-- dump date 20140619_021856 -- class Genbank::misc_feature -- table misc_feature_note -- id note 645464000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 645464000002 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 645464000003 Walker A motif; other site 645464000004 ATP binding site [chemical binding]; other site 645464000005 Walker B motif; other site 645464000006 arginine finger; other site 645464000007 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 645464000008 DnaA box-binding interface [nucleotide binding]; other site 645464000009 HMMPfam hit to PF00308; Bacterial dnaA protein 645464000010 HMMPfam hit to PF08299; Bacterial dnaA protein helix-turn-helix domain 645464000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 645464000012 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 645464000013 putative DNA binding surface [nucleotide binding]; other site 645464000014 dimer interface [polypeptide binding]; other site 645464000015 beta-clamp/clamp loader binding surface; other site 645464000016 beta-clamp/translesion DNA polymerase binding surface; other site 645464000017 HMMPfam hit to PF00712; DNA polymerase III beta subunit, N-terminal domain 645464000018 HMMPfam hit to PF02767; DNA polymerase III beta subunit, central domain 645464000019 HMMPfam hit to PF02768; DNA polymerase III beta subunit, C-terminal domain 645464000020 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 645464000021 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 645464000022 Mg2+ binding site [ion binding]; other site 645464000023 G-X-G motif; other site 645464000024 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 645464000025 anchoring element; other site 645464000026 dimer interface [polypeptide binding]; other site 645464000027 ATP binding site [chemical binding]; other site 645464000028 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 645464000029 active site 645464000030 putative metal-binding site [ion binding]; other site 645464000031 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 645464000032 HMMPfam hit to PF02518; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 645464000033 HMMPfam hit to PF00204; DNA gyrase B 645464000034 HMMPfam hit to PF01751; Toprim domain 645464000035 HMMPfam hit to PF00986; DNA gyrase B subunit, carboxyl terminus 645464000036 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 645464000037 sulfite oxidase; Provisional; Region: PLN00177 645464000038 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 645464000039 Moco binding site; other site 645464000040 metal coordination site [ion binding]; other site 645464000041 dimerization interface [polypeptide binding]; other site 645464000042 HMMPfam hit to PF03404; Mo-co oxidoreductase dimerisation domain 645464000043 HMMPfam hit to PF00174; Oxidoreductase molybdopterin binding domain 645464000044 Predicted permease [General function prediction only]; Region: COG2056 645464000045 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 645464000046 HMMPfam hit to PF03600; Citrate transporter 645464000047 HMMPfam hit to PF06808; DctM-like transporters 645464000048 HMMPfam hit to PF03553; Na+/H+ antiporter family 645464000049 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 645464000050 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 645464000051 active site 645464000052 dimer interface [polypeptide binding]; other site 645464000053 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 645464000054 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 645464000055 active site 645464000056 FMN binding site [chemical binding]; other site 645464000057 substrate binding site [chemical binding]; other site 645464000058 3Fe-4S cluster binding site [ion binding]; other site 645464000059 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 645464000060 domain interface; other site 645464000061 HMMPfam hit to PF00310; Glutamine amidotransferases class-II 645464000062 HMMPfam hit to PF04898; Glutamate synthase central domain 645464000063 HMMPfam hit to PF01645; Conserved region in glutamate synthase 645464000064 HMMPfam hit to PF01493; GXGXG motif 645464000065 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 645464000066 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645464000067 HMMPfam hit to PF07992; Pyridine nucleotide-disulphide oxidoreductase 645464000068 HMMPfam hit to PF00070; Pyridine nucleotide-disulphide oxidoreductase 645464000069 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 645464000070 RNA/DNA hybrid binding site [nucleotide binding]; other site 645464000071 active site 645464000072 HMMPfam hit to PF01351; Ribonuclease HII 645464000073 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 645464000074 Helix-hairpin-helix motif; Region: HHH; pfam00633 645464000075 HMMPfam hit to PF00633; Helix-hairpin-helix motif 645464000076 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 645464000077 non-heme iron binding site [ion binding]; other site 645464000078 dimer interface [polypeptide binding]; other site 645464000079 Rubrerythrin [Energy production and conversion]; Region: COG1592 645464000080 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 645464000081 binuclear metal center [ion binding]; other site 645464000082 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 645464000083 iron binding site [ion binding]; other site 645464000084 HMMPfam hit to PF00301; Rubredoxin 645464000085 HMMPfam hit to PF02915; Rubrerythrin 645464000086 HMMPfam hit to PF06397; Desulfoferrodoxin, N-terminal domain 645464000087 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 645464000088 HMMPfam hit to PF00920; Dehydratase family 645464000089 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 645464000090 HMMPfam hit to PF07274; Protein of unknown function (DUF1440) 645464000091 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 645464000092 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 645464000093 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 645464000094 Ligand Binding Site [chemical binding]; other site 645464000095 HMMPfam hit to PF02568; Thiamine biosynthesis protein (ThiI) 645464000096 HMMPfam hit to PF06508; ExsB 645464000097 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 645464000098 HMMPfam hit to PF02600; Disulfide bond formation protein DsbB 645464000099 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 645464000100 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 645464000101 dimer interface [polypeptide binding]; other site 645464000102 putative CheW interface [polypeptide binding]; other site 645464000103 HMMPfam hit to PF00015; Methyl-accepting chemotaxis protein (MCP) signaling domain 645464000104 HMMPfam hit to PF00672; HAMP domain 645464000105 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 645464000106 HMMPfam hit to PF03150; Di-haem cytochrome c peroxidase 645464000107 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 645464000108 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 645464000109 HMMPfam hit to PF01557; Fumarylacetoacetate (FAA) hydrolase family 645464000110 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 645464000111 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 645464000112 active site 645464000113 HMMPfam hit to PF00849; RNA pseudouridylate synthase 645464000114 adenylosuccinate lyase; Provisional; Region: PRK08470 645464000115 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 645464000116 tetramer interface [polypeptide binding]; other site 645464000117 active site 645464000118 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 645464000119 HMMPfam hit to PF00206; Lyase 645464000120 HMMPfam hit to PF10397; Adenylosuccinate lyase C-terminus 645464000121 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 645464000122 ATP cone domain; Region: ATP-cone; pfam03477 645464000123 Class I ribonucleotide reductase; Region: RNR_I; cd01679 645464000124 active site 645464000125 dimer interface [polypeptide binding]; other site 645464000126 catalytic residues [active] 645464000127 effector binding site; other site 645464000128 R2 peptide binding site; other site 645464000129 HMMPfam hit to PF03477; ATP cone domain 645464000130 HMMPfam hit to PF00317; Ribonucleotide reductase, all-alpha domain 645464000131 HMMPfam hit to PF02867; Ribonucleotide reductase, barrel domain 645464000132 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 645464000133 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 645464000134 HMMPfam hit to PF00375; Sodium:dicarboxylate symporter family 645464000135 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 645464000136 HMMPfam hit to PF02511; Thymidylate synthase complementing protein 645464000137 CTP synthetase; Validated; Region: pyrG; PRK05380 645464000138 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 645464000139 Catalytic site [active] 645464000140 active site 645464000141 UTP binding site [chemical binding]; other site 645464000142 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 645464000143 active site 645464000144 putative oxyanion hole; other site 645464000145 catalytic triad [active] 645464000146 HMMPfam hit to PF06418; CTP synthase N-terminus 645464000147 HMMPfam hit to PF00117; Glutamine amidotransferase class-I 645464000148 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 645464000149 DHH family; Region: DHH; pfam01368 645464000150 DHHA1 domain; Region: DHHA1; pfam02272 645464000151 HMMPfam hit to PF01368; DHH family 645464000152 HMMPfam hit to PF02272; DHHA1 domain 645464000153 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 645464000154 active site 645464000155 homotetramer interface [polypeptide binding]; other site 645464000156 homodimer interface [polypeptide binding]; other site 645464000157 HMMPfam hit to PF00710; Asparaginase 645464000158 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 645464000159 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 645464000160 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 645464000161 heme-binding residues [chemical binding]; other site 645464000162 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 645464000163 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 645464000164 heme-binding residues [chemical binding]; other site 645464000165 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 645464000166 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 645464000167 catalytic residues [active] 645464000168 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 645464000169 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 645464000170 HMMPfam hit to PF01578; Cytochrome C assembly protein 645464000171 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 645464000172 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 645464000173 HMMPfam hit to PF01019; Gamma-glutamyltranspeptidase 645464000174 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 645464000175 Methyltransferase domain; Region: Methyltransf_26; pfam13659 645464000176 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 645464000177 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 645464000178 HMMPfam hit to PF07669; Eco57I restriction endonuclease 645464000179 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 645464000180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 645464000181 HMMPfam hit to PF04402; Protein of unknown function (DUF541) 645464000182 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 645464000183 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645464000184 putative substrate translocation pore; other site 645464000185 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464000186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 645464000187 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 645464000188 HMMPfam hit to PF09903; Uncharacterized protein conserved in bacteria (DUF2130) 645464000189 Cytochrome c [Energy production and conversion]; Region: COG3258 645464000190 Cytochrome c; Region: Cytochrom_C; pfam00034 645464000191 Cytochrome c; Region: Cytochrom_C; pfam00034 645464000192 HMMPfam hit to PF00034; Cytochrome c 645464000193 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 645464000194 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 645464000195 G1 box; other site 645464000196 putative GEF interaction site [polypeptide binding]; other site 645464000197 GTP/Mg2+ binding site [chemical binding]; other site 645464000198 Switch I region; other site 645464000199 G2 box; other site 645464000200 G3 box; other site 645464000201 Switch II region; other site 645464000202 G4 box; other site 645464000203 G5 box; other site 645464000204 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 645464000205 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 645464000206 HMMPfam hit to PF00679; Elongation factor G C-terminus 645464000207 HMMPfam hit to PF03144; Elongation factor Tu domain 2 645464000208 HMMPfam hit to PF00009; Elongation factor Tu GTP binding domain 645464000209 potential frameshift: common BLAST hit: gi|218561733|ref|YP_002343512.1| flagellar hook-length control protein 645464000210 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 645464000211 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 645464000212 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 645464000213 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 645464000214 HMMPfam hit to PF03963; Flagellar hook capping protein 645464000215 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 645464000216 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 645464000217 HMMPfam hit to PF00460; Flagella basal body rod protein 645464000218 HMMPfam hit to PF07559; Flagellar basal body protein FlaE 645464000219 HMMPfam hit to PF06429; Domain of unknown function (DUF1078) 645464000220 Protein of unknown function (DUF342); Region: DUF342; pfam03961 645464000221 HMMPfam hit to PF03961; Protein of unknown function (DUF342) 645464000222 Hemerythrin; Region: Hemerythrin; cd12107 645464000223 Fe binding site [ion binding]; other site 645464000224 HMMPfam hit to PF01814; Hemerythrin HHE cation binding domain 645464000225 potential frameshift: common BLAST hit: gi|148652745|ref|YP_001279838.1| anion transporter 645464000226 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 645464000227 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 645464000228 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 645464000229 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 645464000230 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 645464000231 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 645464000232 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 645464000233 Ligand Binding Site [chemical binding]; other site 645464000234 HMMPfam hit to PF03054; tRNA methyl transferase 645464000235 HMMPfam hit to PF06508; ExsB; HMMPfam hit to PF01171, e-value: 0.0034; PP-loop family 645464000236 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 645464000237 HMMPfam hit to PF03641; Possible lysine decarboxylase 645464000238 potential frameshift: common BLAST hit: gi|315123664|ref|YP_004065668.1| flagellar motor switch protein 645464000239 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 645464000240 HMMPfam hit to PF01052; Surface presentation of antigens (SPOA) 645464000241 flagellar motor switch protein FliY; Validated; Region: PRK08432 645464000242 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 645464000243 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 645464000244 HMMPfam hit to PF01052; Surface presentation of antigens (SPOA) 645464000245 HMMPfam hit to PF02154; Flagellar motor switch protein FliM 645464000246 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 645464000247 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645464000248 HMMPfam hit to PF04545; Sigma-70, region 4 645464000249 HMMPfam hit to PF08281; Sigma-70, region 4 645464000250 HMMPfam hit to PF04542; Sigma-70 region 2 645464000251 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 645464000252 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 645464000253 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 645464000254 HMMPfam hit to PF01656; CobQ/CobB/MinD/ParA nucleotide binding domain 645464000255 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 645464000256 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 645464000257 HMMPfam hit to PF00448; SRP54-type protein, GTPase domain 645464000258 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 645464000259 catalytic center binding site [active] 645464000260 ATP binding site [chemical binding]; other site 645464000261 HMMPfam hit to PF01288; 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK) 645464000262 Dehydroquinase class II; Region: DHquinase_II; pfam01220 645464000263 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 645464000264 trimer interface [polypeptide binding]; other site 645464000265 active site 645464000266 dimer interface [polypeptide binding]; other site 645464000267 HMMPfam hit to PF01220; Dehydroquinase class II 645464000268 chlorohydrolase; Provisional; Region: PRK08418 645464000269 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 645464000270 active site 645464000271 HMMPfam hit to PF01979; Amidohydrolase family 645464000272 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 645464000273 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 645464000274 tandem repeat interface [polypeptide binding]; other site 645464000275 oligomer interface [polypeptide binding]; other site 645464000276 active site residues [active] 645464000277 HMMPfam hit to PF01343; Peptidase family S49 645464000278 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 645464000279 Hemerythrin; Region: Hemerythrin; cd12107 645464000280 Fe binding site [ion binding]; other site 645464000281 HMMPfam hit to PF01814; Hemerythrin HHE cation binding domain 645464000282 HMMPfam hit to PF01814; Hemerythrin HHE cation binding domain 645464000283 Uncharacterized conserved protein [Function unknown]; Region: COG1556 645464000284 HMMPfam hit to PF02589; Uncharacterised ACR, YkgG family COG1556 645464000285 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 645464000286 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 645464000287 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 645464000288 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 645464000289 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464000290 HMMPfam hit to PF02589; Uncharacterised ACR, YkgG family COG1556 645464000291 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 645464000292 Cysteine-rich domain; Region: CCG; pfam02754 645464000293 Cysteine-rich domain; Region: CCG; pfam02754 645464000294 HMMPfam hit to PF02754; Cysteine-rich domain 645464000295 HMMPfam hit to PF02754; Cysteine-rich domain 645464000296 L-lactate permease; Region: Lactate_perm; cl00701 645464000297 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 645464000298 HMMPfam hit to PF02652; L-lactate permease 645464000299 HMMPfam hit to PF03600; Citrate transporter 645464000300 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 645464000301 HMMPfam hit to PF03498; Cytolethal distending toxin A/C family 645464000302 CdtB, the catalytic DNase I-like subunit of cytolethal distending toxin (CDT) protein; Region: CdtB; cd09081 645464000303 putative catalytic site [active] 645464000304 CdtC interface [polypeptide binding]; other site 645464000305 heterotrimer interface [polypeptide binding]; other site 645464000306 CdtA interface [polypeptide binding]; other site 645464000307 putative metal binding site [ion binding]; other site 645464000308 putative phosphate binding site [ion binding]; other site 645464000309 HMMPfam hit to PF03372; Endonuclease/Exonuclease/phosphatase family 645464000310 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 645464000311 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 645464000312 putative sugar binding sites [chemical binding]; other site 645464000313 Q-X-W motif; other site 645464000314 HMMPfam hit to PF03498; Cytolethal distending toxin A/C family 645464000315 Cytochrome bd-type quinol oxidase, subunit 1 [Energy production and conversion]; Region: CydA; COG1271 645464000316 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 645464000317 HMMPfam hit to PF01654; Bacterial Cytochrome Ubiquinol Oxidase 645464000318 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 645464000319 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 645464000320 HMMPfam hit to PF02322; Cytochrome oxidase subunit II 645464000321 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 645464000322 aspartate racemase; Region: asp_race; TIGR00035 645464000323 HMMPfam hit to PF01177; Asp/Glu/Hydantoin racemase 645464000324 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 645464000325 ligand binding site [chemical binding]; other site 645464000326 active site 645464000327 UGI interface [polypeptide binding]; other site 645464000328 catalytic site [active] 645464000329 HMMPfam hit to PF03167; Uracil DNA glycosylase superfamily 645464000330 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 645464000331 Aspartase; Region: Aspartase; cd01357 645464000332 active sites [active] 645464000333 tetramer interface [polypeptide binding]; other site 645464000334 HMMPfam hit to PF00206; Lyase 645464000335 HMMPfam hit to PF10415; Fumarase C C-terminus 645464000336 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 645464000337 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 645464000338 HMMPfam hit to PF03600; Citrate transporter 645464000339 HMMPfam hit to PF03605; Anaerobic c4-dicarboxylate membrane transporter 645464000340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 645464000341 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 645464000342 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 645464000343 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 645464000344 putative dimer interface [polypeptide binding]; other site 645464000345 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 645464000346 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 645464000347 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 645464000348 HMMPfam hit to PF00829; Ribosomal prokaryotic L21 protein 645464000349 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 645464000350 HMMPfam hit to PF01016; Ribosomal L27 protein 645464000351 GTPase CgtA; Reviewed; Region: obgE; PRK12299 645464000352 GTP1/OBG; Region: GTP1_OBG; pfam01018 645464000353 Obg GTPase; Region: Obg; cd01898 645464000354 G1 box; other site 645464000355 GTP/Mg2+ binding site [chemical binding]; other site 645464000356 Switch I region; other site 645464000357 G2 box; other site 645464000358 G3 box; other site 645464000359 Switch II region; other site 645464000360 G4 box; other site 645464000361 G5 box; other site 645464000362 HMMPfam hit to PF01018; GTP1/OBG 645464000363 HMMPfam hit to PF01926; GTPase of unknown function 645464000364 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 645464000365 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 645464000366 nucleotide binding site [chemical binding]; other site 645464000367 homotetrameric interface [polypeptide binding]; other site 645464000368 putative phosphate binding site [ion binding]; other site 645464000369 putative allosteric binding site; other site 645464000370 HMMPfam hit to PF00696; Amino acid kinase family 645464000371 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 645464000372 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 645464000373 putative active site [active] 645464000374 substrate binding site [chemical binding]; other site 645464000375 putative cosubstrate binding site; other site 645464000376 catalytic site [active] 645464000377 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 645464000378 substrate binding site [chemical binding]; other site 645464000379 HMMPfam hit to PF00551; Formyl transferase 645464000380 HMMPfam hit to PF02911; Formyl transferase, C-terminal domain 645464000381 biotin--protein ligase; Provisional; Region: PRK08477 645464000382 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 645464000383 HMMPfam hit to PF03099; Biotin/lipoate A/B protein ligase family 645464000384 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 645464000385 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 645464000386 P-loop; other site 645464000387 Magnesium ion binding site [ion binding]; other site 645464000388 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 