other site 354242001322 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 354242001323 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 354242001324 ligand binding site [chemical binding]; other site 354242001325 flexible hinge region; other site 354242001326 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 354242001327 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 354242001328 dimer interface [polypeptide binding]; other site 354242001329 conserved gate region; other site 354242001330 putative PBP binding loops; other site 354242001331 ABC-ATPase subunit interface; other site 354242001332 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 354242001333 dimer interface [polypeptide binding]; other site 354242001334 conserved gate region; other site 354242001335 putative PBP binding loops; other site 354242001336 ABC-ATPase subunit interface; other site 354242001337 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 354242001338 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 354242001339 Walker A/P-loop; other site 354242001340 ATP binding site [chemical binding]; other site 354242001341 Q-loop/lid; other site 354242001342 ABC transporter signature motif; other site 354242001343 Walker B; other site 354242001344 D-loop; other site 354242001345 H-loop/switch region; other site 354242001346 elongation factor Tu; Reviewed; Region: PRK00049 354242001347 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 354242001348 G1 box; other site 354242001349 GEF interaction site [polypeptide binding]; other site 354242001350 GTP/Mg2+ binding site [chemical binding]; other site 354242001351 Switch I region; other site 354242001352 G2 box; other site 354242001353 G3 box; other site 354242001354 Switch II region; other site 354242001355 G4 box; other site 354242001356 G5 box; other site 354242001357 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 354242001358 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 354242001359 Antibiotic Binding Site [chemical binding]; other site 354242001360 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 354242001361 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 354242001362 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 354242001363 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 354242001364 putative homodimer interface [polypeptide binding]; other site 354242001365 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 354242001366 heterodimer interface [polypeptide binding]; other site 354242001367 homodimer interface [polypeptide binding]; other site 354242001368 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 354242001369 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 354242001370 23S rRNA interface [nucleotide binding]; other site 354242001371 L7/L12 interface [polypeptide binding]; other site 354242001372 putative thiostrepton binding site; other site 354242001373 L25 interface [polypeptide binding]; other site 354242001374 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 354242001375 mRNA/rRNA interface [nucleotide binding]; other site 354242001376 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 354242001377 23S rRNA interface [nucleotide binding]; other site 354242001378 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 354242001379 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 354242001380 L11 interface [polypeptide binding]; other site 354242001381 putative EF-Tu interaction site [polypeptide binding]; other site 354242001382 putative EF-G interaction site [polypeptide binding]; other site 354242001383 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 354242001384 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 354242001385 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 354242001386 RPB11 interaction site [polypeptide binding]; other site 354242001387 RPB12 interaction site [polypeptide binding]; other site 354242001388 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 354242001389 RPB3 interaction site [polypeptide binding]; other site 354242001390 RPB1 interaction site [polypeptide binding]; other site 354242001391 RPB11 interaction site [polypeptide binding]; other site 354242001392 RPB10 interaction site [polypeptide binding]; other site 354242001393 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 354242001394 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 354242001395 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 354242001396 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 354242001397 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 354242001398 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 354242001399 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 354242001400 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 354242001401 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 354242001402 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 354242001403 DNA binding site [nucleotide binding] 354242001404 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 354242001405 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 354242001406 S17 interaction site [polypeptide binding]; other site 354242001407 S8 interaction site; other site 354242001408 16S rRNA interaction site [nucleotide binding]; other site 354242001409 streptomycin interaction site [chemical binding]; other site 354242001410 23S rRNA interaction site [nucleotide binding]; other site 354242001411 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 354242001412 30S ribosomal protein S7; Validated; Region: PRK05302 354242001413 elongation factor G; Reviewed; Region: PRK00007 354242001414 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 354242001415 G1 box; other site 354242001416 putative GEF interaction site [polypeptide binding]; other site 354242001417 GTP/Mg2+ binding site [chemical binding]; other site 354242001418 Switch I region; other site 354242001419 G2 box; other site 354242001420 G3 box; other site 354242001421 Switch II region; other site 354242001422 G4 box; other site 354242001423 G5 box; other site 354242001424 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 354242001425 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 354242001426 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 354242001427 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 354242001428 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 354242001429 S-adenosylmethionine binding site [chemical binding]; other site 354242001430 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 354242001431 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 354242001432 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 354242001433 active site 354242001434 substrate (anthranilate) binding pocket [chemical binding]; other site 354242001435 product (indole) binding pocket [chemical binding]; other site 354242001436 ribulose/triose binding site [chemical binding]; other site 354242001437 phosphate binding site [ion binding]; other site 354242001438 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 354242001439 nucleotide binding site/active site [active] 354242001440 HIT family signature motif; other site 354242001441 catalytic residue [active] 354242001442 Predicted ATPase [General function prediction only]; Region: COG2603 354242001443 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 354242001444 active site residue [active] 354242001445 haemagglutination activity domain; Region: Haemagg_act; smart00912 354242001446 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 354242001447 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 354242001448 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 354242001449 Surface antigen; Region: Bac_surface_Ag; pfam01103 354242001450 ferrochelatase; Reviewed; Region: hemH; PRK00035 354242001451 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 354242001452 C-terminal domain interface [polypeptide binding]; other site 354242001453 active site 354242001454 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 354242001455 active site 354242001456 N-terminal domain interface [polypeptide binding]; other site 354242001457 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 354242001458 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 354242001459 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 354242001460 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 354242001461 inhibitor-cofactor binding pocket; inhibition site 354242001462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242001463 catalytic residue [active] 354242001464 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 354242001465 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 354242001466 motif 1; other site 354242001467 active site 354242001468 motif 2; other site 354242001469 motif 3; other site 354242001470 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 354242001471 DHHA1 domain; Region: DHHA1; pfam02272 354242001472 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 354242001473 Maf-like protein; Region: Maf; pfam02545 354242001474 active site 354242001475 dimer interface [polypeptide binding]; other site 354242001476 Transglycosylase; Region: Transgly; pfam00912 354242001477 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 354242001478 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 354242001479 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 354242001480 Clp amino terminal domain; Region: Clp_N; pfam02861 354242001481 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 354242001482 Walker A motif; other site 354242001483 ATP binding site [chemical binding]; other site 354242001484 Walker B motif; other site 354242001485 arginine finger; other site 354242001486 Protein of unknown function (DUF972); Region: DUF972; pfam06156 354242001487 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 354242001488 Walker A motif; other site 354242001489 ATP binding site [chemical binding]; other site 354242001490 Walker B motif; other site 354242001491 arginine finger; other site 354242001492 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 354242001493 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 354242001494 putative homodimer interface [polypeptide binding]; other site 354242001495 putative homotetramer interface [polypeptide binding]; other site 354242001496 putative metal binding site [ion binding]; other site 354242001497 putative homodimer-homodimer interface [polypeptide binding]; other site 354242001498 putative allosteric switch controlling residues; other site 354242001499 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 354242001500 C-terminal peptidase (prc); Region: prc; TIGR00225 354242001501 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 354242001502 protein binding site [polypeptide binding]; other site 354242001503 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 354242001504 Catalytic dyad [active] 354242001505 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 354242001506 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 354242001507 ATP binding site [chemical binding]; other site 354242001508 active site 354242001509 substrate binding site [chemical binding]; other site 354242001510 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 354242001511 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 354242001512 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 354242001513 putative active site [active] 354242001514 catalytic triad [active] 354242001515 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 354242001516 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 354242001517 putative acyl-acceptor binding pocket; other site 354242001518 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 354242001519 heat shock protein 90; Provisional; Region: PRK05218 354242001520 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 354242001521 ATP binding site [chemical binding]; other site 354242001522 Mg2+ binding site [ion binding]; other site 354242001523 G-X-G motif; other site 354242001524 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 354242001525 active site residue [active] 354242001526 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 354242001527 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 354242001528 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 354242001529 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 354242001530 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 354242001531 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 354242001532 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 354242001533 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 354242001534 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 354242001535 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 354242001536 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 354242001537 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 354242001538 YceG-like family; Region: YceG; pfam02618 354242001539 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 354242001540 dimerization interface [polypeptide binding]; other site 354242001541 Protein of unknown function; Region: DUF3971; pfam13116 354242001542 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 354242001543 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 354242001544 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 354242001545 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 354242001546 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 354242001547 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 354242001548 NAD(P) binding site [chemical binding]; other site 354242001549 LDH/MDH dimer interface [polypeptide binding]; other site 354242001550 substrate binding site [chemical binding]; other site 354242001551 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 354242001552 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 354242001553 CoA-ligase; Region: Ligase_CoA; pfam00549 354242001554 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 354242001555 CoA binding domain; Region: CoA_binding; smart00881 354242001556 CoA-ligase; Region: Ligase_CoA; pfam00549 354242001557 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 354242001558 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 354242001559 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 354242001560 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 354242001561 dimer interface [polypeptide binding]; other site 354242001562 PYR/PP interface [polypeptide binding]; other site 354242001563 TPP binding site [chemical binding]; other site 354242001564 substrate binding site [chemical binding]; other site 354242001565 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 354242001566 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 354242001567 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 354242001568 TPP-binding site [chemical binding]; other site 354242001569 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 354242001570 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 354242001571 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 354242001572 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 354242001573 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 354242001574 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 354242001575 substrate binding pocket [chemical binding]; other site 354242001576 chain length determination region; other site 354242001577 substrate-Mg2+ binding site; other site 354242001578 catalytic residues [active] 354242001579 aspartate-rich region 1; other site 354242001580 active site lid residues [active] 354242001581 aspartate-rich region 2; other site 354242001582 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 354242001583 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 354242001584 tRNA; other site 354242001585 putative tRNA binding site [nucleotide binding]; other site 354242001586 putative NADP binding site [chemical binding]; other site 354242001587 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 354242001588 prolyl-tRNA synthetase; Provisional; Region: PRK09194 354242001589 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 354242001590 dimer interface [polypeptide binding]; other site 354242001591 motif 1; other site 354242001592 active site 354242001593 motif 2; other site 354242001594 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 354242001595 putative deacylase active site [active] 354242001596 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 354242001597 active site 354242001598 motif 3; other site 354242001599 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 354242001600 anticodon binding site; other site 354242001601 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 354242001602 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 354242001603 domain interfaces; other site 354242001604 active site 354242001605 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 354242001606 flagellar protein FlaG; Provisional; Region: PRK08452 354242001607 flagellar capping protein; Provisional; Region: PRK12765 354242001608 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 354242001609 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 354242001610 flagellar protein FliS; Validated; Region: fliS; PRK05685 354242001611 elongation factor P; Validated; Region: PRK00529 354242001612 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 354242001613 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 354242001614 RNA binding site [nucleotide binding]; other site 354242001615 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 354242001616 RNA binding site [nucleotide binding]; other site 354242001617 Predicted membrane protein [Function unknown]; Region: COG3819 354242001618 Predicted membrane protein [Function unknown]; Region: COG3817 354242001619 Protein of unknown function (DUF979); Region: DUF979; pfam06166 354242001620 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 354242001621 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 354242001622 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 354242001623 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 354242001624 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 354242001625 active site 354242001626 Predicted membrane protein [Function unknown]; Region: COG1289 354242001627 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 354242001628 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 354242001629 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 354242001630 putative catalytic cysteine [active] 354242001631 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 354242001632 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 354242001633 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 354242001634 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 354242001635 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 354242001636 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 354242001637 replicative DNA helicase; Provisional; Region: PRK08506 354242001638 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 354242001639 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 354242001640 Walker A motif; other site 354242001641 ATP binding site [chemical binding]; other site 354242001642 Walker B motif; other site 354242001643 DNA binding loops [nucleotide binding] 354242001644 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 354242001645 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 354242001646 Predicted transcriptional regulator [Transcription]; Region: COG2378 354242001647 WYL domain; Region: WYL; pfam13280 354242001648 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 354242001649 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 354242001650 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 354242001651 Uncharacterized conserved protein [Function unknown]; Region: COG1610 354242001652 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08527 354242001653 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 354242001654 PYR/PP interface [polypeptide binding]; other site 354242001655 dimer interface [polypeptide binding]; other site 354242001656 TPP binding site [chemical binding]; other site 354242001657 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 354242001658 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 354242001659 TPP-binding site [chemical binding]; other site 354242001660 dimer interface [polypeptide binding]; other site 354242001661 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 354242001662 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 354242001663 putative valine binding site [chemical binding]; other site 354242001664 dimer interface [polypeptide binding]; other site 354242001665 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 354242001666 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 354242001667 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 354242001668 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 354242001669 trimer interface [polypeptide binding]; other site 354242001670 active site 354242001671 UDP-GlcNAc binding site [chemical binding]; other site 354242001672 lipid binding site [chemical binding]; lipid-binding site 354242001673 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 354242001674 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 354242001675 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 354242001676 sec-independent translocase; Provisional; Region: PRK04098 354242001677 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 354242001678 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 354242001679 putative active site [active] 354242001680 Ap4A binding site [chemical binding]; other site 354242001681 nudix motif; other site 354242001682 putative metal binding site [ion binding]; other site 354242001683 aspartate kinase; Reviewed; Region: PRK06635 354242001684 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 354242001685 putative nucleotide binding site [chemical binding]; other site 354242001686 putative catalytic residues [active] 354242001687 putative Mg ion binding site [ion binding]; other site 354242001688 putative aspartate binding site [chemical binding]; other site 354242001689 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 354242001690 putative allosteric regulatory site; other site 354242001691 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 354242001692 DNA replication regulator; Region: HobA; pfam12163 354242001693 DNA polymerase III subunit delta'; Validated; Region: PRK08485 354242001694 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 354242001695 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 354242001696 substrate binding pocket [chemical binding]; other site 354242001697 dimer interface [polypeptide binding]; other site 354242001698 inhibitor binding site; inhibition site 354242001699 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 354242001700 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 354242001701 nucleotide binding pocket [chemical binding]; other site 354242001702 K-X-D-G motif; other site 354242001703 catalytic site [active] 354242001704 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 354242001705 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 354242001706 Dimer interface [polypeptide binding]; other site 354242001707 BRCT sequence motif; other site 354242001708 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 354242001709 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 354242001710 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 354242001711 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 354242001712 active site 354242001713 nucleotide binding site [chemical binding]; other site 354242001714 HIGH motif; other site 354242001715 KMSKS motif; other site 354242001716 Riboflavin kinase; Region: Flavokinase; pfam01687 354242001717 Methyltransferase domain; Region: Methyltransf_31; pfam13847 354242001718 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 354242001719 S-adenosylmethionine binding site [chemical binding]; other site 354242001720 Predicted membrane protein [Function unknown]; Region: COG2860 354242001721 UPF0126 domain; Region: UPF0126; pfam03458 354242001722 UPF0126 domain; Region: UPF0126; pfam03458 354242001723 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 354242001724 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 354242001725 active site 354242001726 substrate binding site [chemical binding]; other site 354242001727 Mg2+ binding site [ion binding]; other site 354242001728 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 354242001729 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 354242001730 minor groove reading motif; other site 354242001731 helix-hairpin-helix signature motif; other site 354242001732 substrate binding pocket [chemical binding]; other site 354242001733 active site 354242001734 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 354242001735 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 354242001736 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 354242001737 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 354242001738 active site 354242001739 intersubunit interface [polypeptide binding]; other site 354242001740 zinc binding site [ion binding]; other site 354242001741 Na+ binding site [ion binding]; other site 354242001742 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 354242001743 hypothetical protein; Validated; Region: PRK09039 354242001744 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 354242001745 ligand binding site [chemical binding]; other site 354242001746 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 354242001747 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 354242001748 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 354242001749 catalytic residue [active] 354242001750 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 354242001751 Na2 binding site [ion binding]; other site 354242001752 putative substrate binding site 1 [chemical binding]; other site 354242001753 Na binding site 1 [ion binding]; other site 354242001754 putative substrate binding site 2 [chemical binding]; other site 354242001755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 354242001756 MOSC domain; Region: MOSC; pfam03473 354242001757 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 354242001758 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 354242001759 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 354242001760 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 354242001761 DsbD alpha interface [polypeptide binding]; other site 354242001762 catalytic residues [active] 354242001763 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 354242001764 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 354242001765 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 354242001766 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 354242001767 metal binding site [ion binding]; metal-binding site 354242001768 dimer interface [polypeptide binding]; other site 354242001769 macrolide transporter subunit MacA; Provisional; Region: PRK11578 354242001770 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 354242001771 HlyD family secretion protein; Region: HlyD_3; pfam13437 354242001772 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 354242001773 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 354242001774 Walker A/P-loop; other site 354242001775 ATP binding site [chemical binding]; other site 354242001776 Q-loop/lid; other site 354242001777 ABC transporter signature motif; other site 354242001778 Walker B; other site 354242001779 D-loop; other site 354242001780 H-loop/switch region; other site 354242001781 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 354242001782 FtsX-like permease family; Region: FtsX; pfam02687 354242001783 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 354242001784 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 354242001785 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 354242001786 active site 354242001787 oxyanion hole [active] 354242001788 catalytic triad [active] 354242001789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2845 354242001790 active site 354242001791 catalytic triad [active] 354242001792 oxyanion hole [active] 354242001793 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 354242001794 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 354242001795 Ferritin-like domain; Region: Ferritin; pfam00210 354242001796 ferroxidase diiron center [ion binding]; other site 354242001797 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 354242001798 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 354242001799 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 354242001800 dimer interface [polypeptide binding]; other site 354242001801 conserved gate region; other site 354242001802 putative PBP binding loops; other site 354242001803 ABC-ATPase subunit interface; other site 354242001804 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 354242001805 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 354242001806 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 354242001807 dimer interface [polypeptide binding]; other site 354242001808 conserved gate region; other site 354242001809 putative PBP binding loops; other site 354242001810 ABC-ATPase subunit interface; other site 354242001811 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14269 354242001812 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 354242001813 Walker A/P-loop; other site 354242001814 ATP binding site [chemical binding]; other site 354242001815 Q-loop/lid; other site 354242001816 ABC transporter signature motif; other site 354242001817 Walker B; other site 354242001818 D-loop; other site 354242001819 H-loop/switch region; other site 354242001820 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 354242001821 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 354242001822 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 354242001823 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 354242001824 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 354242001825 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 354242001826 Acylphosphatase; Region: Acylphosphatase; pfam00708 354242001827 HypF finger; Region: zf-HYPF; pfam07503 354242001828 HypF finger; Region: zf-HYPF; pfam07503 354242001829 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 354242001830 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 354242001831 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 354242001832 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 354242001833 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 354242001834 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 354242001835 dimerization interface [polypeptide binding]; other site 354242001836 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 354242001837 ATP binding site [chemical binding]; other site 354242001838 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 354242001839 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 354242001840 Uncharacterized conserved protein [Function unknown]; Region: COG4748 354242001841 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 354242001842 DNA polymerase III subunit delta; Validated; Region: PRK08487 354242001843 Exoribonuclease R [Transcription]; Region: VacB; COG0557 354242001844 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 354242001845 RNB domain; Region: RNB; pfam00773 354242001846 ketol-acid reductoisomerase; Provisional; Region: PRK05479 354242001847 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 354242001848 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 354242001849 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 354242001850 NodB motif; other site 354242001851 putative active site [active] 354242001852 putative catalytic site [active] 354242001853 Zn binding site [ion binding]; other site 354242001854 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 354242001855 DNA protecting protein DprA; Region: dprA; TIGR00732 354242001856 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 354242001857 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 354242001858 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 354242001859 methionine sulfoxide reductase A; Provisional; Region: PRK14054 354242001860 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 354242001861 dimer interface [polypeptide binding]; other site 354242001862 substrate binding site [chemical binding]; other site 354242001863 metal binding sites [ion binding]; metal-binding site 354242001864 adenylate kinase; Reviewed; Region: adk; PRK00279 354242001865 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 354242001866 AMP-binding site [chemical binding]; other site 354242001867 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 354242001868 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 354242001869 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 354242001870 dimer interface [polypeptide binding]; other site 354242001871 anticodon binding site; other site 354242001872 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 354242001873 homodimer interface [polypeptide binding]; other site 354242001874 motif 1; other site 354242001875 active site 354242001876 motif 2; other site 354242001877 GAD domain; Region: GAD; pfam02938 354242001878 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 354242001879 active site 354242001880 motif 3; other site 354242001881 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: pnk; PRK14077 354242001882 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 354242001883 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 354242001884 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 354242001885 Walker A/P-loop; other site 354242001886 ATP binding site [chemical binding]; other site 354242001887 Q-loop/lid; other site 354242001888 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 354242001889 ABC transporter signature motif; other site 354242001890 Walker B; other site 354242001891 D-loop; other site 354242001892 H-loop/switch region; other site 354242001893 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 354242001894 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 354242001895 active site 354242001896 phosphorylation site [posttranslational modification] 354242001897 intermolecular recognition site; other site 354242001898 dimerization interface [polypeptide binding]; other site 354242001899 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 354242001900 active site 354242001901 phosphorylation site [posttranslational modification] 354242001902 intermolecular recognition site; other site 354242001903 dimerization interface [polypeptide binding]; other site 354242001904 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 354242001905 metal binding site [ion binding]; metal-binding site 354242001906 active site 354242001907 I-site; other site 354242001908 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 354242001909 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 354242001910 active site 354242001911 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 354242001912 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 354242001913 N-acetyl-D-glucosamine binding site [chemical binding]; other site 354242001914 catalytic residue [active] 354242001915 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 354242001916 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 354242001917 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 354242001918 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 354242001919 Sporulation related domain; Region: SPOR; pfam05036 354242001920 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 354242001921 active site 354242001922 motif I; other site 354242001923 motif II; other site 354242001924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 354242001925 OstA-like protein; Region: OstA; pfam03968 354242001926 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 354242001927 G1 box; other site 354242001928 GTP/Mg2+ binding site [chemical binding]; other site 354242001929 Switch I region; other site 354242001930 G2 box; other site 354242001931 G3 box; other site 354242001932 Switch II region; other site 354242001933 G4 box; other site 354242001934 G5 box; other site 354242001935 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 354242001936 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 354242001937 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 354242001938 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 354242001939 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 354242001940 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 354242001941 active site 354242001942 POT family; Region: PTR2; cl17359 354242001943 POT family; Region: PTR2; cl17359 354242001944 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 354242001945 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 354242001946 putative substrate translocation pore; other site 354242001947 GTPase Era; Reviewed; Region: era; PRK00089 354242001948 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 354242001949 G1 box; other site 354242001950 GTP/Mg2+ binding site [chemical binding]; other site 354242001951 Switch I region; other site 354242001952 G2 box; other site 354242001953 Switch II region; other site 354242001954 G3 box; other site 354242001955 G4 box; other site 354242001956 G5 box; other site 354242001957 KH domain; Region: KH_2; pfam07650 354242001958 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 354242001959 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 354242001960 Walker A motif; other site 354242001961 ATP binding site [chemical binding]; other site 354242001962 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 354242001963 Walker B motif; other site 354242001964 arginine finger; other site 354242001965 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 354242001966 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 354242001967 active site 354242001968 HslU subunit interaction site [polypeptide binding]; other site 354242001969 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 354242001970 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 354242001971 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 354242001972 argininosuccinate synthase; Provisional; Region: PRK13820 354242001973 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 354242001974 ANP binding site [chemical binding]; other site 354242001975 Substrate Binding Site II [chemical binding]; other site 354242001976 Substrate Binding Site I [chemical binding]; other site 354242001977 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]; Region: COG1188 354242001978 RNA binding surface [nucleotide binding]; other site 354242001979 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 354242001980 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 354242001981 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 354242001982 Walker A/P-loop; other site 354242001983 ATP binding site [chemical binding]; other site 354242001984 Q-loop/lid; other site 354242001985 ABC transporter signature motif; other site 354242001986 Walker B; other site 354242001987 D-loop; other site 354242001988 H-loop/switch region; other site 354242001989 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 354242001990 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 354242001991 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 354242001992 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 354242001993 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 354242001994 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 354242001995 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 354242001996 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 354242001997 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 354242001998 Soluble P-type ATPase [General function prediction only]; Region: COG4087 354242001999 K+-transporting ATPase, c chain; Region: KdpC; cl00944 354242002000 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 354242002001 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 354242002002 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 354242002003 Ligand Binding Site [chemical binding]; other site 354242002004 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 354242002005 GAF domain; Region: GAF_3; pfam13492 354242002006 excinuclease ABC subunit B; Provisional; Region: PRK05298 354242002007 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 354242002008 ATP binding site [chemical binding]; other site 354242002009 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 354242002010 nucleotide binding region [chemical binding]; other site 354242002011 ATP-binding site [chemical binding]; other site 354242002012 Ultra-violet resistance protein B; Region: UvrB; pfam12344 354242002013 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 354242002014 primosome assembly protein PriA; Validated; Region: PRK05580 354242002015 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 354242002016 ATP binding site [chemical binding]; other site 354242002017 putative Mg++ binding site [ion binding]; other site 354242002018 helicase superfamily c-terminal domain; Region: HELICc; smart00490 354242002019 ATP-binding site [chemical binding]; other site 354242002020 Protein of unknown function (DUF2972); Region: DUF2972; pfam11186 354242002021 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 354242002022 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 354242002023 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 354242002024 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 354242002025 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 354242002026 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 354242002027 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 354242002028 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 354242002029 propionate/acetate kinase; Provisional; Region: PRK12379 354242002030 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 354242002031 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 354242002032 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 354242002033 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 354242002034 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 354242002035 S-adenosylmethionine binding site [chemical binding]; other site 354242002036 SurA N-terminal domain; Region: SurA_N_3; cl07813 354242002037 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 354242002038 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 354242002039 cell division protein FtsA; Region: ftsA; TIGR01174 354242002040 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 354242002041 nucleotide binding site [chemical binding]; other site 354242002042 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 354242002043 Cell division protein FtsA; Region: FtsA; pfam14450 354242002044 cell division protein FtsZ; Validated; Region: PRK09330 354242002045 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 354242002046 nucleotide binding site [chemical binding]; other site 354242002047 SulA interaction site; other site 354242002048 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 354242002049 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 354242002050 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 354242002051 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 354242002052 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 354242002053 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 354242002054 glutamine synthetase, type I; Region: GlnA; TIGR00653 354242002055 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 354242002056 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 354242002057 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 354242002058 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 354242002059 Peptidase family U32; Region: Peptidase_U32; pfam01136 354242002060 AIR carboxylase; Region: AIRC; smart01001 354242002061 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 354242002062 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 354242002063 dimer interface [polypeptide binding]; other site 354242002064 motif 1; other site 354242002065 active site 354242002066 motif 2; other site 354242002067 motif 3; other site 354242002068 Uncharacterized conserved protein [Function unknown]; Region: COG0327 354242002069 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 354242002070 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 354242002071 Putative zinc ribbon domain; Region: DUF164; pfam02591 354242002072 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 354242002073 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 354242002074 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 354242002075 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 354242002076 active site 354242002077 signal recognition particle protein; Provisional; Region: PRK10867 354242002078 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 354242002079 P loop; other site 354242002080 GTP binding site [chemical binding]; other site 354242002081 Signal peptide binding domain; Region: SRP_SPB; pfam02978 354242002082 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 354242002083 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 354242002084 KH domain; Region: KH_4; pfam13083 354242002085 G-X-X-G motif; other site 354242002086 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 354242002087 RimM N-terminal domain; Region: RimM; pfam01782 354242002088 PRC-barrel domain; Region: PRC; pfam05239 354242002089 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 354242002090 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 354242002091 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 354242002092 active site 354242002093 homotetramer interface [polypeptide binding]; other site 354242002094 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 354242002095 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 354242002096 ArsC family; Region: ArsC; pfam03960 354242002097 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 354242002098 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 354242002099 active site 354242002100 PHP Thumb interface [polypeptide binding]; other site 354242002101 metal binding site [ion binding]; metal-binding site 354242002102 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 354242002103 generic binding surface I; other site 354242002104 generic binding surface II; other site 354242002105 Predicted enzyme with a TIM-barrel fold [General function prediction only]; Region: COG0325 354242002106 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 354242002107 catalytic residue [active] 354242002108 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 354242002109 flagellin; Provisional; Region: PRK12804 354242002110 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 354242002111 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 354242002112 S-adenosylmethionine binding site [chemical binding]; other site 354242002113 Peptidase family M48; Region: Peptidase_M48; pfam01435 354242002114 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 354242002115 MPT binding site; other site 354242002116 trimer interface [polypeptide binding]; other site 354242002117 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 354242002118 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 354242002119 oligomer interface [polypeptide binding]; other site 354242002120 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 354242002121 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 354242002122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 354242002123 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 354242002124 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 354242002125 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 354242002126 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 354242002127 dimer interface [polypeptide binding]; other site 354242002128 conserved gate region; other site 354242002129 putative PBP binding loops; other site 354242002130 ABC-ATPase subunit interface; other site 354242002131 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 354242002132 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 354242002133 Walker A/P-loop; other site 354242002134 ATP binding site [chemical binding]; other site 354242002135 Q-loop/lid; other site 354242002136 ABC transporter signature motif; other site 354242002137 Walker B; other site 354242002138 D-loop; other site 354242002139 H-loop/switch region; other site 354242002140 TOBE domain; Region: TOBE_2; pfam08402 354242002141 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 354242002142 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 354242002143 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 354242002144 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 354242002145 substrate binding pocket [chemical binding]; other site 354242002146 membrane-bound complex binding site; other site 354242002147 hinge residues; other site 354242002148 haemagglutination activity domain; Region: Haemagg_act; smart00912 354242002149 polygalacturonase ADPG; Region: PLN02218 354242002150 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 354242002151 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 354242002152 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 354242002153 heat-inducible transcription repressor; Provisional; Region: PRK03911 354242002154 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 354242002155 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 354242002156 dimer interface [polypeptide binding]; other site 354242002157 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 354242002158 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 354242002159 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 354242002160 nucleotide binding site [chemical binding]; other site 354242002161 NEF interaction site [polypeptide binding]; other site 354242002162 SBD interface [polypeptide binding]; other site 354242002163 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 354242002164 HsdM N-terminal domain; Region: HsdM_N; pfam12161 354242002165 Methyltransferase domain; Region: Methyltransf_26; pfam13659 354242002166 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 354242002167 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 354242002168 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 354242002169 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 354242002170 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 354242002171 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 354242002172 ATP binding site [chemical binding]; other site 354242002173 putative Mg++ binding site [ion binding]; other site 354242002174 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 354242002175 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 354242002176 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 354242002177 aspartate aminotransferase; Provisional; Region: PRK05764 354242002178 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 354242002179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242002180 homodimer interface [polypeptide binding]; other site 354242002181 catalytic residue [active] 354242002182 serine O-acetyltransferase; Region: cysE; TIGR01172 354242002183 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 354242002184 trimer interface [polypeptide binding]; other site 354242002185 active site 354242002186 substrate binding site [chemical binding]; other site 354242002187 CoA binding site [chemical binding]; other site 354242002188 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 354242002189 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 354242002190 dimer interface [polypeptide binding]; other site 354242002191 active site 354242002192 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 354242002193 catalytic residues [active] 354242002194 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 354242002195 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 354242002196 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 354242002197 dimer interface [polypeptide binding]; other site 354242002198 motif 1; other site 354242002199 active site 354242002200 motif 2; other site 354242002201 motif 3; other site 354242002202 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 354242002203 anticodon binding site; other site 354242002204 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 354242002205 thymidylate kinase; Validated; Region: tmk; PRK00698 354242002206 TMP-binding site; other site 354242002207 ATP-binding site [chemical binding]; other site 354242002208 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 354242002209 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 354242002210 active site 354242002211 (T/H)XGH motif; other site 354242002212 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 354242002213 Flavoprotein; Region: Flavoprotein; pfam02441 354242002214 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 354242002215 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 354242002216 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 354242002217 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 354242002218 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 354242002219 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 354242002220 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 354242002221 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 354242002222 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 354242002223 ABC-ATPase subunit interface; other site 354242002224 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 354242002225 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 354242002226 Walker A/P-loop; other site 354242002227 ATP binding site [chemical binding]; other site 354242002228 Q-loop/lid; other site 354242002229 ABC transporter signature motif; other site 354242002230 Walker B; other site 354242002231 D-loop; other site 354242002232 H-loop/switch region; other site 354242002233 NIL domain; Region: NIL; pfam09383 354242002234 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 354242002235 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 354242002236 active site 354242002237 HIGH motif; other site 354242002238 nucleotide binding site [chemical binding]; other site 354242002239 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 354242002240 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 354242002241 active site 354242002242 KMSKS motif; other site 354242002243 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 354242002244 tRNA binding surface [nucleotide binding]; other site 354242002245 anticodon binding site; other site 354242002246 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 354242002247 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 354242002248 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 354242002249 Part of AAA domain; Region: AAA_19; pfam13245 354242002250 Family description; Region: UvrD_C_2; pfam13538 354242002251 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 354242002252 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 354242002253 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 354242002254 dimer interface [polypeptide binding]; other site 354242002255 catalytic triad [active] 354242002256 peroxidatic and resolving cysteines [active] 354242002257 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 354242002258 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 354242002259 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 354242002260 molybdopterin cofactor binding site; other site 354242002261 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 354242002262 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 354242002263 molybdopterin cofactor binding site; other site 354242002264 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 354242002265 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 354242002266 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 354242002267 4Fe-4S binding domain; Region: Fer4_5; pfam12801 354242002268 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 354242002269 FOG: WD40 repeat [General function prediction only]; Region: COG2319 354242002270 Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]; Region: NapD; COG3062 354242002271 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 354242002272 