645464000389 Magnesium ion binding site [ion binding]; other site 645464000390 HMMPfam hit to PF01656; CobQ/CobB/MinD/ParA nucleotide binding domain 645464000391 ParB-like nuclease domain; Region: ParB; smart00470 645464000392 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 645464000393 HMMPfam hit to PF02195; ParB-like nuclease domain 645464000394 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 645464000395 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 645464000396 HMMPfam hit to PF00430; ATP synthase B/B' CF(0) 645464000397 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 645464000398 HMMPfam hit to PF00430; ATP synthase B/B' CF(0) 645464000399 F0F1 ATP synthase subunit delta; Validated; Region: PRK08474 645464000400 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 645464000401 HMMPfam hit to PF00213; ATP synthase delta (OSCP) subunit 645464000402 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 645464000403 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 645464000404 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 645464000405 beta subunit interaction interface [polypeptide binding]; other site 645464000406 Walker A motif; other site 645464000407 ATP binding site [chemical binding]; other site 645464000408 Walker B motif; other site 645464000409 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 645464000410 HMMPfam hit to PF02874; ATP synthase alpha/beta family, beta-barrel domain 645464000411 HMMPfam hit to PF09378; HAS barrel domain 645464000412 HMMPfam hit to PF00006; ATP synthase alpha/beta family, nucleotide-binding domain 645464000413 HMMPfam hit to PF00306; ATP synthase alpha/beta chain, C terminal domain 645464000414 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 645464000415 core domain interface [polypeptide binding]; other site 645464000416 delta subunit interface [polypeptide binding]; other site 645464000417 epsilon subunit interface [polypeptide binding]; other site 645464000418 HMMPfam hit to PF00231; ATP synthase 645464000419 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 645464000420 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 645464000421 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 645464000422 alpha subunit interaction interface [polypeptide binding]; other site 645464000423 Walker A motif; other site 645464000424 ATP binding site [chemical binding]; other site 645464000425 Walker B motif; other site 645464000426 inhibitor binding site; inhibition site 645464000427 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 645464000428 HMMPfam hit to PF02874; ATP synthase alpha/beta family, beta-barrel domain 645464000429 HMMPfam hit to PF00006; ATP synthase alpha/beta family, nucleotide-binding domain 645464000430 HMMPfam hit to PF00306; ATP synthase alpha/beta chain, C terminal domain 645464000431 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 645464000432 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 645464000433 gamma subunit interface [polypeptide binding]; other site 645464000434 epsilon subunit interface [polypeptide binding]; other site 645464000435 LBP interface [polypeptide binding]; other site 645464000436 HMMPfam hit to PF02823; ATP synthase, Delta/Epsilon chain, beta-sandwich domain 645464000437 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 645464000438 HMMPfam hit to PF01618; MotA/TolQ/ExbB proton channel family 645464000439 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 645464000440 TolR protein; Region: tolR; TIGR02801 645464000441 HMMPfam hit to PF02472; Biopolymer transport protein ExbD/TolR 645464000442 TonB C terminal; Region: TonB_2; pfam13103 645464000443 translocation protein TolB; Provisional; Region: tolB; PRK04043 645464000444 HMMPfam hit to PF04052; TolB amino-terminal domain 645464000445 HMMPfam hit to PF07676; WD40-like Beta Propeller Repeat 645464000446 HMMPfam hit to PF07676; WD40-like Beta Propeller Repeat 645464000447 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 645464000448 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 645464000449 ligand binding site [chemical binding]; other site 645464000450 HMMPfam hit to PF00691; OmpA family 645464000451 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 645464000452 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 645464000453 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 645464000454 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 645464000455 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 645464000456 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 645464000457 HMMPfam hit to PF01048; Phosphorylase superfamily 645464000458 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 645464000459 Ligand Binding Site [chemical binding]; other site 645464000460 HMMPfam hit to PF01171; PP-loop family 645464000461 Isochorismatase family; Region: Isochorismatase; pfam00857 645464000462 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 645464000463 catalytic triad [active] 645464000464 conserved cis-peptide bond; other site 645464000465 putative recombination protein RecO; Provisional; Region: PRK13908 645464000466 metal-binding heat shock protein; Provisional; Region: PRK00016 645464000467 HMMPfam hit to PF02130; Uncharacterized protein family UPF0054 645464000468 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 645464000469 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 645464000470 FMN binding site [chemical binding]; other site 645464000471 active site 645464000472 catalytic residues [active] 645464000473 substrate binding site [chemical binding]; other site 645464000474 HMMPfam hit to PF01207; Dihydrouridine synthase (Dus) 645464000475 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 645464000476 HMMPfam hit to PF01258; Prokaryotic dksA/traR C4-type zinc finger 645464000477 Uncharacterized conserved protein [Function unknown]; Region: COG1576 645464000478 HMMPfam hit to PF02590; Predicted SPOUT methyltransferase 645464000479 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 645464000480 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 645464000481 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 645464000482 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 645464000483 putative active site [active] 645464000484 HMMPfam hit to PF00459; Inositol monophosphatase family 645464000485 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 645464000486 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 645464000487 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 645464000488 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 645464000489 Surface antigen; Region: Bac_surface_Ag; pfam01103 645464000490 HMMPfam hit to PF01103; Surface antigen 645464000491 HMMPfam hit to PF07244; Surface antigen variable number repeat 645464000492 HMMPfam hit to PF07244; Surface antigen variable number repeat 645464000493 HMMPfam hit to PF07244; Surface antigen variable number repeat 645464000494 HMMPfam hit to PF07244; Surface antigen variable number repeat 645464000495 HMMPfam hit to PF07244; Surface antigen variable number repeat 645464000496 prephenate dehydrogenase; Validated; Region: PRK08507 645464000497 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 645464000498 HMMPfam hit to PF01210; NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus 645464000499 HMMPfam hit to PF02153; Prephenate dehydrogenase 645464000500 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 645464000501 Peptidase family M23; Region: Peptidase_M23; pfam01551 645464000502 HMMPfam hit to PF01551; Peptidase family M23 645464000503 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 645464000504 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 645464000505 HMMPfam hit to PF03331; UDP-3-O-acyl N-acetylglycosamine deacetylase 645464000506 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 645464000507 Homoserine kinase [Amino acid transport and metabolism]; Region: ThrB; COG0083 645464000508 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 645464000509 HMMPfam hit to PF00288; GHMP kinases N terminal domain 645464000510 Predicted nucleic-acid-binding protein implicated in transcription termination [Transcription]; Region: COG2740 645464000511 putative RNA binding cleft [nucleotide binding]; other site 645464000512 HMMPfam hit to PF04296; Protein of unknown function (DUF448) 645464000513 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 645464000514 translation initiation factor IF-2; Region: IF-2; TIGR00487 645464000515 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 645464000516 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 645464000517 G1 box; other site 645464000518 putative GEF interaction site [polypeptide binding]; other site 645464000519 GTP/Mg2+ binding site [chemical binding]; other site 645464000520 Switch I region; other site 645464000521 G2 box; other site 645464000522 G3 box; other site 645464000523 Switch II region; other site 645464000524 G4 box; other site 645464000525 G5 box; other site 645464000526 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 645464000527 Translation-initiation factor 2; Region: IF-2; pfam11987 645464000528 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 645464000529 HMMPfam hit to PF04760; Translation initiation factor IF-2, N-terminal region 645464000530 HMMPfam hit to PF04760; Translation initiation factor IF-2, N-terminal region 645464000531 HMMPfam hit to PF00009; Elongation factor Tu GTP binding domain 645464000532 HMMPfam hit to PF01926; GTPase of unknown function 645464000533 HMMPfam hit to PF03144; Elongation factor Tu domain 2 645464000534 HMMPfam hit to PF03144; Elongation factor Tu domain 2 645464000535 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 645464000536 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 645464000537 Sm and related proteins; Region: Sm_like; cl00259 645464000538 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 645464000539 putative oligomer interface [polypeptide binding]; other site 645464000540 putative RNA binding site [nucleotide binding]; other site 645464000541 HMMPfam hit to PF02576; Uncharacterised BCR, YhbC family COG0779 645464000542 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 645464000543 HMMPfam hit to PF07728; ATPase family associated with various cellular activities (AAA) 645464000544 McrBC 5-methylcytosine restriction system component [Defense mechanisms]; Region: McrC; COG4268 645464000545 HMMPfam hit to PF10117; McrBC 5-methylcytosine restriction system component 645464000546 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 645464000547 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 645464000548 dimer interface [polypeptide binding]; other site 645464000549 putative PBP binding regions; other site 645464000550 ABC-ATPase subunit interface; other site 645464000551 HMMPfam hit to PF00950; ABC 3 transport family 645464000552 HMMPfam hit to PF01032; FecCD transport family 645464000553 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 645464000554 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 645464000555 HMMPfam hit to PF00005; ABC transporter 645464000556 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 645464000557 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 645464000558 putative metal binding residues [ion binding]; other site 645464000559 HMMPfam hit to PF01297; Periplasmic solute binding protein family 645464000560 potential frameshift: common BLAST hit: gi|157414458|ref|YP_001481714.1| methyl-accepting chemotaxis signal transduction protein 645464000561 Cache domain; Region: Cache_1; pfam02743 645464000562 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 645464000563 dimer interface [polypeptide binding]; other site 645464000564 putative CheW interface [polypeptide binding]; other site 645464000565 HMMPfam hit to PF00015; Methyl-accepting chemotaxis protein (MCP) signaling domain 645464000566 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 645464000567 HMMPfam hit to PF05787; Bacterial protein of unknown function (DUF839) 645464000568 potential frameshift: common BLAST hit: gi|218562073|ref|YP_002343852.1| GMC oxidoreductase subunit 645464000569 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 645464000570 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 645464000571 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 645464000572 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 645464000573 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 645464000574 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 645464000575 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645464000576 HMMPfam hit to PF07992; Pyridine nucleotide-disulphide oxidoreductase 645464000577 HMMPfam hit to PF00070; Pyridine nucleotide-disulphide oxidoreductase 645464000578 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 645464000579 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 645464000580 catalytic residues [active] 645464000581 HMMPfam hit to PF00085; Thioredoxin 645464000582 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 645464000583 HMMPfam hit to PF02021; Uncharacterised protein family UPF0102 645464000584 homoserine dehydrogenase; Provisional; Region: PRK06349 645464000585 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 645464000586 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 645464000587 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 645464000588 HMMPfam hit to PF01842; ACT domain 645464000589 HMMPfam hit to PF00742; Homoserine dehydrogenase 645464000590 HMMPfam hit to PF03447; Homoserine dehydrogenase, NAD binding domain 645464000591 aspartate aminotransferase; Provisional; Region: PRK08636 645464000592 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 645464000593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464000594 homodimer interface [polypeptide binding]; other site 645464000595 catalytic residue [active] 645464000596 HMMPfam hit to PF00155; Aminotransferase class I and II 645464000597 Helix-turn-helix domain; Region: HTH_25; pfam13413 645464000598 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 645464000599 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 645464000600 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 645464000601 HMMPfam hit to PF00588; SpoU rRNA Methylase family 645464000602 HMMPfam hit to PF08032; RNA 2'-O ribose methyltransferase substrate binding 645464000603 Predicted methyltransferases [General function prediction only]; Region: COG0313 645464000604 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 645464000605 putative SAM binding site [chemical binding]; other site 645464000606 putative homodimer interface [polypeptide binding]; other site 645464000607 HMMPfam hit to PF00590; Tetrapyrrole (Corrin/Porphyrin) Methylases 645464000608 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 645464000609 HMMPfam hit to PF01197; Ribosomal protein L31 645464000610 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 645464000611 HMMPfam hit to PF04452; RNA methyltransferase 645464000612 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 645464000613 queuosine biosynthesis protein QueD; Region: queuosine_QueD; TIGR03367 645464000614 active site 645464000615 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 645464000616 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 645464000617 FeS/SAM binding site; other site 645464000618 HMMPfam hit to PF04055; Radical SAM superfamily 645464000619 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 645464000620 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 645464000621 FeS/SAM binding site; other site 645464000622 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 645464000623 HMMPfam hit to PF06463; Molybdenum Cofactor Synthesis C 645464000624 HMMPfam hit to PF04055; Radical SAM superfamily 645464000625 prenyltransferase; Reviewed; Region: ubiA; PRK12874 645464000626 UbiA prenyltransferase family; Region: UbiA; pfam01040 645464000627 HMMPfam hit to PF01040; UbiA prenyltransferase family 645464000628 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 645464000629 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 645464000630 HMMPfam hit to PF01715; IPP transferase 645464000631 Predicted membrane protein [Function unknown]; Region: COG1971 645464000632 Domain of unknown function DUF; Region: DUF204; pfam02659 645464000633 HMMPfam hit to PF02659; Domain of unknown function DUF 645464000634 HMMPfam hit to PF02659; Domain of unknown function DUF 645464000635 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 645464000636 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 645464000637 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 645464000638 HMMPfam hit to PF00081; Iron/manganese superoxide dismutases, alpha-hairpin domain 645464000639 HMMPfam hit to PF02777; Iron/manganese superoxide dismutases, C-terminal domain 645464000640 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 645464000641 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 645464000642 NAD(P) binding pocket [chemical binding]; other site 645464000643 HMMPfam hit to PF03435; Saccharopine dehydrogenase 645464000644 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 645464000645 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 645464000646 Walker A/P-loop; other site 645464000647 ATP binding site [chemical binding]; other site 645464000648 Q-loop/lid; other site 645464000649 ABC transporter signature motif; other site 645464000650 Walker B; other site 645464000651 D-loop; other site 645464000652 H-loop/switch region; other site 645464000653 HMMPfam hit to PF00005; ABC transporter 645464000654 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 645464000655 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 645464000656 dimer interface [polypeptide binding]; other site 645464000657 conserved gate region; other site 645464000658 putative PBP binding loops; other site 645464000659 ABC-ATPase subunit interface; other site 645464000660 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 645464000661 dimer interface [polypeptide binding]; other site 645464000662 conserved gate region; other site 645464000663 putative PBP binding loops; other site 645464000664 ABC-ATPase subunit interface; other site 645464000665 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464000666 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 645464000667 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 645464000668 HMMPfam hit to PF01547; Bacterial extracellular solute-binding protein 645464000669 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 645464000670 HMMPfam hit to PF06472; ABC transporter transmembrane region 2 645464000671 HMMPfam hit to PF05992; SbmA/BacA-like family 645464000672 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 645464000673 Domain of unknown function DUF21; Region: DUF21; pfam01595 645464000674 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 645464000675 Transporter associated domain; Region: CorC_HlyC; smart01091 645464000676 HMMPfam hit to PF01595; Domain of unknown function DUF21 645464000677 HMMPfam hit to PF00571; CBS domain pair 645464000678 HMMPfam hit to PF03471; Transporter associated domain 645464000679 Predicted kinase [General function prediction only]; Region: COG4639 645464000680 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 645464000681 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 645464000682 active site 645464000683 metal binding site [ion binding]; metal-binding site 645464000684 HMMPfam hit to PF00149; Calcineurin-like phosphoesterase 645464000685 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 645464000686 PhnA protein; Region: PhnA; pfam03831 645464000687 HMMPfam hit to PF03831; PhnA protein 645464000688 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 645464000689 HMMPfam hit to PF03741; Integral membrane protein TerC family 645464000690 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 645464000691 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 645464000692 active site 645464000693 substrate binding site [chemical binding]; other site 645464000694 cosubstrate binding site; other site 645464000695 catalytic site [active] 645464000696 HMMPfam hit to PF00551; Formyl transferase 645464000697 Uncharacterized conserved protein [Function unknown]; Region: COG0062 645464000698 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 645464000699 putative substrate binding site [chemical binding]; other site 645464000700 putative ATP binding site [chemical binding]; other site 645464000701 HMMPfam hit to PF01256; Carbohydrate kinase 645464000702 HMMPfam hit to PF03853; YjeF-related protein N-terminus 645464000703 Uncharacterized conserved protein [Function unknown]; Region: COG1432 645464000704 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 645464000705 putative metal binding site [ion binding]; other site 645464000706 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 645464000707 HMMPfam hit to PF01936; Protein of unknown function DUF88 645464000708 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 645464000709 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 645464000710 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 645464000711 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 645464000712 HMMPfam hit to PF01078; Magnesium chelatase, subunit ChlI 645464000713 HMMPfam hit to PF07728; ATPase family associated with various cellular activities (AAA) 645464000714 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 645464000715 active site 645464000716 catalytic residues [active] 645464000717 metal binding site [ion binding]; metal-binding site 645464000718 HMMPfam hit to PF01327; Polypeptide deformylase 645464000719 Clp protease; Region: CLP_protease; pfam00574 645464000720 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 645464000721 oligomer interface [polypeptide binding]; other site 645464000722 active site residues [active] 645464000723 HMMPfam hit to PF00574; Clp protease 645464000724 trigger factor; Provisional; Region: tig; PRK01490 645464000725 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 645464000726 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 645464000727 HMMPfam hit to PF05698; Bacterial trigger factor protein (TF) C-terminus 645464000728 HMMPfam hit to PF00254; FKBP-type peptidyl-prolyl cis-trans isomerase 645464000729 HMMPfam hit to PF05697; Bacterial trigger factor protein (TF) 645464000730 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 645464000731 homodecamer interface [polypeptide binding]; other site 645464000732 GTP cyclohydrolase I; Provisional; Region: PLN03044 645464000733 active site 645464000734 putative catalytic site residues [active] 645464000735 zinc binding site [ion binding]; other site 645464000736 GTP-CH-I/GFRP interaction surface; other site 645464000737 HMMPfam hit to PF01227; GTP cyclohydrolase I 645464000738 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 645464000739 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 645464000740 Walker A motif/ATP binding site; other site 645464000741 Walker B motif; other site 645464000742 HMMPfam hit to PF00006; ATP synthase alpha/beta family, nucleotide-binding domain 645464000743 amidophosphoribosyltransferase; Provisional; Region: PRK08525 645464000744 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 645464000745 active site 645464000746 tetramer interface [polypeptide binding]; other site 645464000747 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645464000748 active site 645464000749 HMMPfam hit to PF00156; Phosphoribosyl transferase domain 645464000750 HMMPfam hit to PF00310; Glutamine amidotransferases class-II 645464000751 dihydrodipicolinate reductase; Provisional; Region: PRK00048 645464000752 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 645464000753 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 645464000754 HMMPfam hit to PF05173; Dihydrodipicolinate reductase, C-terminus 645464000755 HMMPfam hit to PF01113; Dihydrodipicolinate reductase, N-terminus 645464000756 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 645464000757 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 645464000758 Walker A motif; other site 645464000759 ATP binding site [chemical binding]; other site 645464000760 Walker B motif; other site 645464000761 arginine finger; other site 645464000762 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 645464000763 HMMPfam hit to