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 354242002273 active site 354242002274 NTP binding site [chemical binding]; other site 354242002275 metal binding triad [ion binding]; metal-binding site 354242002276 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 354242002277 Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]; Region: PurU; COG0788 354242002278 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 354242002279 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 354242002280 putative active site [active] 354242002281 putative substrate binding site [chemical binding]; other site 354242002282 putative cosubstrate binding site; other site 354242002283 catalytic site [active] 354242002284 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 354242002285 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 354242002286 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 354242002287 catalytic residue [active] 354242002288 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 354242002289 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 354242002290 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 354242002291 dimer interface [polypeptide binding]; other site 354242002292 phosphorylation site [posttranslational modification] 354242002293 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 354242002294 ATP binding site [chemical binding]; other site 354242002295 Mg2+ binding site [ion binding]; other site 354242002296 G-X-G motif; other site 354242002297 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 354242002298 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 354242002299 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 354242002300 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 354242002301 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 354242002302 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 354242002303 ATP-grasp domain; Region: ATP-grasp_4; cl17255 354242002304 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14601 354242002305 RuvA N terminal domain; Region: RuvA_N; pfam01330 354242002306 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 354242002307 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 354242002308 Protein of unknown function (DUF342); Region: DUF342; pfam03961 354242002309 integral membrane protein MviN; Region: mviN; TIGR01695 354242002310 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 354242002311 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 354242002312 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 354242002313 active site 354242002314 HIGH motif; other site 354242002315 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 354242002316 KMSKS motif; other site 354242002317 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 354242002318 tRNA binding surface [nucleotide binding]; other site 354242002319 anticodon binding site; other site 354242002320 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 354242002321 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 354242002322 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 354242002323 Walker A/P-loop; other site 354242002324 ATP binding site [chemical binding]; other site 354242002325 Q-loop/lid; other site 354242002326 ABC transporter signature motif; other site 354242002327 Walker B; other site 354242002328 D-loop; other site 354242002329 H-loop/switch region; other site 354242002330 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 354242002331 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 354242002332 quinone interaction residues [chemical binding]; other site 354242002333 active site 354242002334 catalytic residues [active] 354242002335 FMN binding site [chemical binding]; other site 354242002336 substrate binding site [chemical binding]; other site 354242002337 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 354242002338 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 354242002339 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 354242002340 dihydrodipicolinate synthase; Region: dapA; TIGR00674 354242002341 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 354242002342 dimer interface [polypeptide binding]; other site 354242002343 active site 354242002344 catalytic residue [active] 354242002345 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 354242002346 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 354242002347 NAD(P) binding site [chemical binding]; other site 354242002348 active site 354242002349 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 354242002350 NAD synthetase; Provisional; Region: PRK13980 354242002351 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 354242002352 homodimer interface [polypeptide binding]; other site 354242002353 NAD binding pocket [chemical binding]; other site 354242002354 ATP binding pocket [chemical binding]; other site 354242002355 Mg binding site [ion binding]; other site 354242002356 active-site loop [active] 354242002357 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 354242002358 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 354242002359 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 354242002360 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 354242002361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242002362 catalytic residue [active] 354242002363 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 354242002364 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 354242002365 Ligand binding site; other site 354242002366 oligomer interface; other site 354242002367 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 354242002368 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 354242002369 substrate binding pocket [chemical binding]; other site 354242002370 membrane-bound complex binding site; other site 354242002371 hinge residues; other site 354242002372 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 354242002373 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 354242002374 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 354242002375 Substrate binding site; other site 354242002376 Mg++ binding site; other site 354242002377 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 354242002378 active site 354242002379 substrate binding site [chemical binding]; other site 354242002380 CoA binding site [chemical binding]; other site 354242002381 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 354242002382 Flavoprotein; Region: Flavoprotein; pfam02441 354242002383 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 354242002384 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 354242002385 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 354242002386 catalytic residue [active] 354242002387 putative FPP diphosphate binding site; other site 354242002388 putative FPP binding hydrophobic cleft; other site 354242002389 dimer interface [polypeptide binding]; other site 354242002390 putative IPP diphosphate binding site; other site 354242002391 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 354242002392 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 354242002393 Predicted permeases [General function prediction only]; Region: COG0795 354242002394 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 354242002395 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 354242002396 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 354242002397 dimerization interface 3.5A [polypeptide binding]; other site 354242002398 active site 354242002399 threonine dehydratase; Provisional; Region: PRK08526 354242002400 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 354242002401 tetramer interface [polypeptide binding]; other site 354242002402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242002403 catalytic residue [active] 354242002404 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 354242002405 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 354242002406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 354242002407 tRNA (Uracil-5-)-methyltransferase; Region: tRNA_U5-meth_tr; pfam05958 354242002408 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 354242002409 S-adenosylmethionine binding site [chemical binding]; other site 354242002410 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 354242002411 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 354242002412 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 354242002413 putative NAD(P) binding site [chemical binding]; other site 354242002414 homotetramer interface [polypeptide binding]; other site 354242002415 homodimer interface [polypeptide binding]; other site 354242002416 active site 354242002417 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 354242002418 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 354242002419 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 354242002420 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 354242002421 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 354242002422 substrate binding site [chemical binding]; other site 354242002423 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 354242002424 substrate binding site [chemical binding]; other site 354242002425 ligand binding site [chemical binding]; other site 354242002426 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 354242002427 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 354242002428 DNA binding site [nucleotide binding] 354242002429 active site 354242002430 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 354242002431 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 354242002432 active site 354242002433 HIGH motif; other site 354242002434 KMSKS motif; other site 354242002435 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 354242002436 tRNA binding surface [nucleotide binding]; other site 354242002437 anticodon binding site; other site 354242002438 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 354242002439 putative tRNA-binding site [nucleotide binding]; other site 354242002440 dimer interface [polypeptide binding]; other site 354242002441 Fructose-1,6-bisphosphatase [Carbohydrate transport and metabolism]; Region: Fbp; COG0158 354242002442 active site 354242002443 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 354242002444 Walker A motif; other site 354242002445 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 354242002446 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 354242002447 N-acetyl-D-glucosamine binding site [chemical binding]; other site 354242002448 catalytic residue [active] 354242002449 YGGT family; Region: YGGT; pfam02325 354242002450 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 354242002451 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 354242002452 active site 354242002453 HIGH motif; other site 354242002454 nucleotide binding site [chemical binding]; other site 354242002455 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 354242002456 active site 354242002457 KMSKS motif; other site 354242002458 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 354242002459 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 354242002460 putative active site [active] 354242002461 putative metal binding site [ion binding]; other site 354242002462 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 354242002463 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 354242002464 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 354242002465 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 354242002466 putative substrate translocation pore; other site 354242002467 Major Facilitator Superfamily; Region: MFS_1; pfam07690 354242002468 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 354242002469 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 354242002470 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 354242002471 inhibitor-cofactor binding pocket; inhibition site 354242002472 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242002473 catalytic residue [active] 354242002474 ubiquitin-activating enzyme E1; Region: Ube1; TIGR01408 354242002475 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14166 354242002476 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 354242002477 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 354242002478 homodimer interface [polypeptide binding]; other site 354242002479 NADP binding site [chemical binding]; other site 354242002480 substrate binding site [chemical binding]; other site 354242002481 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 354242002482 Catalytic site [active] 354242002483 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 354242002484 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 354242002485 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 354242002486 dimer interface [polypeptide binding]; other site 354242002487 putative functional site; other site 354242002488 putative MPT binding site; other site 354242002489 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 354242002490 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 354242002491 hinge; other site 354242002492 active site 354242002493 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 354242002494 EamA-like transporter family; Region: EamA; pfam00892 354242002495 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 354242002496 Glutamine amidotransferase class-I; Region: GATase; pfam00117 354242002497 glutamine binding [chemical binding]; other site 354242002498 catalytic triad [active] 354242002499 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 354242002500 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 354242002501 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 354242002502 substrate-cofactor binding pocket; other site 354242002503 homodimer interface [polypeptide binding]; other site 354242002504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242002505 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 354242002506 catalytic residue [active] 354242002507 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 354242002508 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 354242002509 active site 354242002510 DNA binding site [nucleotide binding] 354242002511 Int/Topo IB signature motif; other site 354242002512 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 354242002513 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 354242002514 catalytic residues [active] 354242002515 hinge region; other site 354242002516 alpha helical domain; other site 354242002517 putative disulfide oxidoreductase; Provisional; Region: PRK04307 354242002518 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 354242002519 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 354242002520 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 354242002521 catalytic residues [active] 354242002522 hinge region; other site 354242002523 alpha helical domain; other site 354242002524 Cytochrome c; Region: Cytochrom_C; pfam00034 354242002525 Cytochrome c [Energy production and conversion]; Region: COG3258 354242002526 DHH family; Region: DHH; pfam01368 354242002527 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 354242002528 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 354242002529 FHIPEP family; Region: FHIPEP; pfam00771 354242002530 Rrf2 family protein; Region: rrf2_super; TIGR00738 354242002531 Transcriptional regulator; Region: Rrf2; pfam02082 354242002532 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 354242002533 16S/18S rRNA binding site [nucleotide binding]; other site 354242002534 S13e-L30e interaction site [polypeptide binding]; other site 354242002535 25S rRNA binding site [nucleotide binding]; other site 354242002536 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 354242002537 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 354242002538 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 354242002539 lagellar hook-associated protein FlgL; Provisional; Region: PRK14692 354242002540 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 354242002541 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 354242002542 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 354242002543 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 354242002544 Walker A/P-loop; other site 354242002545 ATP binding site [chemical binding]; other site 354242002546 ABC transporter signature motif; other site 354242002547 Walker B; other site 354242002548 D-loop; other site 354242002549 H-loop/switch region; other site 354242002550 ABC transporter; Region: ABC_tran_2; pfam12848 354242002551 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 354242002552 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 354242002553 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 354242002554 ATP binding site [chemical binding]; other site 354242002555 Mg2+ binding site [ion binding]; other site 354242002556 G-X-G motif; other site 354242002557 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 354242002558 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 354242002559 active site 354242002560 phosphorylation site [posttranslational modification] 354242002561 intermolecular recognition site; other site 354242002562 dimerization interface [polypeptide binding]; other site 354242002563 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 354242002564 DNA binding site [nucleotide binding] 354242002565 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 354242002566 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 354242002567 ligand binding site [chemical binding]; other site 354242002568 NAD binding site [chemical binding]; other site 354242002569 dimerization interface [polypeptide binding]; other site 354242002570 catalytic site [active] 354242002571 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 354242002572 putative L-serine binding site [chemical binding]; other site 354242002573 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 354242002574 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 354242002575 RNA binding site [nucleotide binding]; other site 354242002576 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 354242002577 RNA binding site [nucleotide binding]; other site 354242002578 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 354242002579 RNA binding site [nucleotide binding]; other site 354242002580 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 354242002581 RNA binding site [nucleotide binding]; other site 354242002582 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 354242002583 RNA binding site [nucleotide binding]; other site 354242002584 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 354242002585 RNA binding site [nucleotide binding]; other site 354242002586 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 354242002587 LytB protein; Region: LYTB; pfam02401 354242002588 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 354242002589 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 354242002590 hinge; other site 354242002591 active site 354242002592 phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial; Region: pheT_bact; TIGR00472 354242002593 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 354242002594 putative tRNA-binding site [nucleotide binding]; other site 354242002595 B3/4 domain; Region: B3_4; pfam03483 354242002596 tRNA synthetase B5 domain; Region: B5; smart00874 354242002597 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 354242002598 dimer interface [polypeptide binding]; other site 354242002599 motif 1; other site 354242002600 motif 3; other site 354242002601 motif 2; other site 354242002602 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 354242002603 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 354242002604 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 354242002605 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 354242002606 dimer interface [polypeptide binding]; other site 354242002607 motif 1; other site 354242002608 active site 354242002609 motif 2; other site 354242002610 motif 3; other site 354242002611 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 354242002612 nucleotide binding site/active site [active] 354242002613 HIT family signature motif; other site 354242002614 catalytic residue [active] 354242002615 DJ-1 family protein; Region: not_thiJ; TIGR01383 354242002616 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 354242002617 conserved cys residue [active] 354242002618 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 354242002619 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 354242002620 dimer interface [polypeptide binding]; other site 354242002621 conserved gate region; other site 354242002622 putative PBP binding loops; other site 354242002623 ABC-ATPase subunit interface; other site 354242002624 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 354242002625 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 354242002626 Walker A/P-loop; other site 354242002627 ATP binding site [chemical binding]; other site 354242002628 Q-loop/lid; other site 354242002629 ABC transporter signature motif; other site 354242002630 Walker B; other site 354242002631 D-loop; other site 354242002632 H-loop/switch region; other site 354242002633 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 354242002634 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 354242002635 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 354242002636 alanine racemase; Reviewed; Region: alr; PRK00053 354242002637 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 354242002638 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 354242002639 catalytic residue [active] 354242002640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 354242002641 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 354242002642 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 354242002643 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 354242002644 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 354242002645 Cu(I) binding site [ion binding]; other site 354242002646 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 354242002647 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 354242002648 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242002649 dimer interface [polypeptide binding]; other site 354242002650 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 354242002651 IHF dimer interface [polypeptide binding]; other site 354242002652 IHF - DNA interface [nucleotide binding]; other site 354242002653 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 354242002654 Protein of unknown function (DUF466); Region: DUF466; cl01082 354242002655 carbon starvation protein A; Provisional; Region: PRK15015 354242002656 Carbon starvation protein CstA; Region: CstA; pfam02554 354242002657 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 354242002658 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 354242002659 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 354242002660 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 354242002661 active site 354242002662 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 354242002663 dimer interface [polypeptide binding]; other site 354242002664 conserved gate region; other site 354242002665 putative PBP binding loops; other site 354242002666 ABC-ATPase subunit interface; other site 354242002667 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 354242002668 dimer interface [polypeptide binding]; other site 354242002669 conserved gate region; other site 354242002670 putative PBP binding loops; other site 354242002671 ABC-ATPase subunit interface; other site 354242002672 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 354242002673 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 354242002674 substrate binding pocket [chemical binding]; other site 354242002675 membrane-bound complex binding site; other site 354242002676 hinge residues; other site 354242002677 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 354242002678 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 354242002679 Walker A/P-loop; other site 354242002680 ATP binding site [chemical binding]; other site 354242002681 Q-loop/lid; other site 354242002682 ABC transporter signature motif; other site 354242002683 Walker B; other site 354242002684 D-loop; other site 354242002685 H-loop/switch region; other site 354242002686 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 354242002687 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 354242002688 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 354242002689 S-adenosylmethionine binding site [chemical binding]; other site 354242002690 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 354242002691 CheB methylesterase; Region: CheB_methylest; pfam01339 354242002692 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 354242002693 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 354242002694 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 354242002695 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 354242002696 active site 354242002697 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 354242002698 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 354242002699 multifunctional aminopeptidase A; Provisional; Region: PRK00913 354242002700 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 354242002701 interface (dimer of trimers) [polypeptide binding]; other site 354242002702 Substrate-binding/catalytic site; other site 354242002703 Zn-binding sites [ion binding]; other site 354242002704 GTP-binding protein YchF; Reviewed; Region: PRK09601 354242002705 YchF GTPase; Region: YchF; cd01900 354242002706 G1 box; other site 354242002707 GTP/Mg2+ binding site [chemical binding]; other site 354242002708 Switch I region; other site 354242002709 G2 box; other site 354242002710 Switch II region; other site 354242002711 G3 box; other site 354242002712 G4 box; other site 354242002713 G5 box; other site 354242002714 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 354242002715 argininosuccinate lyase; Provisional; Region: PRK00855 354242002716 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 354242002717 active sites [active] 354242002718 tetramer interface [polypeptide binding]; other site 354242002719 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 354242002720 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 354242002721 active site 354242002722 substrate-binding site [chemical binding]; other site 354242002723 metal-binding site [ion binding] 354242002724 ATP binding site [chemical binding]; other site 354242002725 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 354242002726 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 354242002727 active site 354242002728 catalytic residues [active] 354242002729 metal binding site [ion binding]; metal-binding site 354242002730 homodimer binding site [polypeptide binding]; other site 354242002731 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 354242002732 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 354242002733 carboxyltransferase (CT) interaction site; other site 354242002734 biotinylation site [posttranslational modification]; other site 354242002735 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 354242002736 Na2 binding site [ion binding]; other site 354242002737 putative substrate binding site 1 [chemical binding]; other site 354242002738 Na binding site 1 [ion binding]; other site 354242002739 putative substrate binding site 2 [chemical binding]; other site 354242002740 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 354242002741 Na2 binding site [ion binding]; other site 354242002742 putative substrate binding site 1 [chemical binding]; other site 354242002743 Na binding site 1 [ion binding]; other site 354242002744 putative substrate binding site 2 [chemical binding]; other site 354242002745 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 354242002746 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 354242002747 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 354242002748 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 354242002749 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 354242002750 Predicted permeases [General function prediction only]; Region: COG0679 354242002751 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 354242002752 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 354242002753 putative substrate translocation pore; other site 354242002754 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 354242002755 putative acyl-acceptor binding pocket; other site 354242002756 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 354242002757 acyl-activating enzyme (AAE) consensus motif; other site 354242002758 AMP binding site [chemical binding]; other site 354242002759 active site 354242002760 CoA binding site [chemical binding]; other site 354242002761 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 354242002762 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 354242002763 dimer interface [polypeptide binding]; other site 354242002764 conserved gate region; other site 354242002765 putative PBP binding loops; other site 354242002766 ABC-ATPase subunit interface; other site 354242002767 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 354242002768 FtsX-like permease family; Region: FtsX; pfam02687 354242002769 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 354242002770 DEAD/DEAH box helicase; Region: DEAD; pfam00270 354242002771 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 354242002772 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 354242002773 nucleotide binding region [chemical binding]; other site 354242002774 ATP-binding site [chemical binding]; other site 354242002775 SEC-C motif; Region: SEC-C; pfam02810 354242002776 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 354242002777 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 354242002778 PIF1-like helicase; Region: PIF1; pfam05970 354242002779 Helicase; Region: Herpes_Helicase; pfam02689 354242002780 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 354242002781 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 354242002782 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 354242002783 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 354242002784 NlpC/P60 family; Region: NLPC_P60; cl17555 354242002785 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 354242002786 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 354242002787 putative active site; other site 354242002788 catalytic triad [active] 354242002789 putative dimer interface [polypeptide binding]; other site 354242002790 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 354242002791 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 354242002792 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 354242002793 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 354242002794 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 354242002795 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 354242002796 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 354242002797 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 354242002798 dimer interface [polypeptide binding]; other site 354242002799 putative CheW interface [polypeptide binding]; other site 354242002800 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 354242002801 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 354242002802 purine monophosphate binding site [chemical binding]; other site 354242002803 dimer interface [polypeptide binding]; other site 354242002804 putative catalytic residues [active] 354242002805 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 354242002806 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 354242002807 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 354242002808 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 354242002809 putative metal binding site [ion binding]; other site 354242002810 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 354242002811 HSP70 interaction site [polypeptide binding]; other site 354242002812 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 354242002813 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 354242002814 dimerization interface [polypeptide binding]; other site 354242002815 ATP binding site [chemical binding]; other site 354242002816 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 354242002817 dimerization interface [polypeptide binding]; other site 354242002818 ATP binding site [chemical binding]; other site 354242002819 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 354242002820 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 354242002821 trmE is a tRNA modification GTPase; Region: trmE; cd04164 354242002822 G1 box; other site 354242002823 GTP/Mg2+ binding site [chemical binding]; other site 354242002824 Switch I region; other site 354242002825 G2 box; other site 354242002826 Switch II region; other site 354242002827 G3 box; other site 354242002828 G4 box; other site 354242002829 G5 box; other site 354242002830 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 354242002831 membrane protein insertase; Provisional; Region: PRK01318 354242002832 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 354242002833 Uncharacterized conserved protein [Function unknown]; Region: COG0759 354242002834 RNase P protein component [Translation, ribosomal structure and biogenesis]; Region: RnpA; COG0594 354242002835 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 354242002836 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 354242002837 Coenzyme A binding pocket [chemical binding]; other site 354242002838 Uracil-DNA glycosylase [DNA replication, recombination, and repair]; Region: COG1573 354242002839 ligand binding site [chemical binding]; other site 354242002840 active site 354242002841 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 354242002842 active site 354242002843 haemagglutination activity domain; Region: Haemagg_act; smart00912 354242002844 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 354242002845 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 354242002846 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 354242002847 Surface antigen; Region: Bac_surface_Ag; pfam01103 354242002848 Methyltransferase domain; Region: Methyltransf_23; pfam13489 354242002849 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 354242002850 S-adenosylmethionine binding site [chemical binding]; other site 354242002851 HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PaaI; COG2050 354242002852 active site 1 [active] 354242002853 active site 2 [active] 354242002854 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 354242002855 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 354242002856 Catalytic site; other site 354242002857 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 354242002858 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 354242002859 metal binding site [ion binding]; metal-binding site 354242002860 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 354242002861 metabolite-proton symporter; Region: 2A0106; TIGR00883 354242002862 putative substrate translocation pore; other site 354242002863 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 354242002864 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 354242002865 substrate binding pocket [chemical binding]; other site 354242002866 membrane-bound complex binding site; other site 354242002867 hinge residues; other site 354242002868 Protein of unknown function (DUF328); Region: DUF328; cl01143 354242002869 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 354242002870 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 354242002871 metal binding site [ion binding]; metal-binding site 354242002872 putative dimer interface [polypeptide binding]; other site 354242002873 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 354242002874 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 354242002875 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 354242002876 Cysteine-rich domain; Region: CCG; pfam02754 354242002877 Cysteine-rich domain; Region: CCG; pfam02754 354242002878 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 354242002879 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 354242002880 FeS/SAM binding site; other site 354242002881 HemN C-terminal domain; Region: HemN_C; pfam06969 354242002882 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 354242002883 ornithine carbamoyltransferase; Provisional; Region: PRK00779 354242002884 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 354242002885 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 354242002886 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 354242002887 dimer interface [polypeptide binding]; other site 354242002888 active site 354242002889 Schiff base residues; other site 354242002890 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 354242002891 dimerization interface [polypeptide binding]; other site 354242002892 active site 354242002893 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 354242002894 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 354242002895 Conserved hypothetical protein 698; Region: Cons_hypoth698; pfam03601 354242002896 Transcriptional regulator [Transcription]; Region: LysR; COG0583 354242002897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 354242002898 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 354242002899 dimerization interface [polypeptide binding]; other site 354242002900 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 354242002901 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 354242002902 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 354242002903 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 354242002904 DNA binding residues [nucleotide binding] 354242002905 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 354242002906 catalytic core [active] 354242002907 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 354242002908 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 354242002909 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 354242002910 Walker A motif; other site 354242002911 ATP binding site [chemical binding]; other site 354242002912 Walker B motif; other site 354242002913 arginine finger; other site 354242002914 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 354242002915 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 354242002916 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 354242002917 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 354242002918 Mechanosensitive ion channel; Region: MS_channel; pfam00924 354242002919 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 354242002920 active site 354242002921 dimer interface [polypeptide binding]; other site 354242002922 metal binding site [ion binding]; metal-binding site 354242002923 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 354242002924 TrkA-C domain; Region: TrkA_C; pfam02080 354242002925 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 354242002926 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 354242002927 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 354242002928 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 354242002929 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 354242002930 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 354242002931 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 354242002932 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 354242002933 Walker A/P-loop; other site 354242002934 ATP binding site [chemical binding]; other site 354242002935 Q-loop/lid; other site 354242002936 ABC transporter signature motif; other site 354242002937 Walker B; other site 354242002938 D-loop; other site 354242002939 H-loop/switch region; other site 354242002940 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 354242002941 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 354242002942 Walker A/P-loop; other site 354242002943 ATP binding site [chemical binding]; other site 354242002944 Q-loop/lid; other site 354242002945 ABC transporter signature motif; other site 354242002946 Walker B; other site 354242002947 D-loop; other site 354242002948 H-loop/switch region; other site 354242002949 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 354242002950 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 354242002951 TM-ABC transporter signature motif; other site 354242002952 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 354242002953 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 354242002954 TM-ABC transporter signature motif; other site 354242002955 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 354242002956 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 354242002957 putative ligand binding site [chemical binding]; other site 354242002958 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 354242002959 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 354242002960 putative ligand binding site [chemical binding]; other site 354242002961 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 354242002962 Cytochrome c; Region: Cytochrom_C; cl11414 354242002963 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 354242002964 Predicted membrane protein [Function unknown]; Region: COG2862 354242002965 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 354242002966 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 354242002967 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 354242002968 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 354242002969 active site 354242002970 phosphorylation site [posttranslational modification] 354242002971 intermolecular recognition site; other site 354242002972 dimerization interface [polypeptide binding]; other site 354242002973 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 354242002974 Walker A motif; other site 354242002975 ATP binding site [chemical binding]; other site 354242002976 Walker B motif; other site 354242002977 arginine finger; other site 354242002978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 354242002979 DNA gyrase subunit A; Validated; Region: PRK05560 354242002980 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 354242002981 CAP-like domain; other site 354242002982 active site 354242002983 primary dimer interface [polypeptide binding]; other site 354242002984 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 354242002985 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 354242002986 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 354242002987 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 354242002988 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 354242002989 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 354242002990 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 354242002991 active site 354242002992 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 354242002993 GTP-binding protein LepA; Provisional; Region: PRK05433 354242002994 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 354242002995 G1 box; other site 354242002996 putative GEF interaction site [polypeptide binding]; other site 354242002997 GTP/Mg2+ binding site [chemical binding]; other site 354242002998 Switch I region; other site 354242002999 G2 box; other site 354242003000 G3 box; other site 354242003001 Switch II region; other site 354242003002 G4 box; other site 354242003003 G5 box; other site 354242003004 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 354242003005 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 354242003006 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 354242003007 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 354242003008 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 354242003009 HlyD family secretion protein; Region: HlyD_3; pfam13437 354242003010 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 354242003011 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 354242003012 HSP70 interaction site [polypeptide binding]; other site 354242003013 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 354242003014 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 354242003015 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 354242003016 acetyl-CoA carboxylase subunit A; Validated; Region: PRK08463 354242003017 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 354242003018 ATP-grasp domain; Region: ATP-grasp_4; cl17255 354242003019 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 354242003020 cell division protein FtsW; Region: ftsW; TIGR02614 354242003021 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 354242003022 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 354242003023 active site 354242003024 homodimer interface [polypeptide binding]; other site 354242003025 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 354242003026 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 354242003027 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 354242003028 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 354242003029 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 354242003030 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 354242003031 thiamine phosphate binding site [chemical binding]; other site 354242003032 active site 354242003033 pyrophosphate binding site [ion binding]; other site 354242003034 thiazole biosynthesis protein ThiH; Region: thiH; TIGR02351 354242003035 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 354242003036 FeS/SAM binding site; other site 354242003037 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 354242003038 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 354242003039 ThiS interaction site; other site 354242003040 putative active site [active] 354242003041 tetramer interface [polypeptide binding]; other site 354242003042 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 354242003043 thiamine biosynthesis protein ThiF, family 2; Region: thiF_fam2; TIGR02354 354242003044 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 354242003045 putative ATP binding site [chemical binding]; other site 354242003046 putative substrate interface [chemical binding]; other site 354242003047 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 354242003048 thiS-thiF/thiG interaction site; other site 354242003049 succinyl-diaminopimelate desuccinylase, proteobacterial clade; Region: dapE_proteo; TIGR01246 354242003050 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 354242003051 metal binding site [ion binding]; metal-binding site 354242003052 dimer interface [polypeptide binding]; other site 354242003053 LysE type translocator; Region: LysE; pfam01810 354242003054 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 354242003055 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 354242003056 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 354242003057 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 354242003058 Walker A/P-loop; other site 354242003059 ATP binding site [chemical binding]; other site 354242003060 Q-loop/lid; other site 354242003061 ABC transporter signature motif; other site 354242003062 Walker B; other site 354242003063 D-loop; other site 354242003064 H-loop/switch region; other site 354242003065 Smr domain; Region: Smr; pfam01713 354242003066 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 354242003067 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 354242003068 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 354242003069 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 354242003070 Sulfatase; Region: Sulfatase; cl17466 354242003071 Predicted amidohydrolase [General function prediction only]; Region: COG0388 354242003072 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 354242003073 active site 354242003074 catalytic triad [active] 354242003075 dimer interface [polypeptide binding]; other site 354242003076 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 354242003077 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 354242003078 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 354242003079 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 354242003080 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 354242003081 active site 354242003082 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 354242003083 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 354242003084 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 354242003085 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 354242003086 active site 354242003087 HIGH motif; other site 354242003088 nucleotide binding site [chemical binding]; other site 354242003089 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 354242003090 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 354242003091 active site 354242003092 KMSKS motif; other site 354242003093 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 354242003094 tRNA binding surface [nucleotide binding]; other site 354242003095 anticodon binding site; other site 354242003096 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 354242003097 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 354242003098 Coenzyme A binding pocket [chemical binding]; other site 354242003099 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 354242003100 dimer interface [polypeptide binding]; other site 354242003101 FMN binding site [chemical binding]; other site 354242003102 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 354242003103 dimer interface [polypeptide binding]; other site 354242003104 FMN binding site [chemical binding]; other site 354242003105 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 354242003106 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 354242003107 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 354242003108 active site 354242003109 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 354242003110 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 354242003111 putative substrate binding region [chemical binding]; other site 354242003112 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 354242003113 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 354242003114 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 354242003115 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 354242003116 dimer interface [polypeptide binding]; other site 354242003117 ssDNA binding site [nucleotide binding]; other site 354242003118 tetramer (dimer of dimers) interface [polypeptide binding]; other site 354242003119 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 354242003120 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 354242003121 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 354242003122 Walker A motif; other site 354242003123 ATP binding site [chemical binding]; other site 354242003124 Walker B motif; other site 354242003125 arginine finger; other site 354242003126 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 354242003127 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 354242003128 flagellar assembly protein FliW; Provisional; Region: PRK13282 354242003129 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 354242003130 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 354242003131 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 354242003132 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 354242003133 active site 354242003134 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 354242003135 thiamine phosphate binding site [chemical binding]; other site 354242003136 active site 354242003137 pyrophosphate binding site [ion binding]; other site 354242003138 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 354242003139 substrate binding site [chemical binding]; other site 354242003140 dimer interface [polypeptide binding]; other site 354242003141 ATP binding site [chemical binding]; other site 354242003142 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 354242003143 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 354242003144 minor groove reading motif; other site 354242003145 helix-hairpin-helix signature motif; other site 354242003146 active site 354242003147 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 354242003148 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 354242003149 Walker A motif; other site 354242003150 ATP binding site [chemical binding]; other site 354242003151 Walker B motif; other site 354242003152 arginine finger; other site 354242003153 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 354242003154 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 354242003155 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 354242003156 ATP binding site [chemical binding]; other site 354242003157 putative Mg++ binding site [ion binding]; other site 354242003158 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 354242003159 nucleotide binding region [chemical binding]; other site 354242003160 ATP-binding site [chemical binding]; other site 354242003161 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 354242003162 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 354242003163 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 354242003164 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 354242003165 Peptidase family M23; Region: Peptidase_M23; pfam01551 354242003166 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 354242003167 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 354242003168 Lipopolysaccharide-assembly; Region: LptE; pfam04390 354242003169 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 354242003170 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 354242003171 HIGH motif; other site 354242003172 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 354242003173 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 354242003174 active site 354242003175 KMSKS motif; other site 354242003176 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 354242003177 tRNA binding surface [nucleotide binding]; other site 354242003178 anticodon binding site; other site 354242003179 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 354242003180 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 354242003181 Protein export membrane protein; Region: SecD_SecF; pfam02355 354242003182 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 354242003183 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 354242003184 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 354242003185 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 354242003186 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 354242003187 active site 354242003188 catalytic triad [active] 354242003189 dimer interface [polypeptide binding]; other site 354242003190 S-adenosylmethionine synthetase; Validated; Region: PRK05250 354242003191 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 354242003192 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 354242003193 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 354242003194 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 354242003195 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 354242003196 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 354242003197 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 354242003198 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 354242003199 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 354242003200 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 354242003201 active site 354242003202 Zn binding site [ion binding]; other site 354242003203 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 354242003204 Part of AAA domain; Region: AAA_19; pfam13245 354242003205 Family description; Region: UvrD_C_2; pfam13538 354242003206 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK04099 354242003207 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 354242003208 active site 354242003209 RNA-binding global regulator CsrA [Signal transduction mechanisms]; Region: CsrA; COG1551 354242003210 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 354242003211 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 354242003212 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 354242003213 SmpB-tmRNA interface; other site 354242003214 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 354242003215 catalytic residues [active] 354242003216 Uncharacterized conserved protein [Function unknown]; Region: COG2127 354242003217 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 354242003218 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 354242003219 Walker A motif; other site 354242003220 ATP binding site [chemical binding]; other site 354242003221 Walker B motif; other site 354242003222 arginine finger; other site 354242003223 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 354242003224 