PF00004; ATPase family associated with various cellular activities (AAA) 645464000764 DNA polymerase III PolC; Validated; Region: polC; PRK00448 645464000765 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 645464000766 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 645464000767 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 645464000768 Citrate transporter; Region: CitMHS; pfam03600 645464000769 HMMPfam hit to PF03600; Citrate transporter 645464000770 HMMPfam hit to PF06808; DctM-like transporters 645464000771 Predicted membrane protein [Function unknown]; Region: COG1297 645464000772 putative oligopeptide transporter, OPT family; Region: TIGR00733 645464000773 HMMPfam hit to PF03169; OPT oligopeptide transporter protein 645464000774 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 645464000775 HMMPfam hit to PF02673; Bacitracin resistance protein BacA 645464000776 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 645464000777 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 645464000778 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 645464000779 active site 645464000780 dimer interface [polypeptide binding]; other site 645464000781 motif 1; other site 645464000782 motif 2; other site 645464000783 motif 3; other site 645464000784 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 645464000785 anticodon binding site; other site 645464000786 HMMPfam hit to PF07973; Threonyl and Alanyl tRNA synthetase second additional domain 645464000787 HMMPfam hit to PF00587; tRNA synthetase class II core domain (G, H, P, S and T) 645464000788 HMMPfam hit to PF03129; Anticodon binding domain 645464000789 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 645464000790 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 645464000791 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 645464000792 HMMPfam hit to PF05198; Translation initiation factor IF-3, N-terminal domain 645464000793 HMMPfam hit to PF00707; Translation initiation factor IF-3, C-terminal domain 645464000794 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 645464000795 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 645464000796 HMMPfam hit to PF02086; D12 class N6 adenine-specific DNA methyltransferase 645464000797 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 645464000798 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 645464000799 Autotransporter beta-domain; Region: Autotransporter; smart00869 645464000800 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 645464000801 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 645464000802 HMMPfam hit to PF01118; Semialdehyde dehydrogenase, NAD binding domain 645464000803 HMMPfam hit to PF02774; Semialdehyde dehydrogenase, dimerisation domain 645464000804 putative acetyltransferase; Provisional; Region: PRK03624 645464000805 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645464000806 Coenzyme A binding pocket [chemical binding]; other site 645464000807 HMMPfam hit to PF00583; Acetyltransferase (GNAT) family 645464000808 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 645464000809 feedback inhibition sensing region; other site 645464000810 homohexameric interface [polypeptide binding]; other site 645464000811 nucleotide binding site [chemical binding]; other site 645464000812 N-acetyl-L-glutamate binding site [chemical binding]; other site 645464000813 HMMPfam hit to PF00696; Amino acid kinase family 645464000814 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 645464000815 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 645464000816 inhibitor-cofactor binding pocket; inhibition site 645464000817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464000818 catalytic residue [active] 645464000819 HMMPfam hit to PF00202; Aminotransferase class-III 645464000820 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 645464000821 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 645464000822 S-adenosylmethionine binding site [chemical binding]; other site 645464000823 HMMPfam hit to PF01135; Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT) 645464000824 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 645464000825 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 645464000826 trimer interface [polypeptide binding]; other site 645464000827 putative metal binding site [ion binding]; other site 645464000828 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464000829 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464000830 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464000831 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464000832 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464000833 putative nicotinate phosphoribosyltransferase; Region: NAPRTase_put; TIGR01513 645464000834 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 645464000835 active site 645464000836 HMMPfam hit to PF04095; Nicotinate phosphoribosyltransferase (NAPRTase) family 645464000837 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 645464000838 dimer interface [polypeptide binding]; other site 645464000839 putative radical transfer pathway; other site 645464000840 diiron center [ion binding]; other site 645464000841 tyrosyl radical; other site 645464000842 HMMPfam hit to PF00268; Ribonucleotide reductase, small chain 645464000843 RDD family; Region: RDD; pfam06271 645464000844 HMMPfam hit to PF06271; RDD family 645464000845 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645464000846 active site 645464000847 HMMPfam hit to PF00156; Phosphoribosyl transferase domain 645464000848 ribosome recycling factor; Reviewed; Region: frr; PRK00083 645464000849 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 645464000850 hinge region; other site 645464000851 HMMPfam hit to PF01765; Ribosome recycling factor 645464000852 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 645464000853 HMMPfam hit to PF03840; Preprotein translocase SecG subunit 645464000854 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 645464000855 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 645464000856 HMMPfam hit to PF01027; Uncharacterised protein family UPF0005 645464000857 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 645464000858 active site clefts [active] 645464000859 zinc binding site [ion binding]; other site 645464000860 dimer interface [polypeptide binding]; other site 645464000861 HMMPfam hit to PF00484; Carbonic anhydrase 645464000862 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 645464000863 Mechanosensitive ion channel; Region: MS_channel; pfam00924 645464000864 HMMPfam hit to PF00924; Mechanosensitive ion channel 645464000865 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 645464000866 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 645464000867 trimerization site [polypeptide binding]; other site 645464000868 active site 645464000869 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 645464000870 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 645464000871 HMMPfam hit to PF01106; NifU-like domain 645464000872 HMMPfam hit to PF04324; BFD-like [2Fe-2S] binding domain 645464000873 HMMPfam hit to PF01592; NifU-like N terminal domain 645464000874 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 645464000875 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 645464000876 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645464000877 catalytic residue [active] 645464000878 HMMPfam hit to PF00266; Aminotransferase class-V 645464000879 Hemerythrin; Region: Hemerythrin; cd12107 645464000880 Fe binding site [ion binding]; other site 645464000881 HMMPfam hit to PF01814; Hemerythrin HHE cation binding domain 645464000882 HMMPfam hit to PF01814; Hemerythrin HHE cation binding domain 645464000883 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 645464000884 HMMPfam hit to PF01632; Ribosomal protein L35 645464000885 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 645464000886 23S rRNA binding site [nucleotide binding]; other site 645464000887 L21 binding site [polypeptide binding]; other site 645464000888 L13 binding site [polypeptide binding]; other site 645464000889 HMMPfam hit to PF00453; Ribosomal protein L20 645464000890 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 645464000891 dimer interface [polypeptide binding]; other site 645464000892 putative CheW interface [polypeptide binding]; other site 645464000893 HMMPfam hit to PF00015; Methyl-accepting chemotaxis protein (MCP) signaling domain 645464000894 FIST N domain; Region: FIST; cl10701 645464000895 FIST C domain; Region: FIST_C; pfam10442 645464000896 HMMPfam hit to PF08495; FIST N domain 645464000897 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 645464000898 HMMPfam hit to PF08668; HDOD domain 645464000899 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 645464000900 metabolite-proton symporter; Region: 2A0106; TIGR00883 645464000901 putative substrate translocation pore; other site 645464000902 HMMPfam hit to PF00083; Sugar (and other) transporter 645464000903 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464000904 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 645464000905 trimer interface [polypeptide binding]; other site 645464000906 dimer interface [polypeptide binding]; other site 645464000907 putative active site [active] 645464000908 HMMPfam hit to PF01967; MoaC family 645464000909 Protein of unknown function (DUF493); Region: DUF493; pfam04359 645464000910 potential frameshift: common BLAST hit: gi|121613613|ref|YP_999970.1| exodeoxyribonuclease III 645464000911 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 645464000912 putative catalytic site [active] 645464000913 putative phosphate binding site [ion binding]; other site 645464000914 putative metal binding site [ion binding]; other site 645464000915 HMMPfam hit to PF03372; Endonuclease/Exonuclease/phosphatase family 645464000916 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 645464000917 putative metal binding site [ion binding]; other site 645464000918 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 645464000919 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 645464000920 Sulfatase; Region: Sulfatase; pfam00884 645464000921 HMMPfam hit to PF08019; Domain of unknown function (DUF1705) 645464000922 HMMPfam hit to PF00884; Sulfatase 645464000923 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 645464000924 HMMPfam hit to PF01219; Prokaryotic diacylglycerol kinase 645464000925 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 645464000926 active site 645464000927 substrate binding pocket [chemical binding]; other site 645464000928 dimer interface [polypeptide binding]; other site 645464000929 HMMPfam hit to PF04909; Amidohydrolase 645464000930 Methyltransferase domain; Region: Methyltransf_31; pfam13847 645464000931 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 645464000932 S-adenosylmethionine binding site [chemical binding]; other site 645464000933 Cache domain; Region: Cache_1; pfam02743 645464000934 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 645464000935 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 645464000936 dimer interface [polypeptide binding]; other site 645464000937 putative CheW interface [polypeptide binding]; other site 645464000938 HMMPfam hit to PF00015; Methyl-accepting chemotaxis protein (MCP) signaling domain 645464000939 HMMPfam hit to PF00672; HAMP domain 645464000940 potential frameshift: common BLAST hit: gi|218561926|ref|YP_002343705.1| zinc transporter ZupT 645464000941 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 645464000942 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 645464000943 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 645464000944 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 645464000945 molybdopterin cofactor binding site [chemical binding]; other site 645464000946 substrate binding site [chemical binding]; other site 645464000947 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 645464000948 molybdopterin cofactor binding site; other site 645464000949 HMMPfam hit to PF01568; Molydopterin dinucleotide binding domain 645464000950 HMMPfam hit to PF00384; Molybdopterin oxidoreductase 645464000951 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 645464000952 Cytochrome c; Region: Cytochrom_C; cl11414 645464000953 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 645464000954 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 645464000955 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 645464000956 SPFH domain / Band 7 family; Region: Band_7; pfam01145 645464000957 HMMPfam hit to PF01145; SPFH domain / Band 7 family 645464000958 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 645464000959 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 645464000960 homodimer interface [polypeptide binding]; other site 645464000961 substrate-cofactor binding pocket; other site 645464000962 catalytic residue [active] 645464000963 HMMPfam hit to PF01063; Aminotransferase class IV 645464000964 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 645464000965 active site 1 [active] 645464000966 dimer interface [polypeptide binding]; other site 645464000967 hexamer interface [polypeptide binding]; other site 645464000968 active site 2 [active] 645464000969 HMMPfam hit to PF01361; Tautomerase enzyme 645464000970 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 645464000971 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 645464000972 catalytic triad [active] 645464000973 HMMPfam hit to PF08534; Redoxin 645464000974 HMMPfam hit to PF00578; AhpC/TSA family 645464000975 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 645464000976 Ligand Binding Site [chemical binding]; other site 645464000977 HMMPfam hit to PF02677; Uncharacterized BCR, COG1636 645464000978 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 645464000979 HMMPfam hit to PF07977; FabA-like domain 645464000980 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 645464000981 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 645464000982 active site 645464000983 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464000984 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464000985 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464000986 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464000987 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464000988 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464000989 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464000990 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 645464000991 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 645464000992 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 645464000993 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 645464000994 Walker A motif; other site 645464000995 ATP binding site [chemical binding]; other site 645464000996 Walker B motif; other site 645464000997 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 645464000998 HMMPfam hit to PF06689; ClpX C4-type zinc finger 645464000999 HMMPfam hit to PF07724; ATPase family associated with various cellular activities (AAA) 645464001000 HMMPfam hit to PF00004; ATPase family associated with various cellular activities (AAA) 645464001001 HMMPfam hit to PF10431; C-terminal, D2-small domain, of ClpB protein 645464001002 rod shape-determining protein MreB; Provisional; Region: PRK13927 645464001003 MreB and similar proteins; Region: MreB_like; cd10225 645464001004 nucleotide binding site [chemical binding]; other site 645464001005 Mg binding site [ion binding]; other site 645464001006 putative protofilament interaction site [polypeptide binding]; other site 645464001007 RodZ interaction site [polypeptide binding]; other site 645464001008 HMMPfam hit to PF06723; MreB/Mbl protein 645464001009 HMMPfam hit to PF02491; Cell division protein FtsA 645464001010 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 645464001011 rod shape-determining protein MreC; Region: MreC; pfam04085 645464001012 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 645464001013 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 645464001014 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 645464001015 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 645464001016 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 645464001017 ATP-grasp domain; Region: ATP-grasp_4; cl17255 645464001018 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 645464001019 IMP binding site; other site 645464001020 dimer interface [polypeptide binding]; other site 645464001021 interdomain contacts; other site 645464001022 partial ornithine binding site; other site 645464001023 HMMPfam hit to PF00289; Carbamoyl-phosphate synthase L chain, N-terminal domain 645464001024 HMMPfam hit to PF02786; Carbamoyl-phosphate synthase L chain, ATP binding domain 645464001025 HMMPfam hit to PF02787; Carbamoyl-phosphate synthetase large chain, oligomerisation domain 645464001026 HMMPfam hit to PF00289; Carbamoyl-phosphate synthase L chain, N-terminal domain 645464001027 HMMPfam hit to PF08443; RimK-like ATP-grasp domain 645464001028 HMMPfam hit to PF02655; ATP-grasp domain 645464001029 HMMPfam hit to PF02786; Carbamoyl-phosphate synthase L chain, ATP binding domain 645464001030 HMMPfam hit to PF02222; ATP-grasp domain 645464001031 HMMPfam hit to PF02142; MGS-like domain 645464001032 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 645464001033 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 645464001034 putative active site [active] 645464001035 transaldolase; Provisional; Region: PRK03903 645464001036 catalytic residue [active] 645464001037 HMMPfam hit to PF00923; Transaldolase 645464001038 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 645464001039 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 645464001040 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 645464001041 motif II; other site 645464001042 HMMPfam hit to PF00702; haloacid dehalogenase-like hydrolase 645464001043 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 645464001044 putative CheA interaction surface; other site 645464001045 HMMPfam hit to PF01584; CheW-like domain 645464001046 chemotaxis protein CheA; Provisional; Region: PRK10547 645464001047 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 645464001048 putative binding surface; other site 645464001049 active site 645464001050 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 645464001051 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 645464001052 ATP binding site [chemical binding]; other site 645464001053 Mg2+ binding site [ion binding]; other site 645464001054 G-X-G motif; other site 645464001055 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 645464001056 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 645464001057 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 645464001058 active site 645464001059 phosphorylation site [posttranslational modification] 645464001060 intermolecular recognition site; other site 645464001061 dimerization interface [polypeptide binding]; other site 645464001062 HMMPfam hit to PF00072; Response regulator receiver domain 645464001063 HMMPfam hit to PF01584; CheW-like domain 645464001064 HMMPfam hit to PF02518; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 645464001065 HMMPfam hit to PF02895; Signal transducing histidine kinase, homodimeric domain 645464001066 HMMPfam hit to PF01627; Hpt domain 645464001067 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 645464001068 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 645464001069 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 645464001070 active site 645464001071 phosphorylation site [posttranslational modification] 645464001072 intermolecular recognition site; other site 645464001073 dimerization interface [polypeptide binding]; other site 645464001074 HMMPfam hit to PF00072; Response regulator receiver domain 645464001075 HMMPfam hit to PF01584; CheW-like domain 645464001076 active site 645464001077 metal binding site [ion binding]; metal-binding site 645464001078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2908 645464001079 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 645464001080 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 645464001081 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 645464001082 HMMPfam hit to PF01272; Prokaryotic transcription elongation factor, GreA/GreB, C-terminal domain 645464001083 HMMPfam hit to PF03449; Prokaryotic transcription elongation factor, GreA/GreB, N-terminal domain 645464001084 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 645464001085 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 645464001086 HMMPfam hit to PF02684; Lipid-A-disaccharide synthetase 645464001087 Accessory colonization factor AcfC, contains ABC-type periplasmic domain [General function prediction only]; Region: AcfC; COG4588 645464001088 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 645464001089 HMMPfam hit to PF01547; Bacterial extracellular solute-binding protein 645464001090 potential frameshift: common BLAST hit: gi|315123866|ref|YP_004065870.1| glycerol-3-phosphate transporter 645464001091 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 645464001092 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 645464001093 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 645464001094 HMMPfam hit to PF01975; Survival protein SurE 645464001095 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 645464001096 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 645464001097 ATP binding site [chemical binding]; other site 645464001098 substrate interface [chemical binding]; other site 645464001099 HMMPfam hit to PF00899; ThiF family 645464001100 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 645464001101 HMMPfam hit to PF00905; Penicillin binding protein transpeptidase domain 645464001102 CAAX protease self-immunity; Region: Abi; pfam02517 645464001103 HMMPfam hit to PF02517; CAAX amino terminal protease family 645464001104 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 645464001105 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645464001106 Walker A/P-loop; other site 645464001107 ATP binding site [chemical binding]; other site 645464001108 Q-loop/lid; other site 645464001109 ABC transporter signature motif; other site 645464001110 Walker B; other site 645464001111 D-loop; other site 645464001112 H-loop/switch region; other site 645464001113 HMMPfam hit to PF00005; ABC transporter 645464001114 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 645464001115 dimer interface [polypeptide binding]; other site 645464001116 conserved gate region; other site 645464001117 putative PBP binding loops; other site 645464001118 ABC-ATPase subunit interface; other site 645464001119 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464001120 TOBE domain; Region: TOBE; cl01440 645464001121 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 645464001122 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 645464001123 HMMPfam hit to PF01547; Bacterial extracellular solute-binding protein 645464001124 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 645464001125 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 645464001126 S-adenosylmethionine binding site [chemical binding]; other site 645464001127 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 645464001128 HMMPfam hit to PF08242; Methyltransferase domain 645464001129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2830 645464001130 HMMPfam hit to PF04301; Protein of unknown function (DUF452) 645464001131 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 645464001132 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 645464001133 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645464001134 catalytic residue [active] 645464001135 HMMPfam hit to PF00155; Aminotransferase class I and II 645464001136 potential frameshift: common BLAST hit: gi|218561966|ref|YP_002343745.1| adenosylmethionine-8-amino-7-oxononanoate aminotransferase 645464001137 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 645464001138 HMMPfam hit to PF00202; Aminotransferase class-III 645464001139 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 645464001140 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645464001141 catalytic residue [active] 645464001142 HMMPfam hit to PF00202; Aminotransferase class-III 645464001143 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 