Walker A motif; other site 354242003225 ATP binding site [chemical binding]; other site 354242003226 Walker B motif; other site 354242003227 arginine finger; other site 354242003228 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 354242003229 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 354242003230 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 354242003231 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 354242003232 putative active site [active] 354242003233 heme pocket [chemical binding]; other site 354242003234 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 354242003235 putative active site [active] 354242003236 heme pocket [chemical binding]; other site 354242003237 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 354242003238 dimer interface [polypeptide binding]; other site 354242003239 putative CheW interface [polypeptide binding]; other site 354242003240 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 354242003241 methionine sulfoxide reductase B; Provisional; Region: PRK05508 354242003242 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 354242003243 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 354242003244 dinuclear metal binding motif [ion binding]; other site 354242003245 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 354242003246 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 354242003247 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 354242003248 Phosphatidylserine decarboxylase [Lipid metabolism]; Region: Psd; COG0688 354242003249 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 354242003250 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 354242003251 Walker A motif; other site 354242003252 ATP binding site [chemical binding]; other site 354242003253 Walker B motif; other site 354242003254 arginine finger; other site 354242003255 Peptidase family M41; Region: Peptidase_M41; pfam01434 354242003256 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 354242003257 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 354242003258 S-adenosylmethionine binding site [chemical binding]; other site 354242003259 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 354242003260 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 354242003261 active site 354242003262 phosphorylation site [posttranslational modification] 354242003263 intermolecular recognition site; other site 354242003264 dimerization interface [polypeptide binding]; other site 354242003265 Cache domain; Region: Cache_1; pfam02743 354242003266 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 354242003267 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 354242003268 NAD(P) binding site [chemical binding]; other site 354242003269 homodimer interface [polypeptide binding]; other site 354242003270 substrate binding site [chemical binding]; other site 354242003271 active site 354242003272 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 354242003273 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 354242003274 inhibitor-cofactor binding pocket; inhibition site 354242003275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242003276 catalytic residue [active] 354242003277 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 354242003278 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 354242003279 putative trimer interface [polypeptide binding]; other site 354242003280 putative CoA binding site [chemical binding]; other site 354242003281 Bacterial sugar transferase; Region: Bac_transf; pfam02397 354242003282 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 354242003283 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 354242003284 putative ADP-binding pocket [chemical binding]; other site 354242003285 Oligosaccharyl transferase STT3 subunit; Region: STT3; pfam02516 354242003286 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 354242003287 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 354242003288 putative ADP-binding pocket [chemical binding]; other site 354242003289 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 354242003290 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 354242003291 active site 354242003292 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 354242003293 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 354242003294 putative ADP-binding pocket [chemical binding]; other site 354242003295 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 354242003296 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 354242003297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 354242003298 Walker A/P-loop; other site 354242003299 ATP binding site [chemical binding]; other site 354242003300 Q-loop/lid; other site 354242003301 ABC transporter signature motif; other site 354242003302 Walker B; other site 354242003303 D-loop; other site 354242003304 H-loop/switch region; other site 354242003305 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 354242003306 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 354242003307 NAD binding site [chemical binding]; other site 354242003308 homodimer interface [polypeptide binding]; other site 354242003309 active site 354242003310 substrate binding site [chemical binding]; other site 354242003311 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 354242003312 active site 354242003313 catalytic site [active] 354242003314 substrate binding site [chemical binding]; other site 354242003315 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 354242003316 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 354242003317 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 354242003318 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 354242003319 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 354242003320 putative active site [active] 354242003321 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 354242003322 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 354242003323 putative acyl-acceptor binding pocket; other site 354242003324 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 354242003325 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 354242003326 putative metal binding site; other site 354242003327 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 354242003328 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 354242003329 Substrate binding site; other site 354242003330 metal-binding site 354242003331 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 354242003332 active site 354242003333 Beta-1,4-N-acetylgalactosaminyltransferase (CgtA); Region: CgtA; pfam06306 354242003334 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 354242003335 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 354242003336 active site 354242003337 Alpha-2,3-sialyltransferase (CST-I); Region: CST-I; pfam06002 354242003338 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 354242003339 NeuB family; Region: NeuB; pfam03102 354242003340 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 354242003341 NeuB binding interface [polypeptide binding]; other site 354242003342 putative substrate binding site [chemical binding]; other site 354242003343 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 354242003344 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 354242003345 active site 354242003346 homodimer interface [polypeptide binding]; other site 354242003347 Beta-1,4-N-acetylgalactosaminyltransferase (CgtA); Region: CgtA; pfam06306 354242003348 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 354242003349 ligand binding site; other site 354242003350 tetramer interface; other site 354242003351 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 354242003352 trimer interface [polypeptide binding]; other site 354242003353 active site 354242003354 substrate binding site [chemical binding]; other site 354242003355 CoA binding site [chemical binding]; other site 354242003356 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 354242003357 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 354242003358 active site 354242003359 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 354242003360 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 354242003361 putative active site [active] 354242003362 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 354242003363 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 354242003364 dimer interface [polypeptide binding]; other site 354242003365 active site 354242003366 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 354242003367 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 354242003368 putative ribose interaction site [chemical binding]; other site 354242003369 putative ADP binding site [chemical binding]; other site 354242003370 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 354242003371 active site 354242003372 nucleotide binding site [chemical binding]; other site 354242003373 HIGH motif; other site 354242003374 KMSKS motif; other site 354242003375 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 354242003376 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 354242003377 NAD(P) binding site [chemical binding]; other site 354242003378 active site 354242003379 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 354242003380 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 354242003381 active site 354242003382 motif I; other site 354242003383 motif II; other site 354242003384 Cytochrome c553 [Energy production and conversion]; Region: COG2863 354242003385 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 354242003386 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 354242003387 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 354242003388 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 354242003389 metal-binding site [ion binding] 354242003390 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 354242003391 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 354242003392 motif II; other site 354242003393 transcription termination factor Rho; Provisional; Region: rho; PRK09376 354242003394 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 354242003395 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 354242003396 RNA binding site [nucleotide binding]; other site 354242003397 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 354242003398 multimer interface [polypeptide binding]; other site 354242003399 Walker A motif; other site 354242003400 ATP binding site [chemical binding]; other site 354242003401 Walker B motif; other site 354242003402 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 354242003403 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 354242003404 Walker A motif; other site 354242003405 ATP binding site [chemical binding]; other site 354242003406 DNA polymerase III subunit delta'; Validated; Region: PRK08485 354242003407 Walker B motif; other site 354242003408 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 354242003409 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 354242003410 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 354242003411 metal-binding site [ion binding] 354242003412 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 354242003413 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 354242003414 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 354242003415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 354242003416 Uncharacterized conserved protein [Function unknown]; Region: COG3610 354242003417 Uncharacterized conserved protein [Function unknown]; Region: COG2966 354242003418 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 354242003419 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 354242003420 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 354242003421 NAD binding site [chemical binding]; other site 354242003422 dimer interface [polypeptide binding]; other site 354242003423 tetramer (dimer of dimers) interface [polypeptide binding]; other site 354242003424 substrate binding site [chemical binding]; other site 354242003425 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 354242003426 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 354242003427 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 354242003428 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 354242003429 active site 354242003430 hypothetical protein; Provisional; Region: PRK12378 354242003431 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 354242003432 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 354242003433 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 354242003434 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 354242003435 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 354242003436 active site 354242003437 HIGH motif; other site 354242003438 KMSK motif region; other site 354242003439 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 354242003440 tRNA binding surface [nucleotide binding]; other site 354242003441 anticodon binding site; other site 354242003442 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 354242003443 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 354242003444 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 354242003445 catalytic site [active] 354242003446 G-X2-G-X-G-K; other site 354242003447 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 354242003448 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 354242003449 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 354242003450 Walker A/P-loop; other site 354242003451 ATP binding site [chemical binding]; other site 354242003452 Q-loop/lid; other site 354242003453 ABC transporter signature motif; other site 354242003454 Walker B; other site 354242003455 D-loop; other site 354242003456 H-loop/switch region; other site 354242003457 elongation factor Ts; Provisional; Region: tsf; PRK09377 354242003458 UBA/TS-N domain; Region: UBA; pfam00627 354242003459 Elongation factor TS; Region: EF_TS; pfam00889 354242003460 Elongation factor TS; Region: EF_TS; pfam00889 354242003461 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 354242003462 rRNA interaction site [nucleotide binding]; other site 354242003463 S8 interaction site; other site 354242003464 putative laminin-1 binding site; other site 354242003465 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 354242003466 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 354242003467 S-adenosylmethionine binding site [chemical binding]; other site 354242003468 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 354242003469 Cytochrome c; Region: Cytochrom_C; pfam00034 354242003470 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 354242003471 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 354242003472 intrachain domain interface; other site 354242003473 interchain domain interface [polypeptide binding]; other site 354242003474 heme bH binding site [chemical binding]; other site 354242003475 Qi binding site; other site 354242003476 heme bL binding site [chemical binding]; other site 354242003477 Qo binding site; other site 354242003478 interchain domain interface [polypeptide binding]; other site 354242003479 intrachain domain interface; other site 354242003480 Qi binding site; other site 354242003481 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 354242003482 Qo binding site; other site 354242003483 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 354242003484 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 354242003485 [2Fe-2S] cluster binding site [ion binding]; other site 354242003486 arsenical pump membrane protein; Provisional; Region: PRK15445 354242003487 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 354242003488 transmembrane helices; other site 354242003489 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 354242003490 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 354242003491 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 354242003492 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 354242003493 PAS domain; Region: PAS_9; pfam13426 354242003494 putative active site [active] 354242003495 heme pocket [chemical binding]; other site 354242003496 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 354242003497 dimer interface [polypeptide binding]; other site 354242003498 putative CheW interface [polypeptide binding]; other site 354242003499 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 354242003500 PAS domain; Region: PAS_9; pfam13426 354242003501 putative active site [active] 354242003502 heme pocket [chemical binding]; other site 354242003503 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 354242003504 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 354242003505 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 354242003506 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 354242003507 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 354242003508 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 354242003509 dihydroorotase; Provisional; Region: PRK08417 354242003510 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 354242003511 active site 354242003512 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 354242003513 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 354242003514 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 354242003515 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 354242003516 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 354242003517 GatB domain; Region: GatB_Yqey; smart00845 354242003518 S-ribosylhomocysteinase; Provisional; Region: PRK02260 354242003519 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 354242003520 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 354242003521 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 354242003522 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 354242003523 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 354242003524 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 354242003525 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 354242003526 THF binding site; other site 354242003527 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 354242003528 substrate binding site [chemical binding]; other site 354242003529 THF binding site; other site 354242003530 zinc-binding site [ion binding]; other site 354242003531 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 354242003532 FAD binding site [chemical binding]; other site 354242003533 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 354242003534 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 354242003535 DNA repair protein RadA; Provisional; Region: PRK11823 354242003536 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 354242003537 Walker A motif; other site 354242003538 ATP binding site [chemical binding]; other site 354242003539 Walker B motif; other site 354242003540 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 354242003541 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 354242003542 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 354242003543 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 354242003544 P loop; other site 354242003545 GTP binding site [chemical binding]; other site 354242003546 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 354242003547 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 354242003548 catalytic residues [active] 354242003549 phosphodiesterase; Provisional; Region: PRK12704 354242003550 KH domain; Region: KH_1; pfam00013 354242003551 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 354242003552 Zn2+ binding site [ion binding]; other site 354242003553 Mg2+ binding site [ion binding]; other site 354242003554 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 354242003555 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 354242003556 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 354242003557 FAD binding domain; Region: FAD_binding_4; pfam01565 354242003558 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 354242003559 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 354242003560 Peptidase family M23; Region: Peptidase_M23; pfam01551 354242003561 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 354242003562 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 354242003563 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 354242003564 Lumazine binding domain; Region: Lum_binding; pfam00677 354242003565 Lumazine binding domain; Region: Lum_binding; pfam00677 354242003566 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 354242003567 oligomerisation interface [polypeptide binding]; other site 354242003568 mobile loop; other site 354242003569 roof hairpin; other site 354242003570 chaperonin GroL; Region: GroEL; TIGR02348 354242003571 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 354242003572 ring oligomerisation interface [polypeptide binding]; other site 354242003573 ATP/Mg binding site [chemical binding]; other site 354242003574 stacking interactions; other site 354242003575 hinge regions; other site 354242003576 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 354242003577 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 354242003578 dimer interface [polypeptide binding]; other site 354242003579 phosphorylation site [posttranslational modification] 354242003580 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 354242003581 ATP binding site [chemical binding]; other site 354242003582 Mg2+ binding site [ion binding]; other site 354242003583 G-X-G motif; other site 354242003584 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 354242003585 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 354242003586 active site 354242003587 phosphorylation site [posttranslational modification] 354242003588 intermolecular recognition site; other site 354242003589 dimerization interface [polypeptide binding]; other site 354242003590 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 354242003591 DNA binding site [nucleotide binding] 354242003592 Hemerythrin; Region: Hemerythrin; cd12107 354242003593 Fe binding site [ion binding]; other site 354242003594 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 354242003595 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 354242003596 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 354242003597 dimer interface [polypeptide binding]; other site 354242003598 phosphorylation site [posttranslational modification] 354242003599 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 354242003600 ATP binding site [chemical binding]; other site 354242003601 Mg2+ binding site [ion binding]; other site 354242003602 G-X-G motif; other site 354242003603 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 354242003604 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 354242003605 active site 354242003606 phosphorylation site [posttranslational modification] 354242003607 intermolecular recognition site; other site 354242003608 dimerization interface [polypeptide binding]; other site 354242003609 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 354242003610 DNA binding site [nucleotide binding] 354242003611 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 354242003612 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 354242003613 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 354242003614 protein binding site [polypeptide binding]; other site 354242003615 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 354242003616 protein binding site [polypeptide binding]; other site 354242003617 chaperone protein DnaJ; Provisional; Region: PRK14299 354242003618 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 354242003619 HSP70 interaction site [polypeptide binding]; other site 354242003620 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 354242003621 substrate binding site [polypeptide binding]; other site 354242003622 dimer interface [polypeptide binding]; other site 354242003623 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 354242003624 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 354242003625 DNA binding residues [nucleotide binding] 354242003626 putative dimer interface [polypeptide binding]; other site 354242003627 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 354242003628 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 354242003629 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 354242003630 TrkA-N domain; Region: TrkA_N; pfam02254 354242003631 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 354242003632 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 354242003633 motif II; other site 354242003634 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 354242003635 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 354242003636 Peptidase family M23; Region: Peptidase_M23; pfam01551 354242003637 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 354242003638 exopolyphosphatase; Region: exo_poly_only; TIGR03706 354242003639 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 354242003640 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 354242003641 active site 354242003642 hydrophilic channel; other site 354242003643 dimerization interface [polypeptide binding]; other site 354242003644 catalytic residues [active] 354242003645 active site lid [active] 354242003646 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 354242003647 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 354242003648 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 354242003649 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 354242003650 putative substrate translocation pore; other site 354242003651 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 354242003652 substrate binding site [chemical binding]; other site 354242003653 active site 354242003654 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 354242003655 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 354242003656 FeS/SAM binding site; other site 354242003657 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 354242003658 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 354242003659 GIY-YIG motif/motif A; other site 354242003660 active site 354242003661 catalytic site [active] 354242003662 putative DNA binding site [nucleotide binding]; other site 354242003663 metal binding site [ion binding]; metal-binding site 354242003664 UvrB/uvrC motif; Region: UVR; pfam02151 354242003665 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 354242003666 GMP synthase; Reviewed; Region: guaA; PRK00074 354242003667 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 354242003668 AMP/PPi binding site [chemical binding]; other site 354242003669 candidate oxyanion hole; other site 354242003670 catalytic triad [active] 354242003671 potential glutamine specificity residues [chemical binding]; other site 354242003672 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 354242003673 ATP Binding subdomain [chemical binding]; other site 354242003674 Ligand Binding sites [chemical binding]; other site 354242003675 Dimerization subdomain; other site 354242003676 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 354242003677 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 354242003678 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 354242003679 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 354242003680 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 354242003681 Predicted membrane protein/domain [Function unknown]; Region: COG1714 354242003682 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 354242003683 OstA-like protein; Region: OstA; cl00844 354242003684 Organic solvent tolerance protein; Region: OstA_C; pfam04453 354242003685 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 354242003686 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 354242003687 oligomer interface [polypeptide binding]; other site 354242003688 RNA binding site [nucleotide binding]; other site 354242003689 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 354242003690 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 354242003691 RNase E interface [polypeptide binding]; other site 354242003692 trimer interface [polypeptide binding]; other site 354242003693 active site 354242003694 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 354242003695 putative nucleic acid binding region [nucleotide binding]; other site 354242003696 G-X-X-G motif; other site 354242003697 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 354242003698 RNA binding site [nucleotide binding]; other site 354242003699 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 354242003700 putative active site [active] 354242003701 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 354242003702 active site 1 [active] 354242003703 dimer interface [polypeptide binding]; other site 354242003704 hexamer interface [polypeptide binding]; other site 354242003705 active site 2 [active] 354242003706 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 354242003707 drug efflux system protein MdtG; Provisional; Region: PRK09874 354242003708 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 354242003709 putative substrate translocation pore; other site 354242003710 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 354242003711 Low molecular weight phosphatase family; Region: LMWPc; cd00115 354242003712 active site 354242003713 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 354242003714 chaperone protein DnaJ; Provisional; Region: PRK10767 354242003715 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 354242003716 HSP70 interaction site [polypeptide binding]; other site 354242003717 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 354242003718 substrate binding site [polypeptide binding]; other site 354242003719 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 354242003720 Zn binding sites [ion binding]; other site 354242003721 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 354242003722 dimer interface [polypeptide binding]; other site 354242003723 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 354242003724 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 354242003725 active site 354242003726 phosphorylation site [posttranslational modification] 354242003727 intermolecular recognition site; other site 354242003728 dimerization interface [polypeptide binding]; other site 354242003729 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 354242003730 DNA binding site [nucleotide binding] 354242003731 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 354242003732 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 354242003733 dimer interface [polypeptide binding]; other site 354242003734 phosphorylation site [posttranslational modification] 354242003735 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 354242003736 ATP binding site [chemical binding]; other site 354242003737 Mg2+ binding site [ion binding]; other site 354242003738 G-X-G motif; other site 354242003739 recombination protein RecR; Reviewed; Region: recR; PRK00076 354242003740 RecR protein; Region: RecR; pfam02132 354242003741 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 354242003742 putative active site [active] 354242003743 putative metal-binding site [ion binding]; other site 354242003744 tetramer interface [polypeptide binding]; other site 354242003745 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 354242003746 putative substrate-binding site; other site 354242003747 nickel binding site [ion binding]; other site 354242003748 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 354242003749 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 354242003750 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 354242003751 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 354242003752 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 354242003753 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 354242003754 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 354242003755 Uncharacterized conserved protein [Function unknown]; Region: COG4121 354242003756 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 354242003757 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 354242003758 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 354242003759 active site 354242003760 metal binding site [ion binding]; metal-binding site 354242003761 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 354242003762 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 354242003763 FMN binding site [chemical binding]; other site 354242003764 substrate binding site [chemical binding]; other site 354242003765 putative catalytic residue [active] 354242003766 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 354242003767 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 354242003768 active site 354242003769 HIGH motif; other site 354242003770 dimer interface [polypeptide binding]; other site 354242003771 KMSKS motif; other site 354242003772 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 354242003773 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 354242003774 Zn2+ binding site [ion binding]; other site 354242003775 Mg2+ binding site [ion binding]; other site 354242003776 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 354242003777 synthetase active site [active] 354242003778 NTP binding site [chemical binding]; other site 354242003779 metal binding site [ion binding]; metal-binding site 354242003780 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 354242003781 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 354242003782 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 354242003783 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 354242003784 putative nucleotide binding site [chemical binding]; other site 354242003785 uridine monophosphate binding site [chemical binding]; other site 354242003786 homohexameric interface [polypeptide binding]; other site 354242003787 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 354242003788 Peptidase family M23; Region: Peptidase_M23; pfam01551 354242003789 FtsX-like permease family; Region: FtsX; pfam02687 354242003790 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 354242003791 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 354242003792 Walker A/P-loop; other site 354242003793 ATP binding site [chemical binding]; other site 354242003794 Q-loop/lid; other site 354242003795 ABC transporter signature motif; other site 354242003796 Walker B; other site 354242003797 D-loop; other site 354242003798 H-loop/switch region; other site 354242003799 tRNA (guanine-N(7)-)-methyltransferase; Provisional; Region: PRK14121 354242003800 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 354242003801 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 354242003802 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 354242003803 Interdomain contacts; other site 354242003804 Cytokine receptor motif; other site 354242003805 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 354242003806 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 354242003807 RNA binding surface [nucleotide binding]; other site 354242003808 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 354242003809 active site 354242003810 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 354242003811 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 354242003812 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 354242003813 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 354242003814 TrkA-N domain; Region: TrkA_N; pfam02254 354242003815 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 354242003816 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 354242003817 active site 354242003818 Malic enzyme, N-terminal domain; Region: malic; pfam00390 354242003819 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 354242003820 putative NAD(P) binding site [chemical binding]; other site 354242003821 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 354242003822 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 354242003823 active site 354242003824 HIGH motif; other site 354242003825 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 354242003826 active site 354242003827 KMSKS motif; other site 354242003828 SurA N-terminal domain; Region: SurA_N; pfam09312 354242003829 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 354242003830 biotin carboxylase; Validated; Region: PRK08462 354242003831 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 354242003832 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 354242003833 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 354242003834 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 354242003835 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 354242003836 carboxyltransferase (CT) interaction site; other site 354242003837 biotinylation site [posttranslational modification]; other site 354242003838 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 354242003839 trimer interface [polypeptide binding]; other site 354242003840 active site 354242003841 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 354242003842 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 354242003843 NAD(P) binding site [chemical binding]; other site 354242003844 homodimer interface [polypeptide binding]; other site 354242003845 substrate binding site [chemical binding]; other site 354242003846 active site 354242003847 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 354242003848 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 354242003849 inhibitor-cofactor binding pocket; inhibition site 354242003850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242003851 catalytic residue [active] 354242003852 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 354242003853 metal binding site [ion binding]; metal-binding site 354242003854 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 354242003855 Methyltransferase domain; Region: Methyltransf_23; pfam13489 354242003856 Methyltransferase domain; Region: Methyltransf_12; pfam08242 354242003857 Aminoglycoside N3'-acetyltransferase [Defense mechanisms]; Region: COG2746 354242003858 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 354242003859 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 354242003860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 354242003861 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 354242003862 HAD-superfamily phosphatase, subfamily IIIC; Region: HAD-SF-IIIC; TIGR01681 354242003863 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12880 354242003864 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 354242003865 dimer interface [polypeptide binding]; other site 354242003866 active site 354242003867 CoA binding pocket [chemical binding]; other site 354242003868 Phosphopantetheine attachment site; Region: PP-binding; cl09936 354242003869 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 354242003870 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 354242003871 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 354242003872 acyl-activating enzyme (AAE) consensus motif; other site 354242003873 AMP binding site [chemical binding]; other site 354242003874 active site 354242003875 CoA binding site [chemical binding]; other site 354242003876 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 354242003877 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 354242003878 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 354242003879 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 354242003880 ligand binding site; other site 354242003881 tetramer interface; other site 354242003882 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 354242003883 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 354242003884 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 354242003885 Coenzyme A binding pocket [chemical binding]; other site 354242003886 imidazole glycerol phosphate synthase subunit HisF; Provisional; Region: PRK01033 354242003887 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 354242003888 substrate binding site [chemical binding]; other site 354242003889 glutamase interaction surface [polypeptide binding]; other site 354242003890 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13152 354242003891 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 354242003892 putative active site [active] 354242003893 oxyanion strand; other site 354242003894 catalytic triad [active] 354242003895 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 354242003896 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 354242003897 Ligand Binding Site [chemical binding]; other site 354242003898 pseudaminic acid synthase; Region: PseI; TIGR03586 354242003899 NeuB family; Region: NeuB; pfam03102 354242003900 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 354242003901 NeuB binding interface [polypeptide binding]; other site 354242003902 putative substrate binding site [chemical binding]; other site 354242003903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 354242003904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 354242003905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 354242003906 flagellin; Provisional; Region: PRK13589 354242003907 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 354242003908 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 354242003909 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 354242003910 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 354242003911 flagellin; Reviewed; Region: PRK08411 354242003912 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 354242003913 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 354242003914 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 354242003915 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 354242003916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 354242003917 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 354242003918 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 354242003919 UGMP family protein; Validated; Region: PRK09604 354242003920 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 354242003921 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 354242003922 active site 354242003923 Zn binding site [ion binding]; other site 354242003924 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]; Region: Dxr; COG0743 354242003925 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 354242003926 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 354242003927 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 354242003928 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 354242003929 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 354242003930 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 354242003931 Domain of unknown function (DUF814); Region: DUF814; pfam05670 354242003932 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 354242003933 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 354242003934 GTP binding site; other site 354242003935 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 354242003936 dimerization interface [polypeptide binding]; other site 354242003937 substrate binding site [chemical binding]; other site 354242003938 active site 354242003939 calcium binding site [ion binding]; other site 354242003940 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 354242003941 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 354242003942 ABC-ATPase subunit interface; other site 354242003943 dimer interface [polypeptide binding]; other site 354242003944 putative PBP binding regions; other site 354242003945 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 354242003946 ABC-ATPase subunit interface; other site 354242003947 dimer interface [polypeptide binding]; other site 354242003948 putative PBP binding regions; other site 354242003949 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 354242003950 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 354242003951 Walker A/P-loop; other site 354242003952 ATP binding site [chemical binding]; other site 354242003953 Q-loop/lid; other site 354242003954 ABC transporter signature motif; other site 354242003955 Walker B; other site 354242003956 D-loop; other site 354242003957 H-loop/switch region; other site 354242003958 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 354242003959 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 354242003960 putative ligand binding residues [chemical binding]; other site 354242003961 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 354242003962 Formate-dependent nitrite reductase, periplasmic cytochrome c552 subunit [Inorganic ion transport and metabolism]; Region: NrfA; COG3303 354242003963 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 354242003964 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 354242003965 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 354242003966 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 354242003967 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 354242003968 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 354242003969 putative domain interface [polypeptide binding]; other site 354242003970 putative active site [active] 354242003971 catalytic site [active] 354242003972 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 354242003973 putative domain interface [polypeptide binding]; other site 354242003974 putative active site [active] 354242003975 catalytic site [active] 354242003976 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 354242003977 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 354242003978 Walker A motif; other site 354242003979 ATP binding site [chemical binding]; other site 354242003980 Walker B motif; other site 354242003981 arginine finger; other site 354242003982 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 354242003983 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 354242003984 Domain of unknown function DUF20; Region: UPF0118; pfam01594 354242003985 fumarate hydratase; Reviewed; Region: fumC; PRK00485 354242003986 Class II fumarases; Region: Fumarase_classII; cd01362 354242003987 active site 354242003988 tetramer interface [polypeptide binding]; other site 354242003989 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 354242003990 catalytic triad [active] 354242003991 putative active site [active] 354242003992 autotransporter-associated beta strand repeat; Region: autotrns_rpt; TIGR02601 354242003993 Autotransporter beta-domain; Region: Autotransporter; pfam03797 354242003994 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 354242003995 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 354242003996 glutaminase active site [active] 354242003997 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 354242003998 dimer interface [polypeptide binding]; other site 354242003999 active site 354242004000 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 354242004001 dimer interface [polypeptide binding]; other site 354242004002 active site 354242004003 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 354242004004 hypothetical protein; Provisional; Region: PRK08444 354242004005 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 354242004006 FeS/SAM binding site; other site 354242004007 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 354242004008 catalytic triad [active] 354242004009 putative active site [active] 354242004010 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 354242004011 Autotransporter beta-domain; Region: Autotransporter; smart00869 354242004012 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 354242004013 Sulfate transporter family; Region: Sulfate_transp; pfam00916 354242004014 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 354242004015 active site 354242004016 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 354242004017 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 354242004018 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 354242004019 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 354242004020 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 354242004021 active site 354242004022 dimerization interface [polypeptide binding]; other site 354242004023 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 354242004024 Major Facilitator Superfamily; Region: MFS_1; pfam07690 354242004025 putative substrate translocation pore; other site 354242004026 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 354242004027 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 354242004028 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 354242004029 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 354242004030 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 354242004031 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 354242004032 G1 box; other site 354242004033 putative GEF interaction site [polypeptide binding]; other site 354242004034 GTP/Mg2+ binding site [chemical binding]; other site 354242004035 Switch I region; other site 354242004036 G2 box; other site 354242004037 G3 box; other site 354242004038 Switch II region; other site 354242004039 G4 box; other site 354242004040 G5 box; other site 354242004041 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 354242004042 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 354242004043 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 354242004044 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 354242004045 flavodoxin FldA; Validated; Region: PRK09267 354242004046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4378 354242004047 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 354242004048 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 354242004049 tetramer interface [polypeptide binding]; other site 354242004050 heme binding pocket [chemical binding]; other site 354242004051 NADPH binding site [chemical binding]; other site 354242004052 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 354242004053 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 354242004054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 354242004055 YheO-like PAS domain; Region: PAS_6; pfam08348 354242004056 HTH domain; Region: HTH_22; pfam13309 354242004057 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 354242004058 homotrimer interaction site [polypeptide binding]; other site 354242004059 putative active site [active] 354242004060 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 354242004061 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 354242004062 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 354242004063 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 354242004064 catalytic residue [active] 354242004065 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 354242004066 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 354242004067 tetramer interface [polypeptide binding]; other site 354242004068 active site 354242004069 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 354242004070 FeoA domain; Region: FeoA; cl00838 354242004071 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 354242004072 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 354242004073 G1 box; other site 354242004074 GTP/Mg2+ binding site [chemical binding]; other site 354242004075 Switch I region; other site 354242004076 G2 box; other site 354242004077 G3 box; other site 354242004078 Switch II region; other site 354242004079 G4 box; other site 354242004080 G5 box; other site 354242004081 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 354242004082 Nucleoside recognition; Region: Gate; pfam07670 354242004083 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 354242004084 Nucleoside recognition; Region: Gate; pfam07670 354242004085 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 354242004086 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 354242004087 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 354242004088 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 354242004089 NAD binding site [chemical binding]; other site 354242004090 homotetramer interface [polypeptide binding]; other site 354242004091 homodimer interface [polypeptide binding]; other site 354242004092 substrate binding site [chemical binding]; other site 354242004093 active site 354242004094 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 354242004095 triosephosphate isomerase; Provisional; Region: PRK14565 354242004096 substrate binding site [chemical binding]; other site 354242004097 dimer interface [polypeptide binding]; other site 354242004098 catalytic triad [active] 354242004099 Phosphoglycerate kinase; Region: PGK; pfam00162 354242004100 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 354242004101 substrate binding site [chemical binding]; other site 354242004102 hinge regions; other site 354242004103 ADP binding site [chemical binding]; other site 354242004104 catalytic site [active] 354242004105 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 354242004106 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 354242004107 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 354242004108 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 354242004109 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 354242004110 active site 354242004111 (T/H)XGH motif; other site 354242004112 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 354242004113 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 354242004114 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 354242004115 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 354242004116 active site 354242004117 substrate binding site [chemical binding]; other site 354242004118 metal binding site [ion binding]; metal-binding site 354242004119 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 354242004120 Phosphopantetheinyl transferase (holo-ACP synthase) [Lipid metabolism]; Region: AcpS; COG0736 354242004121 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 354242004122 Cytochrome P450; Region: p450; cl12078 354242004123 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 354242004124 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 354242004125 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 354242004126 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 354242004127 ligand-binding site [chemical binding]; other site 354242004128 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 354242004129 active site 354242004130 metal-binding site 354242004131 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 354242004132 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 354242004133 conserved cys residue [active] 354242004134 hypothetical protein; Provisional; Region: PRK05849 354242004135 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 354242004136 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 354242004137 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 354242004138 S-adenosylmethionine binding site [chemical binding]; other site 354242004139 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 354242004140 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 354242004141 S-adenosylmethionine binding site [chemical binding]; other site 354242004142 Protein of unknown function (DUF2972); Region: DUF2972; pfam11186 354242004143 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 354242004144 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 354242004145 Substrate binding site; other site 354242004146 Mg++ binding site; other site 354242004147 metal-binding site 354242004148 Mg++ binding site; other site 354242004149 metal-binding site 354242004150 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 354242004151 dimer interface [polypeptide binding]; other site 354242004152 active site 354242004153 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 354242004154 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 354242004155 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 354242004156 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 354242004157 extended (e) SDRs; Region: SDR_e; cd08946 354242004158 NAD(P) binding site [chemical binding]; other site 354242004159 active site 354242004160 substrate binding site [chemical binding]; other site 354242004161 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 354242004162 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 354242004163 NADP-binding site; other site 354242004164 homotetramer interface [polypeptide binding]; other site 354242004165 substrate binding site [chemical binding]; other site 354242004166 homodimer interface [polypeptide binding]; other site 354242004167 active site 354242004168 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 354242004169 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 354242004170 NADP binding site [chemical binding]; other site 354242004171 active site 354242004172 putative substrate binding site [chemical binding]; other site 354242004173 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 