645464001144 AAA domain; Region: AAA_26; pfam13500 645464001145 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 645464001146 HMMPfam hit to PF00893; Small Multidrug Resistance protein 645464001147 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 645464001148 HMMPfam hit to PF00893; Small Multidrug Resistance protein 645464001149 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 645464001150 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 645464001151 5S rRNA interface [nucleotide binding]; other site 645464001152 CTC domain interface [polypeptide binding]; other site 645464001153 L16 interface [polypeptide binding]; other site 645464001154 HMMPfam hit to PF01386; Ribosomal L25p family 645464001155 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 645464001156 putative active site [active] 645464001157 catalytic residue [active] 645464001158 HMMPfam hit to PF01195; Peptidyl-tRNA hydrolase 645464001159 Predicted permeases [General function prediction only]; Region: COG0795 645464001160 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 645464001161 HMMPfam hit to PF03739; Predicted permease YjgP/YjgQ family 645464001162 diaminopimelate decarboxylase; Region: lysA; TIGR01048 645464001163 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 645464001164 active site 645464001165 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 645464001166 substrate binding site [chemical binding]; other site 645464001167 catalytic residues [active] 645464001168 dimer interface [polypeptide binding]; other site 645464001169 HMMPfam hit to PF02784; Pyridoxal-dependent decarboxylase, pyridoxal binding domain 645464001170 HMMPfam hit to PF00278; Pyridoxal-dependent decarboxylase, C-terminal sheet domain 645464001171 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 645464001172 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 645464001173 active site 645464001174 motif I; other site 645464001175 motif II; other site 645464001176 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 645464001177 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 645464001178 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 645464001179 Prephenate dehydratase; Region: PDT; pfam00800 645464001180 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 645464001181 putative L-Phe binding site [chemical binding]; other site 645464001182 HMMPfam hit to PF01817; Chorismate mutase type II 645464001183 HMMPfam hit to PF00800; Prephenate dehydratase 645464001184 HMMPfam hit to PF01842; ACT domain 645464001185 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 645464001186 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 645464001187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464001188 homodimer interface [polypeptide binding]; other site 645464001189 catalytic residue [active] 645464001190 HMMPfam hit to PF00155; Aminotransferase class I and II 645464001191 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 645464001192 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 645464001193 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 645464001194 HMMPfam hit to PF01514; Secretory protein of YscJ/FliF family 645464001195 HMMPfam hit to PF08345; Flagellar M-ring protein C-terminal 645464001196 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 645464001197 FliG C-terminal domain; Region: FliG_C; pfam01706 645464001198 HMMPfam hit to PF01706; FliG C-terminal domain 645464001199 flagellar assembly protein H; Validated; Region: fliH; PRK06669 645464001200 Flagellar assembly protein FliH; Region: FliH; pfam02108 645464001201 HMMPfam hit to PF02108; Flagellar assembly protein FliH 645464001202 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 645464001203 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 645464001204 TPP-binding site; other site 645464001205 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 645464001206 PYR/PP interface [polypeptide binding]; other site 645464001207 dimer interface [polypeptide binding]; other site 645464001208 TPP binding site [chemical binding]; other site 645464001209 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 645464001210 HMMPfam hit to PF02779; Transketolase, pyrimidine binding domain 645464001211 HMMPfam hit to PF02780; Transketolase, C-terminal domain 645464001212 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 645464001213 metal binding site 2 [ion binding]; metal-binding site 645464001214 putative DNA binding helix; other site 645464001215 metal binding site 1 [ion binding]; metal-binding site 645464001216 structural Zn2+ binding site [ion binding]; other site 645464001217 HMMPfam hit to PF01475; Ferric uptake regulator family 645464001218 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 645464001219 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 645464001220 S-adenosylmethionine binding site [chemical binding]; other site 645464001221 HMMPfam hit to PF01209; ubiE/COQ5 methyltransferase family 645464001222 HMMPfam hit to PF08241; Methyltransferase domain 645464001223 HMMPfam hit to PF08242; Methyltransferase domain 645464001224 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 645464001225 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 645464001226 generic binding surface II; other site 645464001227 generic binding surface I; other site 645464001228 HMMPfam hit to PF01336; OB-fold nucleic acid binding domain 645464001229 HMMPfam hit to PF02601; Exonuclease VII, large subunit 645464001230 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 645464001231 homodimer interface [polypeptide binding]; other site 645464001232 substrate-cofactor binding pocket; other site 645464001233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464001234 catalytic residue [active] 645464001235 HMMPfam hit to PF00266; Aminotransferase class-V 645464001236 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 645464001237 homotrimer interaction site [polypeptide binding]; other site 645464001238 putative active site [active] 645464001239 HMMPfam hit to PF01042; Endoribonuclease L-PSP 645464001240 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 645464001241 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 645464001242 dimer interface [polypeptide binding]; other site 645464001243 active site 645464001244 CoA binding pocket [chemical binding]; other site 645464001245 HMMPfam hit to PF08541; 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal 645464001246 HMMPfam hit to PF08545; 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III 645464001247 putative phosphate acyltransferase; Provisional; Region: PRK05331 645464001248 HMMPfam hit to PF02504; Fatty acid synthesis protein 645464001249 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 645464001250 HMMPfam hit to PF01783; Ribosomal L32p protein family 645464001251 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 645464001252 active site 645464001253 multimer interface [polypeptide binding]; other site 645464001254 HMMPfam hit to PF00334; Nucleoside diphosphate kinase 645464001255 Ferredoxin [Energy production and conversion]; Region: COG1146 645464001256 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464001257 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 645464001258 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 645464001259 dimer interface [polypeptide binding]; other site 645464001260 decamer (pentamer of dimers) interface [polypeptide binding]; other site 645464001261 catalytic triad [active] 645464001262 peroxidatic and resolving cysteines [active] 645464001263 HMMPfam hit to PF08534; Redoxin 645464001264 HMMPfam hit to PF00578; AhpC/TSA family 645464001265 HMMPfam hit to PF10417; C-terminal domain of 1-Cys peroxiredoxin 645464001266 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 645464001267 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 645464001268 HMMPfam hit to PF01312; FlhB HrpN YscU SpaS Family 645464001269 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 645464001270 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 645464001271 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 645464001272 ligand binding site [chemical binding]; other site 645464001273 HMMPfam hit to PF00691; OmpA family 645464001274 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 645464001275 flagellar motor protein MotA; Validated; Region: PRK08456 645464001276 HMMPfam hit to PF01618; MotA/TolQ/ExbB proton channel family 645464001277 DNA polymerase I; Provisional; Region: PRK05755 645464001278 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 645464001279 active site 645464001280 metal binding site 1 [ion binding]; metal-binding site 645464001281 putative 5' ssDNA interaction site; other site 645464001282 metal binding site 3; metal-binding site 645464001283 metal binding site 2 [ion binding]; metal-binding site 645464001284 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 645464001285 putative DNA binding site [nucleotide binding]; other site 645464001286 putative metal binding site [ion binding]; other site 645464001287 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 645464001288 active site 645464001289 catalytic site [active] 645464001290 substrate binding site [chemical binding]; other site 645464001291 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 645464001292 active site 645464001293 DNA binding site [nucleotide binding] 645464001294 catalytic site [active] 645464001295 HMMPfam hit to PF00476; DNA polymerase family A 645464001296 HMMPfam hit to PF01612; 3'-5' exonuclease 645464001297 HMMPfam hit to PF01367; 5'-3' exonuclease, C-terminal SAM fold 645464001298 HMMPfam hit to PF02739; 5'-3' exonuclease, N-terminal resolvase-like domain 645464001299 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 645464001300 metabolite-proton symporter; Region: 2A0106; TIGR00883 645464001301 putative substrate translocation pore; other site 645464001302 HMMPfam hit to PF00083; Sugar (and other) transporter 645464001303 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464001304 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 645464001305 active site 645464001306 HMMPfam hit to PF01156; Inosine-uridine preferring nucleoside hydrolase 645464001307 Predicted membrane protein [Function unknown]; Region: COG1238 645464001308 HMMPfam hit to PF09335; SNARE associated Golgi protein 645464001309 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 645464001310 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 645464001311 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 645464001312 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 645464001313 HMMPfam hit to PF00005; ABC transporter 645464001314 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 645464001315 HMMPfam hit to PF01925; Domain of unknown function DUF81 645464001316 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 645464001317 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 645464001318 HMMPfam hit to PF00425; chorismate binding enzyme 645464001319 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 645464001320 Glutamine amidotransferase class-I; Region: GATase; pfam00117 645464001321 glutamine binding [chemical binding]; other site 645464001322 catalytic triad [active] 645464001323 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 645464001324 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 645464001325 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 645464001326 HMMPfam hit to PF00117; Glutamine amidotransferase class-I 645464001327 HMMPfam hit to PF00591; Glycosyl transferase family, a/b domain 645464001328 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 645464001329 active site 645464001330 HMMPfam hit to PF00697; N-(5'phosphoribosyl)anthranilate (PRA) isomerase 645464001331 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 645464001332 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 645464001333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464001334 catalytic residue [active] 645464001335 HMMPfam hit to PF00291; Pyridoxal-phosphate dependent enzyme 645464001336 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 645464001337 substrate binding site [chemical binding]; other site 645464001338 active site 645464001339 catalytic residues [active] 645464001340 heterodimer interface [polypeptide binding]; other site 645464001341 HMMPfam hit to PF00290; Tryptophan synthase alpha chain 645464001342 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 645464001343 flagellar motor switch protein; Validated; Region: PRK08433 645464001344 HMMPfam hit to PF01052; Surface presentation of antigens (SPOA) 645464001345 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 645464001346 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 645464001347 HMMPfam hit to PF02541; Ppx/GppA phosphatase family 645464001348 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 645464001349 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645464001350 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 645464001351 active site 645464001352 phosphorylation site [posttranslational modification] 645464001353 intermolecular recognition site; other site 645464001354 dimerization interface [polypeptide binding]; other site 645464001355 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 645464001356 DNA binding site [nucleotide binding] 645464001357 HMMPfam hit to PF00486; Transcriptional regulatory protein, C terminal 645464001358 HMMPfam hit to PF00072; Response regulator receiver domain 645464001359 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 645464001360 HMMPfam hit to PF02152; Dihydroneopterin aldolase 645464001361 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 645464001362 HMMPfam hit to PF02660; Domain of unknown function DUF 645464001363 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 645464001364 HMMPfam hit to PF03150; Di-haem cytochrome c peroxidase 645464001365 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 645464001366 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 645464001367 active site 645464001368 substrate binding site [chemical binding]; other site 645464001369 metal binding site [ion binding]; metal-binding site 645464001370 HMMPfam hit to PF02878; Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I 645464001371 HMMPfam hit to PF02879; Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II 645464001372 HMMPfam hit to PF02880; Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain III 645464001373 HMMPfam hit to PF00408; Phosphoglucomutase/phosphomannomutase, C-terminal domain 645464001374 Lipoprotein signal peptidase [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: LspA; COG0597 645464001375 HMMPfam hit to PF01252; Signal peptidase (SPase) II 645464001376 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 645464001377 HMMPfam hit to PF03653; Uncharacterised protein family (UPF0093) 645464001378 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 645464001379 HMMPfam hit to PF04055; Radical SAM superfamily 645464001380 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 645464001381 HMMPfam hit to PF02321; Outer membrane efflux protein 645464001382 HMMPfam hit to PF02321; Outer membrane efflux protein 645464001383 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 645464001384 Protein export membrane protein; Region: SecD_SecF; cl14618 645464001385 HMMPfam hit to PF00873; AcrB/AcrD/AcrF family 645464001386 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 645464001387 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 645464001388 E3 interaction surface; other site 645464001389 lipoyl attachment site [posttranslational modification]; other site 645464001390 HlyD family secretion protein; Region: HlyD_3; pfam13437 645464001391 HMMPfam hit to PF00529; HlyD family secretion protein 645464001392 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645464001393 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645464001394 HMMPfam hit to PF00440; Bacterial regulatory proteins, tetR family 645464001395 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 645464001396 4Fe-4S binding domain; Region: Fer4_5; pfam12801 645464001397 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 645464001398 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 645464001399 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 645464001400 HMMPfam hit to PF01165; Ribosomal protein S21 645464001401 hypothetical protein; Provisional; Region: PRK04081 645464001402 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 645464001403 HMMPfam hit to PF03738; Glutathionylspermidine synthase 645464001404 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 645464001405 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 645464001406 putative ligand binding site [chemical binding]; other site 645464001407 putative NAD binding site [chemical binding]; other site 645464001408 catalytic site [active] 645464001409 HMMPfam hit to PF00389; D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain 645464001410 HMMPfam hit to PF02826; D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain 645464001411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 645464001412 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 645464001413 HMMPfam hit to PF04461; Protein of unknown function (DUF520) 645464001414 potential frameshift: common BLAST hit: gi|315123938|ref|YP_004065942.1| ATPase, AAA family protein 645464001415 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 645464001416 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 645464001417 Walker A motif; other site 645464001418 ATP binding site [chemical binding]; other site 645464001419 Walker B motif; other site 645464001420 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 645464001421 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 645464001422 Predicted membrane protein [Function unknown]; Region: COG2717 645464001423 HMMPfam hit to PF01794; Ferric reductase like transmembrane component 645464001424 TMAO/DMSO reductase; Reviewed; Region: PRK05363 645464001425 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 645464001426 Moco binding site; other site 645464001427 metal coordination site [ion binding]; other site 645464001428 HMMPfam hit to PF00174; Oxidoreductase molybdopterin binding domain 645464001429 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 645464001430 active site 645464001431 dimer interface [polypeptide binding]; other site 645464001432 HMMPfam hit to PF00215; Orotidine 5'-phosphate decarboxylase / HUMPS family 645464001433 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 645464001434 putative RNA binding site [nucleotide binding]; other site 645464001435 HMMPfam hit to PF01029; NusB family 645464001436 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 645464001437 homopentamer interface [polypeptide binding]; other site 645464001438 active site 645464001439 HMMPfam hit to PF00885; 6,7-dimethyl-8-ribityllumazine synthase 645464001440 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 645464001441 HMMPfam hit to PF00793; DAHP synthetase I family 645464001442 EamA-like transporter family; Region: EamA; pfam00892 645464001443 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 645464001444 HMMPfam hit to PF00892; Integral membrane protein DUF6 645464001445 GTP-binding protein Der; Reviewed; Region: PRK00093 645464001446 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 645464001447 G1 box; other site 645464001448 GTP/Mg2+ binding site [chemical binding]; other site 645464001449 Switch I region; other site 645464001450 G2 box; other site 645464001451 Switch II region; other site 645464001452 G3 box; other site 645464001453 G4 box; other site 645464001454 G5 box; other site 645464001455 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 645464001456 GTP/Mg2+ binding site [chemical binding]; other site 645464001457 Switch I region; other site 645464001458 G2 box; other site 645464001459 G3 box; other site 645464001460 Switch II region; other site 645464001461 G4 box; other site 645464001462 G5 box; other site 645464001463 HMMPfam hit to PF01926; GTPase of unknown function 645464001464 HMMPfam hit to PF01926; GTPase of unknown function 645464001465 HMMPfam hit to PF08477; Miro-like protein 645464001466 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 645464001467 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 645464001468 ADP binding site [chemical binding]; other site 645464001469 magnesium binding site [ion binding]; other site 645464001470 putative shikimate binding site; other site 645464001471 HMMPfam hit to PF01202; Shikimate kinase 645464001472 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 645464001473 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 645464001474 active site 645464001475 HIGH motif; other site 645464001476 dimer interface [polypeptide binding]; other site 645464001477 KMSKS motif; other site 645464001478 HMMPfam hit to PF00579; tRNA synthetases class I (W and Y) 645464001479 seryl-tRNA synthetase; Provisional; Region: PRK05431 645464001480 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 645464001481 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 645464001482 dimer interface [polypeptide binding]; other site 645464001483 active site 645464001484 motif 1; other site 645464001485 motif 2; other site 645464001486 motif 3; other site 645464001487 HMMPfam hit to PF02403; Seryl-tRNA synthetase N-terminal domain 645464001488 HMMPfam hit to PF00587; tRNA synthetase class II core domain (G, H, P, S and T) 645464001489 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 645464001490 binding surface 645464001491 TPR motif; other site 645464001492 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 645464001493 TPR motif; other site 645464001494 HMMPfam hit to PF00515; Tetratricopeptide repeat 645464001495 HMMPfam hit to PF00515; Tetratricopeptide repeat 645464001496 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 645464001497 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 645464001498 domain interfaces; other site 645464001499 active site 645464001500 HMMPfam hit to PF02887; Pyruvate kinase, alpha/beta domain 645464001501 HMMPfam hit to PF00224; Pyruvate kinase, barrel domain 645464001502 Predicted dehydrogenase [General function prediction only]; Region: COG0579 645464001503 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 645464001504 HMMPfam hit to PF06039; Malate:quinone oxidoreductase (Mqo) 645464001505 HMMPfam hit to PF01266; FAD dependent oxidoreductase 645464001506 pantothenate kinase; Reviewed; Region: PRK13333 645464001507 HMMPfam hit to PF03309; Bordetella pertussis Bvg accessory factor family 645464001508 PQQ-like domain; Region: PQQ_2; pfam13360 645464001509 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 645464001510 HMMPfam hit to PF02686; Glu-tRNAGln amidotransferase C subunit 645464001511 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 645464001512 Colicin V production protein; Region: Colicin_V; pfam02674 645464001513 HMMPfam hit to PF02674; Colicin V production protein 645464001514 ferric uptake regulator; Provisional; Region: fur; PRK09462 645464001515 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 645464001516 metal binding site 2 [ion binding]; metal-binding site 645464001517 putative DNA binding helix; other site 645464001518 metal binding site 1 [ion binding]; metal-binding site 645464001519 dimer interface [polypeptide binding]; other site 645464001520 structural Zn2+ binding site [ion binding]; other site 645464001521 HMMPfam hit to PF01475; Ferric uptake regulator family 645464001522 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 645464001523 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 645464001524 dimer interface [polypeptide binding]; other site 645464001525 putative anticodon binding site; other site 645464001526 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 645464001527 motif 1; other site 645464001528 active site 645464001529 motif 2; other site 645464001530 motif 3; other site 645464001531 HMMPfam hit to PF01336; OB-fold nucleic acid binding domain 645464001532 HMMPfam hit to PF00152; tRNA synthetases class II (D, K and N) 645464001533 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 645464001534 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 645464001535 dimer interface [polypeptide binding]; other site 645464001536 active site 645464001537 glycine-pyridoxal phosphate binding site [chemical binding]; other