354242004174 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 354242004175 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 354242004176 active site 354242004177 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 354242004178 active site 354242004179 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 354242004180 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 354242004181 Ligand binding site; other site 354242004182 metal-binding site 354242004183 Protein of unknown function (DUF2972); Region: DUF2972; pfam11186 354242004184 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 354242004185 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 354242004186 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 354242004187 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 354242004188 KpsF/GutQ family protein; Region: kpsF; TIGR00393 354242004189 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 354242004190 putative active site [active] 354242004191 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 354242004192 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 354242004193 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 354242004194 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 354242004195 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 354242004196 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 354242004197 Walker A/P-loop; other site 354242004198 ATP binding site [chemical binding]; other site 354242004199 Q-loop/lid; other site 354242004200 ABC transporter signature motif; other site 354242004201 Walker B; other site 354242004202 D-loop; other site 354242004203 H-loop/switch region; other site 354242004204 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 354242004205 ABC-2 type transporter; Region: ABC2_membrane; cl17235 354242004206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 354242004207 dUTPase; Region: dUTPase_2; pfam08761 354242004208 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 354242004209 active site 354242004210 homodimer interface [polypeptide binding]; other site 354242004211 metal binding site [ion binding]; metal-binding site 354242004212 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 354242004213 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 354242004214 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 354242004215 Ligand Binding Site [chemical binding]; other site 354242004216 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 354242004217 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 354242004218 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 354242004219 FeS/SAM binding site; other site 354242004220 peptide chain release factor 2; Validated; Region: prfB; PRK00578 354242004221 This domain is found in peptide chain release factors; Region: PCRF; smart00937 354242004222 RF-1 domain; Region: RF-1; pfam00472 354242004223 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 354242004224 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 354242004225 Permutation of conserved domain; other site 354242004226 active site 354242004227 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 354242004228 thiamine monophosphate kinase; Provisional; Region: PRK05731 354242004229 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 354242004230 ATP binding site [chemical binding]; other site 354242004231 dimerization interface [polypeptide binding]; other site 354242004232 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 354242004233 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 354242004234 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 354242004235 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 354242004236 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 354242004237 Rod binding protein; Region: Rod-binding; cl01626 354242004238 FlgN protein; Region: FlgN; pfam05130 354242004239 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 354242004240 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 354242004241 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 354242004242 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 354242004243 hypothetical protein; Provisional; Region: PRK10621 354242004244 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 354242004245 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 354242004246 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 354242004247 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 354242004248 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 354242004249 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 354242004250 Walker A motif; other site 354242004251 ATP binding site [chemical binding]; other site 354242004252 Walker B motif; other site 354242004253 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 354242004254 AAA domain; Region: AAA_22; pfam13401 354242004255 Walker A motif; other site 354242004256 ATP binding site [chemical binding]; other site 354242004257 Walker B motif; other site 354242004258 arginine finger; other site 354242004259 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 354242004260 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 354242004261 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 354242004262 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 354242004263 dimer interface [polypeptide binding]; other site 354242004264 PYR/PP interface [polypeptide binding]; other site 354242004265 TPP binding site [chemical binding]; other site 354242004266 substrate binding site [chemical binding]; other site 354242004267 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 354242004268 Domain of unknown function; Region: EKR; pfam10371 354242004269 4Fe-4S binding domain; Region: Fer4_6; pfam12837 354242004270 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 354242004271 TPP-binding site [chemical binding]; other site 354242004272 dimer interface [polypeptide binding]; other site 354242004273 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 354242004274 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 354242004275 motif II; other site 354242004276 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 354242004277 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 354242004278 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 354242004279 ligand binding site [chemical binding]; other site 354242004280 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 354242004281 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 354242004282 23S rRNA interface [nucleotide binding]; other site 354242004283 L3 interface [polypeptide binding]; other site 354242004284 Part of AAA domain; Region: AAA_19; pfam13245 354242004285 putative recombination protein RecB; Provisional; Region: PRK13909 354242004286 Family description; Region: UvrD_C_2; pfam13538 354242004287 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 354242004288 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 354242004289 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 354242004290 FixH; Region: FixH; pfam05751 354242004291 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 354242004292 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 354242004293 Cytochrome c; Region: Cytochrom_C; cl11414 354242004294 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 354242004295 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 354242004296 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 354242004297 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 354242004298 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 354242004299 Low-spin heme binding site [chemical binding]; other site 354242004300 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 354242004301 D-pathway; other site 354242004302 Putative water exit pathway; other site 354242004303 Binuclear center (active site) [active] 354242004304 K-pathway; other site 354242004305 Putative proton exit pathway; other site 354242004306 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 354242004307 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 354242004308 active site 354242004309 phosphorylation site [posttranslational modification] 354242004310 intermolecular recognition site; other site 354242004311 dimerization interface [polypeptide binding]; other site 354242004312 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 354242004313 DNA binding site [nucleotide binding] 354242004314 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 354242004315 PAS domain; Region: PAS_9; pfam13426 354242004316 putative active site [active] 354242004317 heme pocket [chemical binding]; other site 354242004318 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 354242004319 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 354242004320 ATP binding site [chemical binding]; other site 354242004321 Mg2+ binding site [ion binding]; other site 354242004322 G-X-G motif; other site 354242004323 Uncharacterized conserved protein [Function unknown]; Region: COG2836 354242004324 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 354242004325 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 354242004326 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 354242004327 catalytic site [active] 354242004328 subunit interface [polypeptide binding]; other site 354242004329 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 354242004330 Uncharacterized conserved protein [Function unknown]; Region: COG3334 354242004331 Flagellar FliJ protein; Region: FliJ; pfam02050 354242004332 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 354242004333 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 354242004334 GDP-binding site [chemical binding]; other site 354242004335 ACT binding site; other site 354242004336 IMP binding site; other site 354242004337 putative inner membrane protein; Provisional; Region: PRK11099 354242004338 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 354242004339 Sulphur transport; Region: Sulf_transp; pfam04143 354242004340 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 354242004341 CPxP motif; other site 354242004342 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 354242004343 Na binding site [ion binding]; other site 354242004344 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 354242004345 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 354242004346 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 354242004347 Glutamate binding site [chemical binding]; other site 354242004348 NAD binding site [chemical binding]; other site 354242004349 catalytic residues [active] 354242004350 Selenophosphate synthase [Amino acid transport and metabolism]; Region: SelD; COG0709 354242004351 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 354242004352 dimerization interface [polypeptide binding]; other site 354242004353 putative ATP binding site [chemical binding]; other site 354242004354 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 354242004355 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 354242004356 CPxP motif; other site 354242004357 Cache domain; Region: Cache_1; pfam02743 354242004358 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 354242004359 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 354242004360 dimer interface [polypeptide binding]; other site 354242004361 putative CheW interface [polypeptide binding]; other site 354242004362 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 354242004363 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 354242004364 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 354242004365 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 354242004366 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 354242004367 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 354242004368 molybdopterin cofactor binding site; other site 354242004369 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 354242004370 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 354242004371 molybdopterin cofactor binding site; other site 354242004372 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 354242004373 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 354242004374 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 354242004375 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 354242004376 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 354242004377 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 354242004378 dimer interface [polypeptide binding]; other site 354242004379 active site 354242004380 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 354242004381 catalytic residues [active] 354242004382 substrate binding site [chemical binding]; other site 354242004383 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 354242004384 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 354242004385 Multicopper oxidase; Region: Cu-oxidase; pfam00394 354242004386 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 354242004387 ThiS family; Region: ThiS; pfam02597 354242004388 charged pocket; other site 354242004389 hydrophobic patch; other site 354242004390 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 354242004391 MoaE homodimer interface [polypeptide binding]; other site 354242004392 MoaD interaction [polypeptide binding]; other site 354242004393 active site residues [active] 354242004394 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 354242004395 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 354242004396 dimer interface [polypeptide binding]; other site 354242004397 putative functional site; other site 354242004398 putative MPT binding site; other site 354242004399 AAA domain; Region: AAA_21; pfam13304 354242004400 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 354242004401 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 354242004402 dimerization interface [polypeptide binding]; other site 354242004403 putative ATP binding site [chemical binding]; other site 354242004404 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 354242004405 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 354242004406 CoA-binding site [chemical binding]; other site 354242004407 ATP-binding [chemical binding]; other site 354242004408 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 354242004409 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 354242004410 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 354242004411 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 354242004412 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 354242004413 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 354242004414 AAA domain; Region: AAA_14; pfam13173 354242004415 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 354242004416 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 354242004417 dimerization interface [polypeptide binding]; other site 354242004418 DPS ferroxidase diiron center [ion binding]; other site 354242004419 ion pore; other site 354242004420 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 354242004421 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 354242004422 active site 354242004423 dimer interface [polypeptide binding]; other site 354242004424 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 354242004425 dimer interface [polypeptide binding]; other site 354242004426 active site 354242004427 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 354242004428 active site 354242004429 tetramer interface; other site 354242004430 acetyl-CoA synthetase; Provisional; Region: PRK00174 354242004431 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 354242004432 active site 354242004433 CoA binding site [chemical binding]; other site 354242004434 acyl-activating enzyme (AAE) consensus motif; other site 354242004435 AMP binding site [chemical binding]; other site 354242004436 acetate binding site [chemical binding]; other site 354242004437 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 354242004438 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 354242004439 Walker A/P-loop; other site 354242004440 ATP binding site [chemical binding]; other site 354242004441 Q-loop/lid; other site 354242004442 ABC transporter signature motif; other site 354242004443 Walker B; other site 354242004444 D-loop; other site 354242004445 H-loop/switch region; other site 354242004446 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 354242004447 dimer interface [polypeptide binding]; other site 354242004448 conserved gate region; other site 354242004449 putative PBP binding loops; other site 354242004450 ABC-ATPase subunit interface; other site 354242004451 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 354242004452 PBP superfamily domain; Region: PBP_like_2; pfam12849 354242004453 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 354242004454 putative active site [active] 354242004455 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 354242004456 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 354242004457 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 354242004458 EamA-like transporter family; Region: EamA; pfam00892 354242004459 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 354242004460 Predicted transcriptional regulators [Transcription]; Region: COG1733 354242004461 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 354242004462 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 354242004463 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 354242004464 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 354242004465 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 354242004466 putative NAD(P) binding site [chemical binding]; other site 354242004467 putative substrate binding site [chemical binding]; other site 354242004468 catalytic Zn binding site [ion binding]; other site 354242004469 structural Zn binding site [ion binding]; other site 354242004470 dimer interface [polypeptide binding]; other site 354242004471 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 354242004472 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 354242004473 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 354242004474 ATP binding site [chemical binding]; other site 354242004475 putative Mg++ binding site [ion binding]; other site 354242004476 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 354242004477 AAA domain; Region: AAA_21; pfam13304 354242004478 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 354242004479 ABC transporter signature motif; other site 354242004480 Walker B; other site 354242004481 D-loop; other site 354242004482 H-loop/switch region; other site 354242004483 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 354242004484 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 354242004485 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 354242004486 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 354242004487 Divergent AAA domain; Region: AAA_4; pfam04326 354242004488 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 354242004489 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 354242004490 HsdM N-terminal domain; Region: HsdM_N; pfam12161 354242004491 Methyltransferase domain; Region: Methyltransf_26; pfam13659 354242004492 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 354242004493 NADH(P)-binding; Region: NAD_binding_10; pfam13460 354242004494 NAD binding site [chemical binding]; other site 354242004495 substrate binding site [chemical binding]; other site 354242004496 putative active site [active] 354242004497 Predicted transcriptional regulators [Transcription]; Region: COG1733 354242004498 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 354242004499 dimerization interface [polypeptide binding]; other site 354242004500 putative DNA binding site [nucleotide binding]; other site 354242004501 putative Zn2+ binding site [ion binding]; other site 354242004502 Predicted permease; Region: DUF318; cl17795 354242004503 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 354242004504 dimerization interface [polypeptide binding]; other site 354242004505 putative DNA binding site [nucleotide binding]; other site 354242004506 putative Zn2+ binding site [ion binding]; other site 354242004507 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 354242004508 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 354242004509 DNA binding residues [nucleotide binding] 354242004510 putative dimer interface [polypeptide binding]; other site 354242004511 Cache domain; Region: Cache_1; pfam02743 354242004512 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 354242004513 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 354242004514 dimer interface [polypeptide binding]; other site 354242004515 putative CheW interface [polypeptide binding]; other site 354242004516 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15490 354242004517 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 354242004518 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 354242004519 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 354242004520 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 354242004521 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 354242004522 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 354242004523 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 354242004524 NADH:ubiquinone oxidoreductase subunit 11 or 4L (chain K) [Energy production and conversion]; Region: NuoK; COG0713 354242004525 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 354242004526 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 354242004527 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 354242004528 4Fe-4S binding domain; Region: Fer4; cl02805 354242004529 4Fe-4S binding domain; Region: Fer4; pfam00037 354242004530 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 354242004531 NADH dehydrogenase subunit G; Validated; Region: PRK08493 354242004532 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 354242004533 catalytic loop [active] 354242004534 iron binding site [ion binding]; other site 354242004535 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 354242004536 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 354242004537 NADH dehydrogenase subunit D; Validated; Region: PRK06075 354242004538 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 354242004539 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 354242004540 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 354242004541 NADH dehydrogenase subunit B; Validated; Region: PRK06411 354242004542 NADH dehydrogenase subunit A; Validated; Region: PRK08489 354242004543 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 354242004544 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 354242004545 Walker A/P-loop; other site 354242004546 ATP binding site [chemical binding]; other site 354242004547 Q-loop/lid; other site 354242004548 ABC transporter signature motif; other site 354242004549 Walker B; other site 354242004550 D-loop; other site 354242004551 H-loop/switch region; other site 354242004552 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 354242004553 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 354242004554 Walker A/P-loop; other site 354242004555 ATP binding site [chemical binding]; other site 354242004556 Q-loop/lid; other site 354242004557 ABC transporter signature motif; other site 354242004558 Walker B; other site 354242004559 D-loop; other site 354242004560 H-loop/switch region; other site 354242004561 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 354242004562 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 354242004563 putative PBP binding loops; other site 354242004564 ABC-ATPase subunit interface; other site 354242004565 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 354242004566 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 354242004567 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 354242004568 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 354242004569 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 354242004570 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 354242004571 putative [Fe4-S4] binding site [ion binding]; other site 354242004572 putative molybdopterin cofactor binding site [chemical binding]; other site 354242004573 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 354242004574 molybdopterin cofactor binding site; other site 354242004575 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 354242004576 4Fe-4S binding domain; Region: Fer4; pfam00037 354242004577 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 354242004578 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 354242004579 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 354242004580 heme-binding site [chemical binding]; other site 354242004581 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 354242004582 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 354242004583 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 354242004584 Walker A/P-loop; other site 354242004585 ATP binding site [chemical binding]; other site 354242004586 Q-loop/lid; other site 354242004587 ABC transporter signature motif; other site 354242004588 Walker B; other site 354242004589 D-loop; other site 354242004590 H-loop/switch region; other site 354242004591 metabolite-proton symporter; Region: 2A0106; TIGR00883 354242004592 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 354242004593 putative substrate translocation pore; other site 354242004594 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 354242004595 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 354242004596 rRNA binding site [nucleotide binding]; other site 354242004597 predicted 30S ribosome binding site; other site 354242004598 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 354242004599 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 354242004600 30S ribosomal protein S13; Region: bact_S13; TIGR03631 354242004601 30S ribosomal protein S11; Validated; Region: PRK05309 354242004602 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 354242004603 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 354242004604 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 354242004605 RNA binding surface [nucleotide binding]; other site 354242004606 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 354242004607 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 354242004608 alphaNTD homodimer interface [polypeptide binding]; other site 354242004609 alphaNTD - beta interaction site [polypeptide binding]; other site 354242004610 alphaNTD - beta' interaction site [polypeptide binding]; other site 354242004611 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 354242004612 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 354242004613 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 354242004614 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 354242004615 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 354242004616 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 354242004617 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 354242004618 NAD binding site [chemical binding]; other site 354242004619 dimerization interface [polypeptide binding]; other site 354242004620 product binding site; other site 354242004621 substrate binding site [chemical binding]; other site 354242004622 zinc binding site [ion binding]; other site 354242004623 catalytic residues [active] 354242004624 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 354242004625 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 354242004626 active site 354242004627 motif I; other site 354242004628 motif II; other site 354242004629 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 354242004630 putative active site pocket [active] 354242004631 4-fold oligomerization interface [polypeptide binding]; other site 354242004632 metal binding residues [ion binding]; metal-binding site 354242004633 3-fold/trimer interface [polypeptide binding]; other site 354242004634 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 354242004635 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 354242004636 putative active site [active] 354242004637 oxyanion strand; other site 354242004638 catalytic triad [active] 354242004639 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 354242004640 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 354242004641 catalytic residues [active] 354242004642 Protein