site 645464001538 folate binding site [chemical binding]; other site 645464001539 HMMPfam hit to PF00464; Serine hydroxymethyltransferase 645464001540 HMMPfam hit to PF01212; Beta-eliminating lyase 645464001541 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 645464001542 HMMPfam hit to PF08966; Domain of unknown function (DUF1882) 645464001543 Sporulation related domain; Region: SPOR; pfam05036 645464001544 HMMPfam hit to PF05036; Sporulation related domain 645464001545 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 645464001546 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 645464001547 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 645464001548 shikimate binding site; other site 645464001549 NAD(P) binding site [chemical binding]; other site 645464001550 HMMPfam hit to PF08501; Shikimate dehydrogenase substrate binding domain 645464001551 HMMPfam hit to PF01488; Shikimate / quinate 5-dehydrogenase 645464001552 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 645464001553 HMMPfam hit to PF01790; Prolipoprotein diacylglyceryl transferase 645464001554 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 645464001555 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 645464001556 Iron-sulfur protein interface; other site 645464001557 proximal heme binding site [chemical binding]; other site 645464001558 distal heme binding site [chemical binding]; other site 645464001559 dimer interface [polypeptide binding]; other site 645464001560 HMMPfam hit to PF02967; Fumarate reductase respiratory complex, transmembrane subunit 645464001561 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 645464001562 L-aspartate oxidase; Provisional; Region: PRK06175 645464001563 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 645464001564 HMMPfam hit to PF00890; FAD binding domain 645464001565 HMMPfam hit to PF02910; Fumarate reductase/succinate dehydrogenase flavoprotein C-terminal domain 645464001566 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 645464001567 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 645464001568 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 645464001569 HMMPfam hit to PF00111; 2Fe-2S iron-sulfur cluster binding domain 645464001570 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 645464001571 Dynamin family; Region: Dynamin_N; pfam00350 645464001572 G1 box; other site 645464001573 GTP/Mg2+ binding site [chemical binding]; other site 645464001574 G2 box; other site 645464001575 Switch I region; other site 645464001576 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 645464001577 G3 box; other site 645464001578 Switch II region; other site 645464001579 GTP/Mg2+ binding site [chemical binding]; other site 645464001580 G4 box; other site 645464001581 G5 box; other site 645464001582 HMMPfam hit to PF01926; GTPase of unknown function 645464001583 HMMPfam hit to PF00350; Dynamin family 645464001584 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 645464001585 Dynamin family; Region: Dynamin_N; pfam00350 645464001586 G1 box; other site 645464001587 GTP/Mg2+ binding site [chemical binding]; other site 645464001588 G2 box; other site 645464001589 Switch I region; other site 645464001590 G3 box; other site 645464001591 Switch II region; other site 645464001592 G4 box; other site 645464001593 G5 box; other site 645464001594 HMMPfam hit to PF01926; GTPase of unknown function 645464001595 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 645464001596 Sel1-like repeats; Region: SEL1; smart00671 645464001597 Sel1 repeat; Region: Sel1; cl02723 645464001598 HMMPfam hit to PF08238; Sel1 repeat 645464001599 HMMPfam hit to PF08238; Sel1 repeat 645464001600 HMMPfam hit to PF08238; Sel1 repeat 645464001601 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 645464001602 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 645464001603 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 645464001604 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 645464001605 HMMPfam hit to PF00732; GMC oxidoreductase 645464001606 SprA-related family; Region: SprA-related; pfam12118 645464001607 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 645464001608 HIT family signature motif; other site 645464001609 catalytic residue [active] 645464001610 HMMPfam hit to PF01230; HIT domain 645464001611 Uncharacterized conserved protein [Function unknown]; Region: COG2353 645464001612 HMMPfam hit to PF04264; YceI-like domain 645464001613 Transposase; Region: HTH_Tnp_1; cl17663 645464001614 TM2 domain; Region: TM2; cl00984 645464001615 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 645464001616 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645464001617 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645464001618 ABC transporter; Region: ABC_tran_2; pfam12848 645464001619 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645464001620 HMMPfam hit to PF00005; ABC transporter 645464001621 HMMPfam hit to PF00005; ABC transporter 645464001622 S-layer like family, C-terminal region; Region: S_layer_C; pfam05124 645464001623 Uncharacterized conserved protein [Function unknown]; Region: COG1739 645464001624 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 645464001625 HMMPfam hit to PF01205; Uncharacterized protein family UPF0029 645464001626 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 645464001627 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 645464001628 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 645464001629 HMMPfam hit to PF02875; Mur ligase family, glutamate ligase domain 645464001630 HMMPfam hit to PF08245; Mur ligase middle domain 645464001631 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 645464001632 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 645464001633 Mg++ binding site [ion binding]; other site 645464001634 putative catalytic motif [active] 645464001635 putative substrate binding site [chemical binding]; other site 645464001636 HMMPfam hit to PF00953; Glycosyl transferase family 4 645464001637 HMMPfam hit to PF10555; Phospho-N-acetylmuramoyl-pentapeptide-transferase signature 1 645464001638 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 645464001639 phosphoglyceromutase; Provisional; Region: PRK05434 645464001640 HMMPfam hit to PF06415; BPG-independent PGAM N-terminus (iPGM_N) 645464001641 HMMPfam hit to PF01676; Metalloenzyme superfamily 645464001642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 645464001643 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 645464001644 NAD(P) binding site [chemical binding]; other site 645464001645 active site 645464001646 HMMPfam hit to PF00106; short chain dehydrogenase 645464001647 HMMPfam hit to PF08659; KR domain 645464001648 Uncharacterized conserved protein [Function unknown]; Region: COG5015 645464001649 L-aspartate oxidase; Provisional; Region: PRK06175 645464001650 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 645464001651 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 645464001652 HMMPfam hit to PF00890; FAD binding domain 645464001653 HMMPfam hit to PF01266; FAD dependent oxidoreductase 645464001654 HMMPfam hit to PF02910; Fumarate reductase/succinate dehydrogenase flavoprotein C-terminal domain 645464001655 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 645464001656 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 645464001657 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 645464001658 Cysteine-rich domain; Region: CCG; pfam02754 645464001659 Cysteine-rich domain; Region: CCG; pfam02754 645464001660 HMMPfam hit to PF02754; Cysteine-rich domain 645464001661 HMMPfam hit to PF02754; Cysteine-rich domain 645464001662 Putative transcription activator [Transcription]; Region: TenA; COG0819 645464001663 HMMPfam hit to PF03070; TENA/THI-4/PQQC family 645464001664 acyl carrier protein; Provisional; Region: acpP; PRK00982 645464001665 HMMPfam hit to PF00550; Phosphopantetheine attachment site 645464001666 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 645464001667 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 645464001668 dimer interface [polypeptide binding]; other site 645464001669 active site 645464001670 HMMPfam hit to PF00109; Beta-ketoacyl synthase, N-terminal domain 645464001671 HMMPfam hit to PF02801; Beta-ketoacyl synthase, C-terminal domain 645464001672 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 645464001673 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 645464001674 HMMPfam hit to PF03255; Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit 645464001675 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 645464001676 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 645464001677 N-terminal plug; other site 645464001678 ligand-binding site [chemical binding]; other site 645464001679 HMMPfam hit to PF07715; TonB-dependent Receptor Plug Domain 645464001680 HMMPfam hit to PF00593; TonB dependent receptor 645464001681 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 645464001682 dimer interface [polypeptide binding]; other site 645464001683 ADP-ribose binding site [chemical binding]; other site 645464001684 active site 645464001685 nudix motif; other site 645464001686 metal binding site [ion binding]; metal-binding site 645464001687 HMMPfam hit to PF00293; NUDIX domain 645464001688 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 645464001689 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 645464001690 dimer interface [polypeptide binding]; other site 645464001691 putative CheW interface [polypeptide binding]; other site 645464001692 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 645464001693 HMMPfam hit to PF00015; Methyl-accepting chemotaxis protein (MCP) signaling domain 645464001694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 645464001695 HMMPfam hit to PF04325; Protein of unknown function (DUF465) 645464001696 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 645464001697 HMMPfam hit to PF00830; Ribosomal L28 family 645464001698 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 645464001699 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 645464001700 substrate binding site [chemical binding]; other site 645464001701 hexamer interface [polypeptide binding]; other site 645464001702 metal binding site [ion binding]; metal-binding site 645464001703 HMMPfam hit to PF00834; Ribulose-phosphate 3 epimerase family 645464001704 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 645464001705 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 645464001706 active site 645464001707 catalytic site [active] 645464001708 substrate binding site [chemical binding]; other site 645464001709 HMMPfam hit to PF00929; Exonuclease 645464001710 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 645464001711 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 645464001712 HMMPfam hit to PF01964; ThiC family 645464001713 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 645464001714 putative acyl-acceptor binding pocket; other site 645464001715 HMMPfam hit to PF04028; Domain of unknown function (DUF374) 645464001716 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 645464001717 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 645464001718 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 645464001719 FeS/SAM binding site; other site 645464001720 TRAM domain; Region: TRAM; pfam01938 645464001721 HMMPfam hit to PF01938; TRAM domain 645464001722 HMMPfam hit to PF04055; Radical SAM superfamily 645464001723 HMMPfam hit to PF00919; Uncharacterized protein family UPF0004 645464001724 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 645464001725 NusA N-terminal domain; Region: NusA_N; pfam08529 645464001726 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 645464001727 RNA binding site [nucleotide binding]; other site 645464001728 homodimer interface [polypeptide binding]; other site 645464001729 NusA-like KH domain; Region: KH_5; pfam13184 645464001730 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 645464001731 G-X-X-G motif; other site 645464001732 HMMPfam hit to PF08529; NusA N-terminal domain 645464001733 H+ Antiporter protein; Region: 2A0121; TIGR00900 645464001734 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464001735 hypothetical protein; Provisional; Region: PRK08445 645464001736 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 645464001737 FeS/SAM binding site; other site 645464001738 HMMPfam hit to PF04055; Radical SAM superfamily 645464001739 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 645464001740 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 645464001741 HMMPfam hit to PF05193; Peptidase M16 inactive domain 645464001742 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 645464001743 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 645464001744 generic binding surface II; other site 645464001745 ssDNA binding site; other site 645464001746 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 645464001747 ATP binding site [chemical binding]; other site 645464001748 putative Mg++ binding site [ion binding]; other site 645464001749 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 645464001750 nucleotide binding region [chemical binding]; other site 645464001751 ATP-binding site [chemical binding]; other site 645464001752 HMMPfam hit to PF04851; Type III restriction enzyme, res subunit 645464001753 HMMPfam hit to PF00270; DEAD/DEAH box helicase 645464001754 HMMPfam hit to PF00271; Helicase conserved C-terminal domain 645464001755 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 645464001756 apolar tunnel; other site 645464001757 heme binding site [chemical binding]; other site 645464001758 dimerization interface [polypeptide binding]; other site 645464001759 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 645464001760 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 645464001761 ligand binding site [chemical binding]; other site 645464001762 flexible hinge region; other site 645464001763 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 645464001764 HMMPfam hit to PF00027; Cyclic nucleotide-binding domain 645464001765 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 645464001766 dimer interface [polypeptide binding]; other site 645464001767 conserved gate region; other site 645464001768 putative PBP binding loops; other site 645464001769 ABC-ATPase subunit interface; other site 645464001770 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464001771 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 645464001772 dimer interface [polypeptide binding]; other site 645464001773 conserved gate region; other site 645464001774 putative PBP binding loops; other site 645464001775 ABC-ATPase subunit interface; other site 645464001776 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464001777 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 645464001778 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 645464001779 Walker A/P-loop; other site 645464001780 ATP binding site [chemical binding]; other site 645464001781 Q-loop/lid; other site 645464001782 ABC transporter signature motif; other site 645464001783 Walker B; other site 645464001784 D-loop; other site 645464001785 H-loop/switch region; other site 645464001786 HMMPfam hit to PF00005; ABC transporter 645464001787 elongation factor Tu; Reviewed; Region: PRK00049 645464001788 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 645464001789 G1 box; other site 645464001790 GEF interaction site [polypeptide binding]; other site 645464001791 GTP/Mg2+ binding site [chemical binding]; other site 645464001792 Switch I region; other site 645464001793 G2 box; other site 645464001794 G3 box; other site 645464001795 Switch II region; other site 645464001796 G4 box; other site 645464001797 G5 box; other site 645464001798 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 645464001799 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 645464001800 Antibiotic Binding Site [chemical binding]; other site 645464001801 HMMPfam hit to PF00009; Elongation factor Tu GTP binding domain 645464001802 HMMPfam hit to PF03144; Elongation factor Tu domain 2 645464001803 HMMPfam hit to PF03143; Elongation factor Tu C-terminal domain 645464001804 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 645464001805 HMMPfam hit to PF00471; Ribosomal protein L33 645464001806 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 645464001807 HMMPfam hit to PF00584; SecE/Sec61-gamma subunits of protein translocation complex 645464001808 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 645464001809 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 645464001810 putative homodimer interface [polypeptide binding]; other site 645464001811 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 645464001812 heterodimer interface [polypeptide binding]; other site 645464001813 homodimer interface [polypeptide binding]; other site 645464001814 HMMPfam hit to PF02357; Transcription termination factor nusG 645464001815 HMMPfam hit to PF00467; KOW motif 645464001816 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 645464001817 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 645464001818 23S rRNA interface [nucleotide binding]; other site 645464001819 L7/L12 interface [polypeptide binding]; other site 645464001820 putative thiostrepton binding site; other site 645464001821 L25 interface [polypeptide binding]; other site 645464001822 HMMPfam hit to PF03946; Ribosomal protein L11, N-terminal domain 645464001823 HMMPfam hit to PF00298; Ribosomal protein L11, RNA binding domain 645464001824 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 645464001825 mRNA/rRNA interface [nucleotide binding]; other site 645464001826 HMMPfam hit to PF00687; Ribosomal protein L1p/L10e family 645464001827 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 645464001828 23S rRNA interface [nucleotide binding]; other site 645464001829 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 645464001830 HMMPfam hit to PF00466; Ribosomal protein L10 645464001831 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 645464001832 L11 interface [polypeptide binding]; other site 645464001833 putative EF-Tu interaction site [polypeptide binding]; other site 645464001834 putative EF-G interaction site [polypeptide binding]; other site 645464001835 HMMPfam hit to PF00542; Ribosomal protein L7/L12 C-terminal domain 645464001836 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 645464001837 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 645464001838 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 645464001839 RPB11 interaction site [polypeptide binding]; other site 645464001840 RPB12 interaction site [polypeptide binding]; other site 645464001841 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 645464001842 RPB3 interaction site [polypeptide binding]; other site 645464001843 RPB1 interaction site [polypeptide binding]; other site 645464001844 RPB11 interaction site [polypeptide binding]; other site 645464001845 RPB10 interaction site [polypeptide binding]; other site 645464001846 HMMPfam hit to PF04563; RNA polymerase beta subunit 645464001847 HMMPfam hit to PF04561; RNA polymerase Rpb2, domain 2 645464001848 HMMPfam hit to PF04565; RNA polymerase Rpb2, domain 3 645464001849 HMMPfam hit to PF10385; RNA polymerase beta subunit external 1 domain 645464001850 HMMPfam hit to PF00562; RNA polymerase Rpb2, domain 6 645464001851 HMMPfam hit to PF04560; RNA polymerase Rpb2, domain 7 645464001852 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 645464001853 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 645464001854 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 645464001855 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 645464001856 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 645464001857 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 645464001858 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 645464001859 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 645464001860 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 645464001861 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 645464001862 DNA binding site [nucleotide binding] 645464001863 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 645464001864 HMMPfam hit to PF04997; RNA polymerase Rpb1, domain 1 645464001865 HMMPfam hit to PF00623; RNA polymerase Rpb1, domain 2 645464001866 HMMPfam hit to PF04983; RNA polymerase Rpb1, domain 3 645464001867 HMMPfam hit to PF05000; RNA polymerase Rpb1, domain 4 645464001868 HMMPfam hit to PF04998; RNA polymerase Rpb1, domain 5 645464001869 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 645464001870 S17 interaction site [polypeptide binding]; other site 645464001871 S8 interaction site; other site 645464001872 16S rRNA interaction site [nucleotide binding]; other site 645464001873 streptomycin interaction site [chemical binding]; other site 645464001874 23S rRNA interaction site [nucleotide binding]; other site 645464001875 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 645464001876 HMMPfam hit to PF00164; Ribosomal protein S12 645464001877 30S ribosomal protein S7; Validated; Region: PRK05302 645464001878 HMMPfam hit to PF00177; Ribosomal protein S7p/S5e 645464001879 elongation factor G; Reviewed; Region: PRK00007 645464001880 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 645464001881 G1 box; other site 645464001882 putative GEF interaction site [polypeptide binding]; other site 645464001883 GTP/Mg2+ binding site [chemical binding]; other site 645464001884 Switch I region; other site 645464001885 G2 box; other site 645464001886 G3 box; other site 645464001887 Switch II region; other site 645464001888 G4 box; other site 645464001889 G5 box; other site 645464001890 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 645464001891 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 645464001892 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 645464001893 HMMPfam hit to PF00009; Elongation factor Tu GTP binding domain 645464001894 HMMPfam hit to PF03144; Elongation factor Tu domain 2 645464001895 HMMPfam hit to PF03764; Elongation factor G, domain IV 645464001896 HMMPfam hit to PF00679; Elongation factor G C-terminus 645464001897 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 645464001898 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 645464001899 S-adenosylmethionine binding site [chemical binding]; other site 645464001900 HMMPfam hit to PF05175; Methyltransferase small domain 645464001901 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 645464001902 HMMPfam hit to PF03692; Uncharacterised protein family (UPF0153) 645464001903 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 645464001904 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 645464001905 active site 645464001906 substrate (anthranilate) binding pocket [chemical binding]; other site 645464001907 product (indole) binding pocket [chemical binding]; other site 645464001908 ribulose/triose binding site [chemical binding]; other site 645464001909 phosphate binding site [ion binding]; other site 645464001910 HMMPfam hit to PF00218; Indole-3-glycerol phosphate synthase 645464001911 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 645464001912 nucleotide binding site/active site [active] 645464001913 HIT family signature motif; other site 645464001914 catalytic residue [active] 645464001915 HMMPfam hit to PF01230; HIT domain 645464001916 Predicted ATPase [General function prediction only]; Region: COG2603 645464001917 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 645464001918 active site residue [active] 645464001919 haemagglutination activity domain; Region: Haemagg_act; pfam05860 645464001920 HMMPfam hit to PF05860; haemagglutination activity domain 645464001921 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 645464001922 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 645464001923 Surface antigen; Region: Bac_surface_Ag; pfam01103 645464001924 HMMPfam hit to PF08479; POTRA domain, ShlB-type 645464001925 ferrochelatase; Reviewed; Region: hemH; PRK00035 645464001926 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 645464001927 C-terminal domain interface [polypeptide binding]; other site 645464001928 active site 645464001929 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 645464001930 active site 645464001931 N-terminal domain interface [polypeptide binding]; other site 645464001932 HMMPfam hit to PF00762; Ferrochelatase 645464001933 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 645464001934 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 645464001935 HMMPfam hit to PF01408; Oxidoreductase family, NAD-binding Rossmann fold 645464001936 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 645464001937 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 645464001938 inhibitor-cofactor binding pocket; inhibition site 645464001939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464001940 catalytic residue [active] 645464001941 HMMPfam hit to PF01041; DegT/DnrJ/EryC1/StrS aminotransferase family 645464001942 HMMPfam hit to PF00155; Aminotransferase class I and II 645464001943 HMMPfam hit to PF01053; Cys/Met metabolism PLP-dependent enzyme 645464001944 HMMPfam hit to PF00266; Aminotransferase class-V 645464001945 HMMPfam hit to PF01212; Beta-eliminating lyase 645464001946 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 645464001947 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 645464001948 motif 1; other site 645464001949 active site 645464001950 motif 2; other site 645464001951 motif 3; other site 645464001952 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 645464001953 DHHA1 domain; Region: DHHA1; pfam02272 645464001954 HMMPfam hit to PF01411; tRNA synthetases class II (A) 645464001955 HMMPfam hit to PF07973; Threonyl and Alanyl tRNA synthetase second additional domain 645464001956 HMMPfam hit to PF02272; DHHA1 domain 645464001957 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 645464001958 Maf-like protein; Region: Maf; pfam02545 645464001959 active site 645464001960 dimer interface [polypeptide binding]; other site 645464001961 HMMPfam hit to PF02545; Maf-like protein 645464001962 Transglycosylase; Region: Transgly; pfam00912 645464001963 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 645464001964 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 645464001965 HMMPfam hit to PF00912; Transglycosylase 645464001966 HMMPfam hit to PF00905; Penicillin binding protein transpeptidase domain 645464001967 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 645464001968 Clp amino terminal domain; Region: Clp_N; pfam02861 645464001969 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 645464001970 Walker A motif; other site 645464001971 ATP binding site [chemical binding]; other site 645464001972 Walker B motif; other site 645464001973 arginine finger; other site 645464001974 Protein of unknown function (DUF972); Region: DUF972; pfam06156 645464001975 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 645464001976 Walker A motif; other site 645464001977 ATP binding site [chemical binding]; other site 645464001978 Walker B motif; other site 645464001979 arginine finger; other site 645464001980 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 645464001981 HMMPfam hit to PF10431; C-terminal, D2-small domain, of ClpB protein 645464001982 HMMPfam hit to PF07724; ATPase family associated with various cellular activities (AAA) 645464001983 HMMPfam hit to PF07728; ATPase family associated with various cellular activities (AAA) 645464001984 HMMPfam hit to PF00004; ATPase family associated with various cellular activities (AAA) 645464001985 HMMPfam hit to PF02861; Clp amino terminal domain 645464001986 HMMPfam hit to PF02861; Clp amino terminal domain 645464001987 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 645464001988 putative homodimer interface [polypeptide binding]; other site 645464001989 putative homotetramer interface [polypeptide binding]; other site 645464001990 putative metal binding site [ion binding]; other site 645464001991 putative homodimer-homodimer interface [polypeptide binding]; other site 645464001992 putative allosteric switch controlling residues; other site 645464001993 HMMPfam hit to PF02583; Uncharacterised BCR, COG1937 645464001994 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 645464001995 C-terminal peptidase (prc); Region: prc; TIGR00225 645464001996 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 645464001997 protein binding site [polypeptide binding]; other site 645464001998 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 645464001999 Catalytic dyad [active] 645464002000 HMMPfam hit to PF00595; PDZ domain (Also known as DHR or GLGF) 645464002001 HMMPfam hit to PF03572; Peptidase family S41 645464002002 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 645464002003 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 645464002004 ATP binding site [chemical binding]; other site 645464002005 active site 645464002006 substrate binding site [chemical binding]; other site 645464002007 HMMPfam hit to PF01259; SAICAR synthetase 645464002008 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 645464002009 HMMPfam hit to PF02700; Phosphoribosylformylglycinamidine (FGAM) synthase 645464002010 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 645464002011 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 645464002012 putative active site [active] 645464002013 catalytic triad [active] 645464002014 HMMPfam hit to PF07685; CobB/CobQ-like glutamine amidotransferase domain 645464002015 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 645464002016 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 645464002017 putative acyl-acceptor binding pocket; other site 645464002018 HMMPfam hit to PF01553; Acyltransferase 645464002019 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 645464002020 HMMPfam hit to PF02537; CrcB-like protein 645464002021 heat shock protein 90; Provisional; Region: PRK05218 645464002022 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 645464002023 ATP binding site [chemical binding]; other site 645464002024 Mg2+ binding site [ion binding]; other site 645464002025 G-X-G motif; other site 645464002026 HMMPfam hit to PF02518; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 645464002027 HMMPfam hit to PF00183; Hsp90 protein 645464002028 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 645464002029 active site residue [active] 645464002030 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 645464002031 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 645464002032 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 645464002033 HMMPfam hit to PF02690; Na+/Pi-cotransporter 645464002034 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 645464002035 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 645464002036 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 645464002037 HMMPfam hit to PF00905; Penicillin binding protein transpeptidase domain 645464002038 HMMPfam hit to PF03717; Penicillin-binding Protein dimerisation domain 645464002039 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 645464002040 HMMPfam hit to PF02049; Flagellar hook-basal body complex protein FliE 645464002041 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 645464002042 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 645464002043 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 645464002044 HMMPfam hit to PF06429; Domain of unknown function (DUF1078) 645464002045 HMMPfam hit to PF00460; Flagella basal body rod protein 645464002046 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 645464002047 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 645464002048 YceG-like family; Region: YceG; pfam02618 645464002049 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 645464002050 dimerization interface [polypeptide binding]; other site 645464002051 HMMPfam hit to PF02618; Aminodeoxychorismate lyase 645464002052 Protein of unknown function; Region: DUF3971; pfam13116 645464002053 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 645464002054 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 645464002055 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 645464002056 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 645464002057 HMMPfam hit to PF03971; Monomeric isocitrate dehydrogenase 645464002058 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 645464002059 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 645464002060 NAD(P) binding site [chemical binding]; other site 645464002061 LDH/MDH dimer interface [polypeptide binding]; other site 645464002062 substrate binding site [chemical binding]; other site 645464002063 HMMPfam hit to PF00056; lactate/malate dehydrogenase, NAD binding domain 645464002064 HMMPfam hit to PF02866; lactate/malate dehydrogenase, alpha/beta C-terminal domain 645464002065 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 645464002066 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 645464002067 CoA-ligase; Region: Ligase_CoA; pfam00549 645464002068 HMMPfam hit to PF08442; ATP-grasp domain 645464002069 HMMPfam hit to PF00549; CoA-ligase 645464002070 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 645464002071 CoA binding domain; Region: CoA_binding; smart00881 645464002072 CoA-ligase; Region: Ligase_CoA; pfam00549 645464002073 HMMPfam hit to PF02629; CoA binding domain 645464002074 HMMPfam hit to PF00549; CoA-ligase 645464002075 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 645464002076 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 645464002077 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464002078 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464002079 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 645464002080 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 645464002081 dimer interface [polypeptide binding]; other site 645464002082 PYR/PP interface [polypeptide binding]; other site 645464002083 TPP binding site [chemical binding]; other site 645464002084 substrate binding site [chemical binding]; other site 645464002085 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 645464002086 HMMPfam hit to PF01855; Pyruvate flavodoxin/ferredoxin oxidoreductase, thiamine diP-binding domain 645464002087 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 645464002088 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 645464002089 TPP-binding site [chemical binding]; other site 645464002090 HMMPfam hit to PF02775; Thiamine pyrophosphate enzyme, C-terminal TPP binding domain 645464002091 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 645464002092 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 645464002093 HMMPfam hit to PF01558; Pyruvate ferredoxin/flavodoxin oxidoreductase 645464002094 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 645464002095 HMMPfam hit to PF09442; Domain of unknown function (DUF2018) 645464002096 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 645464002097 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 645464002098 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 645464002099 substrate binding pocket [chemical binding]; other site 645464002100 chain length determination region; other site 645464002101 substrate-Mg2+ binding site; other site 645464002102 catalytic residues [active] 645464002103 aspartate-rich region 1; other site 645464002104 active site lid residues [active] 645464002105 aspartate-rich region 2; other site 645464002106 HMMPfam hit to PF00348; Polyprenyl synthetase 645464002107 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 645464002108 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 645464002109 tRNA; other site 645464002110 putative tRNA binding site [nucleotide binding]; other site 645464002111 putative NADP binding site [chemical binding]; other site 645464002112 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 645464002113 HMMPfam hit to PF05201; Glutamyl-tRNAGlu reductase, N-terminal domain 645464002114 HMMPfam hit to PF01488; Shikimate / quinate 5-dehydrogenase 645464002115 HMMPfam hit to PF00745; Glutamyl-tRNAGlu reductase, dimerisation domain 645464002116 prolyl-tRNA synthetase; Provisional; Region: PRK09194 645464002117 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 645464002118 dimer interface [polypeptide binding]; other site 645464002119 motif 1; other site 645464002120 active site 645464002121 motif 2; other site 645464002122 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 645464002123 putative deacylase active site [active] 645464002124 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 645464002125 active site 645464002126 motif 3; other site 645464002127 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 645464002128 anticodon binding site; other site 645464002129 HMMPfam hit to PF00587; tRNA synthetase class II core domain (G, H, P, S and T) 645464002130 HMMPfam hit to PF04073; YbaK / prolyl-tRNA synthetases associated domain 645464002131 HMMPfam hit to PF03129; Anticodon binding domain 645464002132 HMMPfam hit to PF04186; FxsA cytoplasmic membrane protein 645464002133 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 645464002134 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 645464002135 domain interfaces; other site 645464002136 active site 645464002137 HMMPfam hit to PF01379; Porphobilinogen deaminase, dipyromethane cofactor binding domain 645464002138 HMMPfam hit to PF03900; Porphobilinogen deaminase, C-terminal domain 645464002139 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 645464002140 HMMPfam hit to PF01977; 3-octaprenyl-4-hydroxybenzoate carboxy-lyase 645464002141 flagellar protein FlaG; Provisional; Region: PRK08452 645464002142 HMMPfam hit to PF03646; FlaG protein 645464002143 flagellar capping protein; Provisional; Region: PRK12765 645464002144 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 645464002145 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 645464002146 HMMPfam hit to PF02465; Flagellar hook-associated protein 2 C-terminus 645464002147 HMMPfam hit to PF07196; Flagellin hook IN motif 645464002148 HMMPfam hit to PF07195; Flagellar hook-associated protein 2 C-terminus 645464002149 flagellar protein FliS; Validated; Region: fliS; PRK05685 645464002150 HMMPfam hit to PF02561; Flagellar protein FliS 645464002151 Predicted GTPase [General function prediction only]; Region: Obg; COG0536 645464002152 elongation factor P; Validated; Region: PRK00529 645464002153 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 645464002154 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 645464002155 RNA binding site [nucleotide binding]; other site 645464002156 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 645464002157 RNA binding site [nucleotide binding]; other site 645464002158 HMMPfam hit to PF08207; Elongation factor P (EF-P) KOW-like domain 645464002159 HMMPfam hit to PF01132; Elongation factor P (EF-P) OB domain 645464002160 HMMPfam hit to PF09285; Elongation factor P, C-terminal 645464002161 Predicted membrane protein [Function unknown]; Region: COG3819 645464002162 HMMPfam hit to PF06149; Protein of unknown function (DUF969) 645464002163 Predicted membrane protein [Function unknown]; Region: COG3817 645464002164 Protein of unknown function (DUF979); Region: DUF979; pfam06166 645464002165 HMMPfam hit to PF06166; Protein of unknown function (DUF979) 645464002166 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 645464002167 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 645464002168 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 645464002169 HMMPfam hit to PF07158; Dicarboxylate carrier protein MatC N-terminus 645464002170 HMMPfam hit to PF03600; Citrate transporter 645464002171 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 645464002172 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 645464002173 active site 645464002174 HMMPfam hit to PF04909; Amidohydrolase 645464002175 Predicted membrane protein [Function unknown]; Region: COG1289 645464002176 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 645464002177 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 645464002178 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 645464002179 putative catalytic cysteine [active] 645464002180 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 645464002181 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 645464002182 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645464002183 HMMPfam hit to PF03486; HI0933-like protein 645464002184 HMMPfam hit to PF07992; Pyridine nucleotide-disulphide oxidoreductase 645464002185 HMMPfam hit to PF00070; Pyridine nucleotide-disulphide oxidoreductase 645464002186 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 645464002187 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 645464002188 HMMPfam hit to PF01943; Polysaccharide biosynthesis protein 645464002189 HMMPfam hit to PF01554; MatE 645464002190 HMMPfam hit to PF01554; MatE 645464002191 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 645464002192 replicative DNA helicase; Provisional; Region: PRK08506 645464002193 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 645464002194 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 645464002195 Walker A motif; other site 645464002196 ATP binding site [chemical binding]; other site 645464002197 Walker B motif; other site 645464002198 DNA binding loops [nucleotide binding] 645464002199 HMMPfam hit to PF00772; DnaB-like helicase N terminal domain 645464002200 HMMPfam hit to PF03796; DnaB-like helicase C terminal domain 645464002201 Predicted transcriptional regulator [Transcription]; Region: COG2378 645464002202 HTH domain; Region: HTH_11; pfam08279 645464002203 WYL domain; Region: WYL; pfam13280 645464002204 HMMPfam hit to PF08220; DeoR-like helix-turn-helix domain 645464002205 HMMPfam hit to PF08279; HTH domain 645464002206 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 645464002207 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 645464002208 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 645464002209 HMMPfam hit to PF00926; 3,4-dihydroxy-2-butanone 4-phosphate synthase 645464002210 Uncharacterized conserved protein [Function unknown]; Region: COG1610 645464002211 HMMPfam hit to PF09424; Yqey-like protein 645464002212 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08527 645464002213 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 645464002214 PYR/PP interface [polypeptide binding]; other site 645464002215 dimer interface [polypeptide binding]; other site 645464002216 TPP binding site [chemical binding]; other site 645464002217 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 645464002218 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 645464002219 TPP-binding site [chemical binding]; other site 645464002220 dimer interface [polypeptide binding]; other site 645464002221 HMMPfam hit to PF02776; Thiamine pyrophosphate enzyme, N-terminal TPP binding domain 645464002222 HMMPfam hit to PF00205; Thiamine pyrophosphate enzyme, central domain 645464002223 HMMPfam hit to PF02775; Thiamine pyrophosphate enzyme, C-terminal TPP binding domain 645464002224 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 645464002225 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 645464002226 putative valine binding site [chemical binding]; other site 645464002227 dimer interface [polypeptide binding]; other site 645464002228 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 645464002229 HMMPfam hit to PF01842; ACT domain 645464002230 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 645464002231 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 645464002232 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 645464002233 trimer interface [polypeptide binding]; other site 645464002234 active site 645464002235 UDP-GlcNAc binding site [chemical binding]; other site 645464002236 lipid binding site [chemical binding]; lipid-binding site 645464002237 HMMPfam hit to PF04613; UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD 645464002238 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464002239 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464002240 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464002241 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464002242 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464002243 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464002244 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464002245 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464002246 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 645464002247 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 645464002248 HMMPfam hit to PF02547; Queuosine biosynthesis protein 645464002249 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 645464002250 HMMPfam hit to PF00902; Sec-independent protein translocase protein (TatC) 645464002251 sec-independent translocase; Provisional; Region: PRK04098 645464002252 HMMPfam hit to PF02416; mttA/Hcf106 family 645464002253 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 645464002254 HMMPfam hit to PF06969; HemN C-terminal region 645464002255 HMMPfam hit to PF04055; Radical SAM superfamily 645464002256 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 645464002257 putative active site [active] 645464002258 Ap4A binding site [chemical binding]; other site 645464002259 nudix motif; other site 645464002260 putative metal binding site [ion binding]; other site 645464002261 HMMPfam hit to PF00293; NUDIX domain 645464002262 aspartate kinase; Reviewed; Region: PRK06635 645464002263 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 645464002264 putative nucleotide binding site [chemical binding]; other site 645464002265 putative catalytic residues [active] 645464002266 putative Mg ion binding site [ion binding]; other site 645464002267 putative aspartate binding site [chemical binding]; other site 645464002268 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 645464002269 putative allosteric regulatory site; other site 645464002270 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 645464002271 HMMPfam hit to PF00696; Amino acid kinase family 645464002272 HMMPfam hit to PF01842; ACT domain 645464002273 HMMPfam hit to PF01842; ACT domain 645464002274 DNA replication regulator; Region: HobA; pfam12163 645464002275 DNA polymerase III subunit delta'; Validated; Region: PRK08485 645464002276 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 645464002277 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 645464002278 substrate binding pocket [chemical binding]; other site 645464002279 dimer interface [polypeptide binding]; other site 645464002280 inhibitor binding site; inhibition site 645464002281 HMMPfam hit to PF00809; Pterin binding enzyme 645464002282 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 645464002283 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 645464002284 nucleotide binding pocket [chemical binding]; other site 645464002285 K-X-D-G motif; other site 645464002286 catalytic site [active] 645464002287 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 645464002288 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 645464002289 Dimer interface [polypeptide binding]; other site 645464002290 BRCT sequence motif; other site 645464002291 HMMPfam hit to PF01653; NAD-dependent DNA ligase adenylation domain 645464002292 HMMPfam hit to PF03120; NAD-dependent DNA ligase OB-fold domain 645464002293 HMMPfam hit to PF00533; BRCA1 C Terminus (BRCT) domain 645464002294 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 645464002295 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 645464002296 HMMPfam hit to PF01479; S4 domain 645464002297 HMMPfam hit to PF01728; FtsJ-like methyltransferase 645464002298 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 645464002299 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 645464002300 active site 645464002301 nucleotide binding site [chemical binding]; other site 645464002302 HIGH motif; other site 645464002303 KMSKS motif; other site 645464002304 Riboflavin kinase; Region: Flavokinase; pfam01687 645464002305 HMMPfam hit to PF06574; FAD synthetase 645464002306 HMMPfam hit to PF01467; Cytidylyltransferase 645464002307 HMMPfam hit to PF01687; Riboflavin kinase 645464002308 Methyltransferase domain; Region: Methyltransf_31; pfam13847 645464002309 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 645464002310 S-adenosylmethionine binding site [chemical binding]; other site 645464002311 HMMPfam hit to PF08241; Methyltransferase domain 645464002312 HMMPfam hit to PF08242; Methyltransferase domain 645464002313 Predicted membrane protein [Function unknown]; Region: COG2860 645464002314 UPF0126 domain; Region: UPF0126; pfam03458 645464002315 UPF0126 domain; Region: UPF0126; pfam03458 645464002316 HMMPfam hit to PF03458; UPF0126 domain 645464002317 