of unknown function (DUF511); Region: DUF511; cl01114 354242004643 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 354242004644 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 354242004645 substrate binding site [chemical binding]; other site 354242004646 glutamase interaction surface [polypeptide binding]; other site 354242004647 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 354242004648 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 354242004649 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 354242004650 metal binding site [ion binding]; metal-binding site 354242004651 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 354242004652 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 354242004653 putative trimer interface [polypeptide binding]; other site 354242004654 putative CoA binding site [chemical binding]; other site 354242004655 antiporter inner membrane protein; Provisional; Region: PRK11670 354242004656 Domain of unknown function DUF59; Region: DUF59; pfam01883 354242004657 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 354242004658 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 354242004659 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 354242004660 substrate binding site; other site 354242004661 dimer interface; other site 354242004662 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 354242004663 homotrimer interaction site [polypeptide binding]; other site 354242004664 zinc binding site [ion binding]; other site 354242004665 CDP-binding sites; other site 354242004666 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 354242004667 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 354242004668 active site 354242004669 intermolecular recognition site; other site 354242004670 dimerization interface [polypeptide binding]; other site 354242004671 ATP sulfurylase (sulfate adenylyltransferase) [Inorganic ion transport and metabolism]; Region: MET3; COG2046 354242004672 ATP-sulfurylase; Region: ATP-sulfurylase; pfam01747 354242004673 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 354242004674 tetramer interfaces [polypeptide binding]; other site 354242004675 binuclear metal-binding site [ion binding]; other site 354242004676 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 354242004677 peptide chain release factor 1; Validated; Region: prfA; PRK00591 354242004678 This domain is found in peptide chain release factors; Region: PCRF; smart00937 354242004679 RF-1 domain; Region: RF-1; pfam00472 354242004680 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 354242004681 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 354242004682 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 354242004683 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 354242004684 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 354242004685 N-terminal plug; other site 354242004686 ligand-binding site [chemical binding]; other site 354242004687 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 354242004688 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 354242004689 ABC-ATPase subunit interface; other site 354242004690 dimer interface [polypeptide binding]; other site 354242004691 putative PBP binding regions; other site 354242004692 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 354242004693 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 354242004694 Walker A/P-loop; other site 354242004695 ATP binding site [chemical binding]; other site 354242004696 Q-loop/lid; other site 354242004697 ABC transporter signature motif; other site 354242004698 Walker B; other site 354242004699 D-loop; other site 354242004700 H-loop/switch region; other site 354242004701 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 354242004702 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 354242004703 intersubunit interface [polypeptide binding]; other site 354242004704 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 354242004705 FeS/SAM binding site; other site 354242004706 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 354242004707 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 354242004708 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 354242004709 putative substrate translocation pore; other site 354242004710 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 354242004711 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 354242004712 minor groove reading motif; other site 354242004713 helix-hairpin-helix signature motif; other site 354242004714 substrate binding pocket [chemical binding]; other site 354242004715 active site 354242004716 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 354242004717 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 354242004718 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 354242004719 catalytic motif [active] 354242004720 Zn binding site [ion binding]; other site 354242004721 RibD C-terminal domain; Region: RibD_C; cl17279 354242004722 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 354242004723 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 354242004724 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 354242004725 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 354242004726 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 354242004727 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 354242004728 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 354242004729 Domain of unknown function (DUF4261); Region: DUF4261; pfam14080 354242004730 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 354242004731 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 354242004732 TonB system transport protein ExbD, group 2; Region: ExbD_2; TIGR02804 354242004733 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 354242004734 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 354242004735 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 354242004736 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 354242004737 Ligand Binding Site [chemical binding]; other site 354242004738 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 354242004739 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 354242004740 Tetramer interface [polypeptide binding]; other site 354242004741 active site 354242004742 FMN-binding site [chemical binding]; other site 354242004743 ribonuclease III; Reviewed; Region: rnc; PRK00102 354242004744 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 354242004745 dimerization interface [polypeptide binding]; other site 354242004746 active site 354242004747 metal binding site [ion binding]; metal-binding site 354242004748 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 354242004749 dsRNA binding site [nucleotide binding]; other site 354242004750 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 354242004751 RNA/DNA hybrid binding site [nucleotide binding]; other site 354242004752 active site 354242004753 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 354242004754 TPR motif; other site 354242004755 binding surface 354242004756 Tetratricopeptide repeat; Region: TPR_16; pfam13432 354242004757 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 354242004758 Zinc-binding sites [ion binding]; other site 354242004759 zinc cluster 1 [ion binding]; other site 354242004760 putative charged binding surface; other site 354242004761 putative hydrophobic binding surface; other site 354242004762 zinc cluster 2 [ion binding]; other site 354242004763 DNA primase, catalytic core; Region: dnaG; TIGR01391 354242004764 CHC2 zinc finger; Region: zf-CHC2; pfam01807 354242004765 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 354242004766 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 354242004767 active site 354242004768 metal binding site [ion binding]; metal-binding site 354242004769 interdomain interaction site; other site 354242004770 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 354242004771 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 354242004772 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 354242004773 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 354242004774 hypothetical protein; Provisional; Region: PRK03762 354242004775 PDZ domain; Region: PDZ_2; pfam13180 354242004776 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 354242004777 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 354242004778 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 354242004779 substrate binding pocket [chemical binding]; other site 354242004780 chain length determination region; other site 354242004781 substrate-Mg2+ binding site; other site 354242004782 catalytic residues [active] 354242004783 aspartate-rich region 1; other site 354242004784 active site lid residues [active] 354242004785 aspartate-rich region 2; other site 354242004786 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 354242004787 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 354242004788 TPP-binding site [chemical binding]; other site 354242004789 dimer interface [polypeptide binding]; other site 354242004790 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 354242004791 PYR/PP interface [polypeptide binding]; other site 354242004792 dimer interface [polypeptide binding]; other site 354242004793 TPP binding site [chemical binding]; other site 354242004794 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 354242004795 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 354242004796 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 354242004797 Permease; Region: Permease; pfam02405 354242004798 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 354242004799 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 354242004800 Walker A/P-loop; other site 354242004801 ATP binding site [chemical binding]; other site 354242004802 Q-loop/lid; other site 354242004803 ABC transporter signature motif; other site 354242004804 Walker B; other site 354242004805 D-loop; other site 354242004806 H-loop/switch region; other site 354242004807 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 354242004808 mce related protein; Region: MCE; pfam02470 354242004809 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 354242004810 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 354242004811 active site 354242004812 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 354242004813 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 354242004814 NlpC/P60 family; Region: NLPC_P60; pfam00877 354242004815 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 354242004816 Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: NhaA; COG3004 354242004817 Putative motility protein; Region: YjfB_motility; pfam14070 354242004818 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 354242004819 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 354242004820 Predicted membrane protein [Function unknown]; Region: COG4393 354242004821 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 354242004822 Uncharacterized conserved protein [Function unknown]; Region: COG3350 354242004823 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 354242004824 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 354242004825 FtsX-like permease family; Region: FtsX; pfam02687 354242004826 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 354242004827 FtsX-like permease family; Region: FtsX; pfam02687 354242004828 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 354242004829 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 354242004830 Walker A/P-loop; other site 354242004831 ATP binding site [chemical binding]; other site 354242004832 Q-loop/lid; other site 354242004833 ABC transporter signature motif; other site 354242004834 Walker B; other site 354242004835 D-loop; other site 354242004836 H-loop/switch region; other site 354242004837 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 354242004838 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 354242004839 catalytic residues [active] 354242004840 Predicted metal-binding protein [General function prediction only]; Region: COG3019 354242004841 DNA ligase; Provisional; Region: PRK09125 354242004842 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 354242004843 DNA binding site [nucleotide binding] 354242004844 active site 354242004845 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 354242004846 DNA binding site [nucleotide binding] 354242004847 AMIN domain; Region: AMIN; pfam11741 354242004848 enolase; Provisional; Region: eno; PRK00077 354242004849 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 354242004850 dimer interface [polypeptide binding]; other site 354242004851 metal binding site [ion binding]; metal-binding site 354242004852 substrate binding pocket [chemical binding]; other site 354242004853 recombinase A; Provisional; Region: recA; PRK09354 354242004854 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 354242004855 hexamer interface [polypeptide binding]; other site 354242004856 Walker A motif; other site 354242004857 ATP binding site [chemical binding]; other site 354242004858 Walker B motif; other site 354242004859 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 354242004860 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 354242004861 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 354242004862 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 354242004863 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 354242004864 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 354242004865 active site 354242004866 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 354242004867 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 354242004868 dimer interface [polypeptide binding]; other site 354242004869 active site 354242004870 citrylCoA binding site [chemical binding]; other site 354242004871 NADH binding [chemical binding]; other site 354242004872 cationic pore residues; other site 354242004873 oxalacetate/citrate binding site [chemical binding]; other site 354242004874 coenzyme A binding site [chemical binding]; other site 354242004875 catalytic triad [active] 354242004876 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 354242004877 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 354242004878 biotin synthase; Provisional; Region: PRK08508 354242004879 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 354242004880 FeS/SAM binding site; other site 354242004881 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 354242004882 DNA topoisomerase I; Validated; Region: PRK05582 354242004883 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 354242004884 active site 354242004885 interdomain interaction site; other site 354242004886 putative metal-binding site [ion binding]; other site 354242004887 nucleotide binding site [chemical binding]; other site 354242004888 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 354242004889 domain I; other site 354242004890 DNA binding groove [nucleotide binding] 354242004891 phosphate binding site [ion binding]; other site 354242004892 domain II; other site 354242004893 domain III; other site 354242004894 nucleotide binding site [chemical binding]; other site 354242004895 catalytic site [active] 354242004896 domain IV; other site 354242004897 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 354242004898 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 354242004899 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 354242004900 putative substrate translocation pore; other site 354242004901 Major Facilitator Superfamily; Region: MFS_1; pfam07690 354242004902 Major Facilitator Superfamily; Region: MFS_1; pfam07690 354242004903 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 354242004904 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 354242004905 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 354242004906 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 354242004907 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 354242004908 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 354242004909 SecY translocase; Region: SecY; pfam00344 354242004910 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 354242004911 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 354242004912 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 354242004913 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 354242004914 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 354242004915 5S rRNA interface [nucleotide binding]; other site 354242004916 23S rRNA interface [nucleotide binding]; other site 354242004917 L5 interface [polypeptide binding]; other site 354242004918 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 354242004919 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 354242004920 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 354242004921 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 354242004922 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 354242004923 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 354242004924 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 354242004925 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 354242004926 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 354242004927 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 354242004928 RNA binding site [nucleotide binding]; other site 354242004929 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 354242004930 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 354242004931 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 354242004932 putative translocon interaction site; other site 354242004933 23S rRNA interface [nucleotide binding]; other site 354242004934 signal recognition particle (SRP54) interaction site; other site 354242004935 L23 interface [polypeptide binding]; other site 354242004936 trigger factor interaction site; other site 354242004937 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 354242004938 23S rRNA interface [nucleotide binding]; other site 354242004939 5S rRNA interface [nucleotide binding]; other site 354242004940 putative antibiotic binding site [chemical binding]; other site 354242004941 L25 interface [polypeptide binding]; other site 354242004942 L27 interface [polypeptide binding]; other site 354242004943 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 354242004944 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 354242004945 G-X-X-G motif; other site 354242004946 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 354242004947 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 354242004948 putative translocon binding site; other site 354242004949 protein-rRNA interface [nucleotide binding]; other site 354242004950 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 354242004951 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 354242004952 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 354242004953 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 354242004954 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 354242004955 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 354242004956 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 354242004957 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 354242004958 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 354242004959 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 354242004960 RNA binding surface [nucleotide binding]; other site 354242004961 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 354242004962 active site 354242004963 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 354242004964 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 354242004965 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 354242004966 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 354242004967 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 354242004968 S-adenosylmethionine binding site [chemical binding]; other site 354242004969 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 354242004970 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 354242004971 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 354242004972 FeS/SAM binding site; other site 354242004973 Putative lipopolysaccharide-modifying enzyme; Region: CAP10; smart00672 354242004974 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 354242004975 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 354242004976 Coenzyme A binding pocket [chemical binding]; other site 354242004977 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 354242004978 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 354242004979 substrate binding site [chemical binding]; other site 354242004980 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 354242004981 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 354242004982 substrate binding site [chemical binding]; other site 354242004983 ligand binding site [chemical binding]; other site 354242004984 tartrate dehydrogenase; Region: TTC; TIGR02089 354242004985 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 354242004986 2-isopropylmalate synthase; Validated; Region: PRK00915 354242004987 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 354242004988 active site 354242004989 catalytic residues [active] 354242004990 metal binding site [ion binding]; metal-binding site 354242004991 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 354242004992 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 354242004993 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 354242004994 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 354242004995 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 354242004996 homoserine O-succinyltransferase; Region: metA; TIGR01001 354242004997 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 354242004998 proposed active site lysine [active] 354242004999 conserved cys residue [active] 354242005000 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 354242005001 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 354242005002 homodimer interface [polypeptide binding]; other site 354242005003 substrate-cofactor binding pocket; other site 354242005004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 354242005005 catalytic residue [active] 354242005006 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 354242005007 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 354242005008 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 354242005009 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 354242005010 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 354242005011 active site 354242005012 putative DNA-binding cleft [nucleotide binding]; other site 354242005013 dimer interface [polypeptide binding]; other site 354242005014 Eukaryotic and archaeal DNA primase small subunit; Region: DNA_primase_S; pfam01896 354242005015 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]; Region: MCM2; COG1241 354242005016 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 354242005017 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 354242005018 Methyltransferase domain; Region: Methyltransf_26; pfam13659 354242005019 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 354242005020 DEAD-like helicases superfamily; Region: DEXDc; smart00487 354242005021 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 354242005022 ATP binding site [chemical binding]; other site 354242005023 putative Mg++ binding site [ion binding]; other site 354242005024 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 354242005025 helicase superfamily c-terminal domain; Region: HELICc; smart00490 354242005026 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 354242005027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 354242005028 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 354242005029 active site 354242005030 metal binding site [ion binding]; metal-binding site 354242005031 interdomain interaction site; other site 354242005032 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 354242005033 YcfA-like protein; Region: YcfA; cl00752 354242005034 AAA domain; Region: AAA_25; pfam13481 354242005035 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 354242005036 Walker A motif; other site 354242005037 ATP binding site [chemical binding]; other site 354242005038 Walker B motif; other site 354242005039 multiple promoter invertase; Provisional; Region: mpi; PRK13413 354242005040 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 354242005041 catalytic residues [active] 354242005042 catalytic nucleophile [active] 354242005043 Presynaptic Site I dimer interface [polypeptide binding]; other site 354242005044 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 354242005045 Synaptic Flat tetramer interface [polypeptide binding]; other site 354242005046 Synaptic Site I dimer interface [polypeptide binding]; other site 354242005047 DNA binding site [nucleotide binding] 354242005048 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 354242005049 TrbC/VIRB2 family; Region: TrbC; pfam04956 354242005050 Type IV secretory pathway, VirB3-like protein; Region: VirB3; pfam05101 354242005051 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 354242005052 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 354242005053 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 354242005054 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 354242005055 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 354242005056 dimer interface [polypeptide binding]; other site 354242005057 ssDNA binding site [nucleotide binding]; other site 354242005058 tetramer (dimer of dimers) interface [polypeptide binding]; other site 354242005059 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 354242005060 Type IV secretion system proteins; Region: T4SS; pfam07996 354242005061 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 354242005062 VirB8 protein; Region: VirB8; pfam04335 354242005063 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 354242005064 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 354242005065 VirB7 interaction site; other site 354242005066 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 354242005067 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 354242005068 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 354242005069 Walker A motif; other site 354242005070 hexamer interface [polypeptide binding]; other site 354242005071 ATP binding site [chemical binding]; other site 354242005072 Walker B motif; other site 354242005073 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 354242005074 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 354242005075 Walker A motif; other site 354242005076 ATP binding site [chemical binding]; other site 354242005077 Walker B motif; other site 354242005078 Cag pathogenicity island protein Cag12; Region: Cag12; pfam13117 354242005079 TrbM; Region: TrbM; pfam07424 354242005080 DNA topoisomerase III; Provisional; Region: PRK07726 354242005081 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 354242005082 active site 354242005083 putative interdomain interaction site [polypeptide binding]; other site 354242005084 putative metal-binding site [ion binding]; other site 354242005085 putative nucleotide binding site [chemical binding]; other site 354242005086 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 354242005087 domain I; other site 354242005088 DNA binding groove [nucleotide binding] 354242005089 phosphate binding site [ion binding]; other site 354242005090 domain II; other site 354242005091 domain III; other site 354242005092 nucleotide binding site [chemical binding]; other site 354242005093 catalytic site [active] 354242005094 domain IV; other site 354242005095 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 354242005096 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 354242005097 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 354242005098 G1 box; other site 354242005099 putative GEF interaction site [polypeptide binding]; other site 354242005100 GTP/Mg2+ binding site [chemical binding]; other site 354242005101 Switch I region; other site 354242005102 G2 box; other site 354242005103 G3 box; other site 354242005104 Switch II region; other site 354242005105 G4 box; other site 354242005106 G5 box; other site 354242005107 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 354242005108 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 354242005109 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711