HMMPfam hit to PF03458; UPF0126 domain 645464002318 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 645464002319 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 645464002320 active site 645464002321 substrate binding site [chemical binding]; other site 645464002322 Mg2+ binding site [ion binding]; other site 645464002323 HMMPfam hit to PF01223; DNA/RNA non-specific endonuclease 645464002324 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 645464002325 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 645464002326 minor groove reading motif; other site 645464002327 helix-hairpin-helix signature motif; other site 645464002328 substrate binding pocket [chemical binding]; other site 645464002329 active site 645464002330 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 645464002331 HMMPfam hit to PF10576; Iron-sulfur binding domain of endonuclease III 645464002332 HMMPfam hit to PF00730; HhH-GPD superfamily base excision DNA repair protein 645464002333 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 645464002334 HMMPfam hit to PF00639; PPIC-type PPIASE domain 645464002335 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 645464002336 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 645464002337 active site 645464002338 intersubunit interface [polypeptide binding]; other site 645464002339 zinc binding site [ion binding]; other site 645464002340 Na+ binding site [ion binding]; other site 645464002341 HMMPfam hit to PF01116; Fructose-bisphosphate aldolase class-II 645464002342 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 645464002343 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 645464002344 hypothetical protein; Validated; Region: PRK09039 645464002345 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 645464002346 ligand binding site [chemical binding]; other site 645464002347 HMMPfam hit to PF00691; OmpA family 645464002348 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 645464002349 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 645464002350 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645464002351 catalytic residue [active] 645464002352 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 645464002353 Na2 binding site [ion binding]; other site 645464002354 putative substrate binding site 1 [chemical binding]; other site 645464002355 Na binding site 1 [ion binding]; other site 645464002356 putative substrate binding site 2 [chemical binding]; other site 645464002357 HMMPfam hit to PF00209; Sodium:neurotransmitter symporter family 645464002358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 645464002359 MOSC domain; Region: MOSC; pfam03473 645464002360 HMMPfam hit to PF03473; MOSC domain 645464002361 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 645464002362 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 645464002363 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 645464002364 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 645464002365 DsbD alpha interface [polypeptide binding]; other site 645464002366 catalytic residues [active] 645464002367 HMMPfam hit to PF00085; Thioredoxin 645464002368 HMMPfam hit to PF02683; Cytochrome C biogenesis protein transmembrane region 645464002369 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 645464002370 HMMPfam hit to PF03976; Polyphosphate kinase 2 645464002371 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645464002372 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 645464002373 metal binding site [ion binding]; metal-binding site 645464002374 dimer interface [polypeptide binding]; other site 645464002375 HMMPfam hit to PF01546; Peptidase family M20/M25/M40 645464002376 HMMPfam hit to PF07687; Peptidase dimerisation domain 645464002377 macrolide transporter subunit MacA; Provisional; Region: PRK11578 645464002378 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 645464002379 HlyD family secretion protein; Region: HlyD_3; pfam13437 645464002380 HMMPfam hit to PF00529; HlyD family secretion protein 645464002381 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645464002382 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 645464002383 Walker A/P-loop; other site 645464002384 ATP binding site [chemical binding]; other site 645464002385 Q-loop/lid; other site 645464002386 ABC transporter signature motif; other site 645464002387 Walker B; other site 645464002388 D-loop; other site 645464002389 H-loop/switch region; other site 645464002390 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645464002391 FtsX-like permease family; Region: FtsX; pfam02687 645464002392 HMMPfam hit to PF00005; ABC transporter 645464002393 HMMPfam hit to PF02687; Predicted permease 645464002394 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 645464002395 HMMPfam hit to PF02321; Outer membrane efflux protein 645464002396 HMMPfam hit to PF02321; Outer membrane efflux protein 645464002397 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 645464002398 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 645464002399 active site 645464002400 oxyanion hole [active] 645464002401 catalytic triad [active] 645464002402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2845 645464002403 active site 645464002404 catalytic triad [active] 645464002405 oxyanion hole [active] 645464002406 potential frameshift: common BLAST hit: gi|157414893|ref|YP_001482149.1| alginate O-acetyltransferase AlgI 645464002407 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 645464002408 HMMPfam hit to PF03062; MBOAT family 645464002409 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 645464002410 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 645464002411 Ferritin-like domain; Region: Ferritin; pfam00210 645464002412 ferroxidase diiron center [ion binding]; other site 645464002413 HMMPfam hit to PF00210; Ferritin-like domain 645464002414 PBP superfamily domain; Region: PBP_like_2; cl17296 645464002415 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 645464002416 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 645464002417 dimer interface [polypeptide binding]; other site 645464002418 conserved gate region; other site 645464002419 putative PBP binding loops; other site 645464002420 ABC-ATPase subunit interface; other site 645464002421 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464002422 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 645464002423 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 645464002424 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 645464002425 dimer interface [polypeptide binding]; other site 645464002426 conserved gate region; other site 645464002427 putative PBP binding loops; other site 645464002428 ABC-ATPase subunit interface; other site 645464002429 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464002430 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14269 645464002431 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 645464002432 Walker A/P-loop; other site 645464002433 ATP binding site [chemical binding]; other site 645464002434 Q-loop/lid; other site 645464002435 ABC transporter signature motif; other site 645464002436 Walker B; other site 645464002437 D-loop; other site 645464002438 H-loop/switch region; other site 645464002439 HMMPfam hit to PF00005; ABC transporter 645464002440 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 645464002441 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 645464002442 HMMPfam hit to PF01554; MatE 645464002443 HMMPfam hit to PF01554; MatE 645464002444 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 645464002445 HMMPfam hit to PF01863; Protein of unknown function DUF45 645464002446 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 645464002447 Acylphosphatase; Region: Acylphosphatase; pfam00708 645464002448 HypF finger; Region: zf-HYPF; pfam07503 645464002449 HypF finger; Region: zf-HYPF; pfam07503 645464002450 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 645464002451 HMMPfam hit to PF00708; Acylphosphatase 645464002452 HMMPfam hit to PF07503; HypF finger 645464002453 HMMPfam hit to PF07503; HypF finger 645464002454 HMMPfam hit to PF01300; yrdC domain 645464002455 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 645464002456 HMMPfam hit to PF02492; CobW/HypB/UreG, nucleotide-binding domain 645464002457 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 645464002458 HMMPfam hit to PF01455; HupF/HypC family 645464002459 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 645464002460 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 645464002461 HMMPfam hit to PF01924; Hydrogenase formation hypA family 645464002462 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 645464002463 dimerization interface [polypeptide binding]; other site 645464002464 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 645464002465 ATP binding site [chemical binding]; other site 645464002466 HMMPfam hit to PF00586; AIR synthase related protein, N-terminal domain 645464002467 HMMPfam hit to PF02769; AIR synthase related protein, C-terminal domain 645464002468 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 645464002469 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 645464002470 HMMPfam hit to PF01155; Hydrogenase expression/synthesis hypA family 645464002471 Uncharacterized conserved protein [Function unknown]; Region: COG4748 645464002472 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 645464002473 HMMPfam hit to PF04313; Type I restriction enzyme R protein N terminus (HSDR_N) 645464002474 DNA polymerase III subunit delta; Validated; Region: PRK08487 645464002475 HMMPfam hit to PF06144; DNA polymerase III, delta subunit 645464002476 Exoribonuclease R [Transcription]; Region: VacB; COG0557 645464002477 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 645464002478 RNB domain; Region: RNB; pfam00773 645464002479 HMMPfam hit to PF00773; RNB domain 645464002480 HMMPfam hit to PF08206; Ribonuclease B OB domain 645464002481 ketol-acid reductoisomerase; Provisional; Region: PRK05479 645464002482 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 645464002483 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 645464002484 HMMPfam hit to PF02629; CoA binding domain 645464002485 HMMPfam hit to PF07991; Acetohydroxy acid isomeroreductase, catalytic domain 645464002486 HMMPfam hit to PF01450; Acetohydroxy acid isomeroreductase, catalytic domain 645464002487 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 645464002488 NodB motif; other site 645464002489 putative active site [active] 645464002490 putative catalytic site [active] 645464002491 Zn binding site [ion binding]; other site 645464002492 HMMPfam hit to PF04748; Divergent polysaccharide deacetylase 645464002493 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 645464002494 DNA protecting protein DprA; Region: dprA; TIGR00732 645464002495 HMMPfam hit to PF02481; DNA recombination-mediator protein A 645464002496 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 645464002497 HMMPfam hit to PF03652; Uncharacterised protein family (UPF0081) 645464002498 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 645464002499 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 645464002500 HMMPfam hit to PF01189; NOL1/NOP2/sun family 645464002501 methionine sulfoxide reductase A; Provisional; Region: PRK14054 645464002502 HMMPfam hit to PF01625; Peptide methionine sulfoxide reductase 645464002503 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 645464002504 dimer interface [polypeptide binding]; other site 645464002505 substrate binding site [chemical binding]; other site 645464002506 metal binding sites [ion binding]; metal-binding site 645464002507 HMMPfam hit to PF00719; Inorganic pyrophosphatase 645464002508 adenylate kinase; Reviewed; Region: adk; PRK00279 645464002509 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 645464002510 AMP-binding site [chemical binding]; other site 645464002511 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 645464002512 HMMPfam hit to PF00406; Adenylate kinase 645464002513 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 645464002514 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 645464002515 dimer interface [polypeptide binding]; other site 645464002516 anticodon binding site; other site 645464002517 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 645464002518 homodimer interface [polypeptide binding]; other site 645464002519 motif 1; other site 645464002520 active site 645464002521 motif 2; other site 645464002522 GAD domain; Region: GAD; pfam02938 645464002523 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 645464002524 active site 645464002525 motif 3; other site 645464002526 HMMPfam hit to PF00152; tRNA synthetases class II (D, K and N) 645464002527 HMMPfam hit to PF02938; GAD domain 645464002528 HMMPfam hit to PF00587; tRNA synthetase class II core domain (G, H, P, S and T) 645464002529 HMMPfam hit to PF01336; OB-fold nucleic acid binding domain 645464002530 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: pnk; PRK14077 645464002531 ATP-NAD kinase; Region: NAD_kinase; pfam01513 645464002532 HMMPfam hit to PF01513; ATP-NAD kinase 645464002533 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 645464002534 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645464002535 Walker A/P-loop; other site 645464002536 ATP binding site [chemical binding]; other site 645464002537 Q-loop/lid; other site 645464002538 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 645464002539 ABC transporter signature motif; other site 645464002540 Walker B; other site 645464002541 D-loop; other site 645464002542 H-loop/switch region; other site 645464002543 HMMPfam hit to PF02463; RecF/RecN/SMC N terminal domain 645464002544 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 645464002545 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 645464002546 active site 645464002547 phosphorylation site [posttranslational modification] 645464002548 intermolecular recognition site; other site 645464002549 dimerization interface [polypeptide binding]; other site 645464002550 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 645464002551 active site 645464002552 phosphorylation site [posttranslational modification] 645464002553 intermolecular recognition site; other site 645464002554 dimerization interface [polypeptide binding]; other site 645464002555 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645464002556 metal binding site [ion binding]; metal-binding site 645464002557 active site 645464002558 I-site; other site 645464002559 HMMPfam hit to PF00072; Response regulator receiver domain 645464002560 HMMPfam hit to PF00072; Response regulator receiver domain 645464002561 HMMPfam hit to PF00990; GGDEF domain 645464002562 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 645464002563 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 645464002564 active site 645464002565 HMMPfam hit to PF01026; TatD related DNase 645464002566 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 645464002567 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 645464002568 N-acetyl-D-glucosamine binding site [chemical binding]; other site 645464002569 catalytic residue [active] 645464002570 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 645464002571 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 645464002572 HMMPfam hit to PF01464; Transglycosylase SLT domain 645464002573 HMMPfam hit to PF01476; LysM domain 645464002574 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 645464002575 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 645464002576 Sporulation related domain; Region: SPOR; pfam05036 645464002577 HMMPfam hit to PF03330; Rare lipoprotein A (RlpA)-like double-psi beta-barrel 645464002578 HMMPfam hit to PF05036; Sporulation related domain 645464002579 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 645464002580 active site 645464002581 motif I; other site 645464002582 motif II; other site 645464002583 HMMPfam hit to PF06835; Protein of unknown function (DUF1239) 645464002584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 645464002585 OstA-like protein; Region: OstA; pfam03968 645464002586 HMMPfam hit to PF03968; OstA-like protein 645464002587 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 645464002588 G1 box; other site 645464002589 GTP/Mg2+ binding site [chemical binding]; other site 645464002590 Switch I region; other site 645464002591 G2 box; other site 645464002592 G3 box; other site 645464002593 Switch II region; other site 645464002594 G4 box; other site 645464002595 G5 box; other site 645464002596 HMMPfam hit to PF01926; GTPase of unknown function 645464002597 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 645464002598 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 645464002599 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 645464002600 HMMPfam hit to PF03717; Penicillin-binding Protein dimerisation domain 645464002601 HMMPfam hit to PF00905; Penicillin binding protein transpeptidase domain 645464002602 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 645464002603 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 645464002604 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 645464002605 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 645464002606 active site 645464002607 HMMPfam hit to PF00557; metallopeptidase family M24 645464002608 HMMPfam hit to PF01321; Creatinase/Prolidase N-terminal domain 645464002609 POT family; Region: PTR2; cl17359 645464002610 HMMPfam hit to PF00854; POT family 645464002611 POT family; Region: PTR2; cl17359 645464002612 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 645464002613 putative substrate translocation pore; other site 645464002614 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 645464002615 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464002616 HMMPfam hit to PF00854; POT family 645464002617 HMMPfam hit to PF07198; DUF1410 domain 645464002618 GTPase Era; Reviewed; Region: era; PRK00089 645464002619 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 645464002620 G1 box; other site 645464002621 GTP/Mg2+ binding site [chemical binding]; other site 645464002622 Switch I region; other site 645464002623 G2 box; other site 645464002624 Switch II region; other site 645464002625 G3 box; other site 645464002626 G4 box; other site 645464002627 G5 box; other site 645464002628 KH domain; Region: KH_2; pfam07650 645464002629 HMMPfam hit to PF07650; KH domain 645464002630 HMMPfam hit to PF01926; GTPase of unknown function 645464002631 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 645464002632 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 645464002633 Walker A motif; other site 645464002634 ATP binding site [chemical binding]; other site 645464002635 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 645464002636 Walker B motif; other site 645464002637 arginine finger; other site 645464002638 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 645464002639 HMMPfam hit to PF00004; ATPase family associated with various cellular activities (AAA) 645464002640 HMMPfam hit to PF07724; ATPase family associated with various cellular activities (AAA) 645464002641 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 645464002642 active site 645464002643 HslU subunit interaction site [polypeptide binding]; other site 645464002644 HMMPfam hit to PF00227; Proteasome A-type and B-type 645464002645 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 645464002646 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 645464002647 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 645464002648 HMMPfam hit to PF03948; Ribosomal protein L9, C-terminal domain 645464002649 HMMPfam hit to PF01281; Ribosomal protein L9, N-terminal domain 645464002650 argininosuccinate synthase; Provisional; Region: PRK13820 645464002651 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 645464002652 ANP binding site [chemical binding]; other site 645464002653 Substrate Binding Site II [chemical binding]; other site 645464002654 Substrate Binding Site I [chemical binding]; other site 645464002655 HMMPfam hit to PF00764; Arginosuccinate synthase 645464002656 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]; Region: COG1188 645464002657 RNA binding surface [nucleotide binding]; other site 645464002658 HMMPfam hit to PF01479; S4 domain 645464002659 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 645464002660 HMMPfam hit to PF02367; Uncharacterised P-loop hydrolase UPF0079 645464002661 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 645464002662 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 645464002663 Walker A/P-loop; other site 645464002664 ATP binding site [chemical binding]; other site 645464002665 Q-loop/lid; other site 645464002666 ABC transporter signature motif; other site 645464002667 Walker B; other site 645464002668 D-loop; other site 645464002669 H-loop/switch region; other site 645464002670 HMMPfam hit to PF00005; ABC transporter 645464002671 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 645464002672 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 645464002673 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 645464002674 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 645464002675 HMMPfam hit to PF00309; Sigma-54 factor, Activator interacting domain (AID) 645464002676 HMMPfam hit to PF04963; Sigma-54 factor, core binding domain 645464002677 HMMPfam hit to PF04552; Sigma-54, DNA binding domain 645464002678 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 645464002679 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 645464002680 HMMPfam hit to PF03605; Anaerobic c4-dicarboxylate membrane transporter 645464002681 potential frameshift: common BLAST hit: gi|121613301|ref|YP_001000372.1| potassium-transporting ATPase, A subunit, degenerate 645464002682 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 645464002683 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 645464002684 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 645464002685 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 645464002686 Soluble P-type ATPase [General function prediction only]; Region: COG4087 645464002687 HMMPfam hit to PF00122; E1-E2 ATPase 645464002688 HMMPfam hit to PF00702; haloacid dehalogenase-like hydrolase 645464002689 K+-transporting ATPase, c chain; Region: KdpC; cl00944 645464002690 HMMPfam hit to PF02669; K+-transporting ATPase, c chain 645464002691 potential frameshift: common BLAST hit: gi|218562318|ref|YP_002344097.1| truncated KdpD protein 645464002692 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 645464002693 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 645464002694 HMMPfam hit to PF02702; Osmosensitive K+ channel His kinase sensor domain 645464002695 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 645464002696 GAF domain; Region: GAF_3; pfam13492 645464002697 excinuclease ABC subunit B; Provisional; Region: PRK05298 645464002698 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 645464002699 ATP binding site [chemical binding]; other site 645464002700 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 645464002701 nucleotide binding region [chemical binding]; other site 645464002702 ATP-binding site [chemical binding]; other site 645464002703 Ultra-violet resistance protein B; Region: UvrB; pfam12344 645464002704 HMMPfam hit to PF02151; UvrB/uvrC motif 645464002705 HMMPfam hit to PF00271; Helicase conserved C-terminal domain 645464002706 HMMPfam hit to PF04851; Type III restriction enzyme, res subunit 645464002707 HMMPfam hit to PF07963; Prokaryotic N-terminal methylation motif 645464002708 primosome assembly protein PriA; Validated; Region: PRK05580 645464002709 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 645464002710 ATP binding site [chemical binding]; other site 645464002711 putative Mg++ binding site [ion binding]; other site 645464002712 helicase superfamily c-terminal domain; Region: HELICc; smart00490 645464002713 ATP-binding site [chemical binding]; other site 645464002714 HMMPfam hit to PF04851; Type III restriction enzyme, res subunit 645464002715 HMMPfam hit to PF00270; DEAD/DEAH box helicase 645464002716 HMMPfam hit to PF00271; Helicase conserved C-terminal domain 645464002717 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 645464002718 active site 645464002719 metal-binding site 645464002720 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 645464002721 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 645464002722 conserved cys residue [active] 645464002723 hypothetical protein; Provisional; Region: PRK05849 645464002724 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 645464002725 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 645464002726 HMMPfam hit to PF00391; PEP-utilising enzyme, mobile domain 645464002727 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 645464002728 S-adenosylmethionine binding site [chemical binding]; other site 645464002729 HMMPfam hit to PF08241; Methyltransferase domain 645464002730 HMMPfam hit to PF08242; Methyltransferase domain 645464002731 Methyltransferase domain; Region: Methyltransf_31; pfam13847 645464002732 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 645464002733 S-adenosylmethionine binding site [chemical binding]; other site 645464002734 HMMPfam hit to PF08241; Methyltransferase domain 645464002735 Predicted transcriptional regulator [Transcription]; Region: COG2932 645464002736 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 645464002737 Catalytic site [active] 645464002738 HMMPfam hit to PF00717; Peptidase S24-like 645464002739 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 645464002740 Domain of unknown function (DUF955); Region: DUF955; pfam06114 645464002741 HMMPfam hit to PF06114; Domain of unknown function (DUF955) 645464002742 Predicted transcriptional regulator [Transcription]; Region: COG2932 645464002743 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 645464002744 Catalytic site [active] 645464002745 HMMPfam hit to PF00717; Peptidase S24-like 645464002746 Protein of unknown function (DUF2972); Region: DUF2972; pfam11186 645464002747 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 645464002748 AAA domain; Region: AAA_18; pfam13238 645464002749 ligand-binding site [chemical binding]; other site 645464002750 HMMPfam hit to PF01583; Adenylylsulphate kinase 645464002751 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 645464002752 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 645464002753 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 645464002754 HMMPfam hit to PF04551; GcpE protein 645464002755 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 645464002756 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 645464002757 HMMPfam hit to PF02107; Flagellar L-ring protein 645464002758 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 645464002759 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 645464002760 HMMPfam hit to PF01515; Phosphate acetyl/butaryl transferase 645464002761 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 645464002762 propionate/acetate kinase; Provisional; Region: PRK12379 645464002763 HMMPfam hit to PF00871; Acetokinase family 645464002764 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 645464002765 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 645464002766 S-adenosylmethionine binding site [chemical binding]; other site 645464002767 HMMPfam hit to PF01795; MraW methylase family 645464002768 SurA N-terminal domain; Region: SurA_N_3; cl07813 645464002769 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 645464002770 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 645464002771 cell division protein FtsA; Region: ftsA; TIGR01174 645464002772 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 645464002773 nucleotide binding site [chemical binding]; other site 645464002774 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 645464002775 Cell division protein FtsA; Region: FtsA; pfam14450 645464002776 HMMPfam hit to PF02491; Cell division protein FtsA 645464002777 HMMPfam hit to PF02491; Cell division protein FtsA 645464002778 cell division protein FtsZ; Validated; Region: PRK09330 645464002779 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 645464002780 nucleotide binding site [chemical binding]; other site 645464002781 SulA interaction site; other site 645464002782 HMMPfam hit to PF00091; Tubulin/FtsZ family, GTPase domain 645464002783 HMMPfam hit to PF03953; Tubulin/FtsZ family, C-terminal domain 645464002784 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 645464002785 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 645464002786 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 645464002787 HMMPfam hit to PF00460; Flagella basal body rod protein 645464002788 HMMPfam hit to PF06429; Domain of unknown function (DUF1078) 645464002789 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 645464002790 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 645464002791 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 645464002792 HMMPfam hit to PF00460; Flagella basal body rod protein 645464002793 HMMPfam hit to PF06429; Domain of unknown function (DUF1078) 645464002794 glutamine synthetase, type I; Region: GlnA; TIGR00653 645464002795 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 645464002796 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 645464002797 HMMPfam hit to PF00120; Glutamine synthetase, catalytic domain 645464002798 HMMPfam hit to PF03951; Glutamine synthetase, beta-Grasp domain 645464002799 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 645464002800 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 645464002801 Peptidase family U32; Region: Peptidase_U32; pfam01136 645464002802 HMMPfam hit to PF01136; Peptidase family U32 645464002803 AIR carboxylase; Region: AIRC; smart01001 645464002804 HMMPfam hit to PF00731; AIR carboxylase 645464002805 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 645464002806 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 645464002807 dimer interface [polypeptide binding]; other site 645464002808 motif 1; other site 645464002809 active site 645464002810 motif 2; other site 645464002811 motif 3; other site 645464002812 HMMPfam hit to PF02091; Glycyl-tRNA synthetase alpha subunit 645464002813 Uncharacterized conserved protein [Function unknown]; Region: COG0327 645464002814 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 645464002815 HMMPfam hit to PF01784; NIF3 (NGG1p interacting factor 3) 645464002816 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 645464002817 Putative zinc ribbon domain; Region: DUF164; pfam02591 645464002818 HMMPfam hit to PF02591; Putative zinc ribbon domain 645464002819 potential frameshift: common BLAST hit: gi|315124209|ref|YP_004066213.1| 3-deoxy-D-manno-octulosonic-acid transferase 645464002820 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 645464002821 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 645464002822 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 645464002823 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 645464002824 active site 645464002825 HMMPfam hit to PF00849; RNA pseudouridylate synthase 645464002826 signal recognition particle protein; Provisional; Region: PRK10867 645464002827 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 645464002828 P loop; other site 645464002829 GTP binding site [chemical binding]; other site 645464002830 Signal peptide binding domain; Region: SRP_SPB; pfam02978 645464002831 HMMPfam hit to PF02881; SRP54-type protein, helical bundle domain 645464002832 HMMPfam hit to PF00448; SRP54-type protein, GTPase domain 645464002833 HMMPfam hit to PF02978; Signal peptide binding domain 645464002834 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 645464002835 HMMPfam hit to PF00886; Ribosomal protein S16 645464002836 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 645464002837 KH domain; Region: KH_4; pfam13083 645464002838 G-X-X-G motif; other site 645464002839 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 645464002840 RimM N-terminal domain; Region: RimM; pfam01782 645464002841 PRC-barrel domain; Region: PRC; pfam05239 645464002842 HMMPfam hit to PF01782; RimM N-terminal domain 645464002843 HMMPfam hit to PF05239; PRC-barrel domain 645464002844 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 645464002845 HMMPfam hit to PF01746; tRNA (Guanine-1)-methyltransferase 645464002846 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 645464002847 HMMPfam hit to PF01245; Ribosomal protein L19 645464002848 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 645464002849 active site 645464002850 homotetramer interface [polypeptide binding]; other site 645464002851 HMMPfam hit to PF00576; HIUase/Transthyretin family 645464002852 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 645464002853 HMMPfam hit to PF01474; Class-II DAHP synthetase family 645464002854 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 645464002855 ArsC family; Region: ArsC; pfam03960 645464002856 HMMPfam hit to PF03960; ArsC family 645464002857 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 645464002858 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 645464002859 active site 645464002860 PHP Thumb interface [polypeptide binding]; other site 645464002861 metal binding site [ion binding]; metal-binding site 645464002862 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 645464002863 generic binding surface I; other site 645464002864 generic binding surface II; other site 645464002865 HMMPfam hit to PF02811; PHP domain 645464002866 HMMPfam hit to PF07733; Bacterial DNA polymerase III alpha subunit 645464002867 Predicted enzyme with a TIM-barrel fold [General function prediction only]; Region: COG0325 645464002868 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 645464002869 catalytic residue [active] 645464002870 HMMPfam hit to PF01168; Alanine racemase, N-terminal domain 645464002871 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 645464002872 flagellin; Provisional; Region: PRK12804 645464002873 HMMPfam hit to PF00669; Bacterial flagellin N-terminus 645464002874 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 645464002875 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 645464002876 S-adenosylmethionine binding site [chemical binding]; other site 645464002877 HMMPfam hit to PF05175; Methyltransferase small domain 645464002878 Peptidase family M48; Region: Peptidase_M48; pfam01435 645464002879 HMMPfam hit to PF01435; Peptidase family M48 645464002880 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 645464002881 MPT binding site; other site 645464002882 trimer interface [polypeptide binding]; other site 645464002883 HMMPfam hit to PF00994; Probable molybdopterin binding domain 645464002884 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 645464002885 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 645464002886 oligomer interface [polypeptide binding]; other site 645464002887 HMMPfam hit to PF01544; CorA-like Mg2+ transporter protein 645464002888 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 645464002889 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 645464002890 HMMPfam hit to PF01547; Bacterial extracellular solute-binding protein 645464002891 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 645464002892 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 645464002893 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 645464002894 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464002895 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 645464002896 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 645464002897 dimer interface [polypeptide binding]; other site 645464002898 conserved gate region; other site 645464002899 putative PBP binding loops; other site 645464002900 ABC-ATPase subunit interface; other site 645464002901 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464002902 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 645464002903 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 645464002904 Walker A/P-loop; other site 645464002905 ATP binding site [chemical binding]; other site 645464002906 Q-loop/lid; other site 645464002907 ABC transporter signature motif; other site 645464002908 Walker B; other site 645464002909 D-loop; other site 645464002910 H-loop/switch region; other site 645464002911 TOBE domain; Region: TOBE_2; pfam08402 645464002912 HMMPfam hit to PF00005; ABC transporter 645464002913 HMMPfam hit to PF08402; TOBE domain 645464002914 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 645464002915 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 645464002916 HMMPfam hit to PF00702; haloacid dehalogenase-like hydrolase 645464002917 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 645464002918 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 645464002919 substrate binding pocket [chemical binding]; other site 645464002920 membrane-bound complex binding site; other site 645464002921 hinge residues; other site 645464002922 HMMPfam hit to PF00497; Bacterial extracellular solute-binding proteins, family 3 645464002923 potential frameshift: common BLAST hit: gi|218562374|ref|YP_002344153.1| periplasmic protein 645464002924 haemagglutination activity domain; Region: Haemagg_act; smart00912 645464002925 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 645464002926 HMMPfam hit to PF05860; haemagglutination activity domain 645464002927 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 645464002928 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 645464002929 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 645464002930 HMMPfam hit to PF08479; POTRA domain, ShlB-type 645464002931 heat-inducible transcription repressor; Provisional; Region: PRK03911 645464002932 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 645464002933 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 645464002934 dimer interface [polypeptide binding]; other site 645464002935 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 645464002936 HMMPfam hit to PF01025; GrpE 645464002937 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 645464002938 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 645464002939 nucleotide binding site [chemical binding]; other site 645464002940 NEF interaction site [polypeptide binding]; other site 645464002941 SBD interface [polypeptide binding]; other site 645464002942 HMMPfam hit to PF00012; Hsp70 protein 645464002943 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 645464002944 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 645464002945 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 645464002946 aspartate aminotransferase; Provisional; Region: PRK05764 645464002947 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 645464002948 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464002949 homodimer interface [polypeptide binding]; other site 645464002950 catalytic residue [active] 645464002951 HMMPfam hit to PF00155; Aminotransferase class I and II 645464002952 serine O-acetyltransferase; Region: cysE; TIGR01172 645464002953 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 645464002954 trimer interface [polypeptide binding]; other site 645464002955 active site 645464002956 substrate binding site [chemical binding]; other site 645464002957 CoA binding site [chemical binding]; other site 645464002958 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464002959 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464002960 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464002961 arginine decarboxylase; Provisional; Region: PRK05354 645464002962 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 645464002963 dimer interface [polypeptide binding]; other site 645464002964 active site 645464002965 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 645464002966 catalytic residues [active] 645464002967 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 645464002968 HMMPfam hit to PF00278; Pyridoxal-dependent decarboxylase, C-terminal sheet domain 645464002969 HMMPfam hit to PF02784; Pyridoxal-dependent decarboxylase, pyridoxal binding domain 645464002970 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 645464002971 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 645464002972 dimer interface [polypeptide binding]; other site 645464002973 motif 1; other site 645464002974 active site 645464002975 motif 2; other site 645464002976 motif 3; other site 645464002977 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 645464002978 anticodon binding site; other site 645464002979 HMMPfam hit to PF00587; tRNA synthetase class II core domain (G, H, P, S and T) 645464002980 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 645464002981 thymidylate kinase; Validated; Region: tmk; PRK00698 645464002982 TMP-binding site; other site 645464002983 ATP-binding site [chemical binding]; other site 645464002984 HMMPfam hit to PF02223; Thymidylate kinase 645464002985 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 645464002986 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 645464002987 active site 645464002988 (T/H)XGH motif; other site 645464002989 HMMPfam hit to PF01467; Cytidylyltransferase 645464002990 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 645464002991 Flavoprotein; Region: Flavoprotein; pfam02441 645464002992 HMMPfam hit to PF02441; Flavoprotein 645464002993 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 645464002994 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 645464002995 HMMPfam hit to PF08666; SAF domain 645464002996 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 645464002997 HMMPfam hit to PF03180; NLPA lipoprotein 645464002998 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 645464002999 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 645464003000 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 645464003001 HMMPfam hit to PF03180; NLPA lipoprotein 645464003002 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 645464003003 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 645464003004 HMMPfam hit to PF03180; NLPA lipoprotein 645464003005 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 645464003006 ABC-ATPase subunit interface; other site 645464003007 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464003008 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 645464003009 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 645464003010 Walker A/P-loop; other site 645464003011 ATP binding site [chemical binding]; other site 645464003012 Q-loop/lid; other site 645464003013 ABC transporter signature motif; other site 645464003014 Walker B; other site 645464003015 D-loop; other site 645464003016 H-loop/switch region; other site 645464003017 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 645464003018 HMMPfam hit to PF09383; NIL domain 645464003019 HMMPfam hit to PF00005; ABC transporter 645464003020 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 645464003021 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 645464003022 active site 645464003023 HIGH motif; other site 645464003024 nucleotide binding site [chemical binding]; other site 645464003025 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 645464003026 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 645464003027 active site 645464003028 KMSKS motif; other site 645464003029 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 645464003030 tRNA binding surface [nucleotide binding]; other site 645464003031 anticodon binding site; other site 645464003032 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 645464003033 HMMPfam hit to PF10458; Valyl tRNA synthetase tRNA binding arm 645464003034 HMMPfam hit to PF08264; Anticodon-binding domain 645464003035 HMMPfam hit to PF09334; tRNA synthetases class I (M) 645464003036 HMMPfam hit to PF00133; tRNA synthetases class I (I, L, M and V) 645464003037 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 645464003038 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 645464003039 Part of AAA domain; Region: AAA_19; pfam13245 645464003040 Family description; Region: UvrD_C_2; pfam13538 645464003041 HMMPfam hit to PF00580; UvrD/REP helicase 645464003042 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 645464003043 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 645464003044 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 645464003045 dimer interface [polypeptide binding]; other site 645464003046 catalytic triad [active] 645464003047 peroxidatic and resolving cysteines [active] 645464003048 HMMPfam hit to PF08534; Redoxin 645464003049 HMMPfam hit to PF00578; AhpC/TSA family 645464003050 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 645464003051 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 645464003052 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 645464003053 molybdopterin cofactor binding site; other site 645464003054 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 645464003055 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 645464003056 molybdopterin cofactor binding site; other site 645464003057 HMMPfam hit to PF04879; Molybdopterin oxidoreductase Fe4S4 domain 645464003058 HMMPfam hit to PF00384; Molybdopterin oxidoreductase 645464003059 HMMPfam hit to PF01568; Molydopterin dinucleotide binding domain 645464003060 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 645464003061 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 645464003062 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464003063 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464003064 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 645464003065 4Fe-4S binding domain; Region: Fer4_5; pfam12801 645464003066 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 645464003067 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464003068 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 645464003069 HMMPfam hit to PF03892; Nitrate reductase cytochrome c-type subunit (NapB) 645464003070 FOG: WD40 repeat [General function prediction only]; Region: COG2319 645464003071 NapD protein; Region: NapD; cl01163 645464003072 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 645464003073 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 645464003074 active site 645464003075 NTP binding site [chemical binding]; other site 645464003076 metal binding triad [ion binding]; metal-binding site 645464003077 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 645464003078 HMMPfam hit to PF01743; Poly A polymerase head domain 645464003079 Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]; Region: PurU; COG0788 645464003080 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 645464003081 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 645464003082 putative active site [active] 645464003083 putative substrate binding site [chemical binding]; other site 645464003084 putative cosubstrate binding site; other site 645464003085 catalytic site [active] 645464003086 HMMPfam hit to PF00551; Formyl transferase 645464003087 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 645464003088 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 645464003089 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645464003090 catalytic residue [active] 645464003091 HMMPfam hit to PF00266; Aminotransferase class-V 645464003092 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 645464003093 HMMPfam hit to PF03008; Archaea bacterial proteins of unknown function 645464003094 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645464003095 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 645464003096 dimer interface [polypeptide binding]; other site 645464003097 phosphorylation site [posttranslational modification] 645464003098 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 645464003099 ATP binding site [chemical binding]; other site 645464003100 Mg2+ binding site [ion binding]; other site 645464003101 G-X-G motif; other site 645464003102 HMMPfam hit to PF00512; His Kinase A (phosphoacceptor) domain 645464003103 HMMPfam hit to PF02518; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 645464003104 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 645464003105 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 645464003106 HMMPfam hit to PF08245; Mur ligase middle domain 645464003107 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 645464003108 HMMPfam hit to PF00561; alpha/beta hydrolase fold 645464003109 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 645464003110 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 645464003111 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 645464003112 ATP-grasp domain; Region: ATP-grasp_4; cl17255 645464003113 HMMPfam hit to PF07478; D-ala D-ala ligase C-terminus 645464003114 HMMPfam hit to PF01820; D-ala D-ala ligase N-terminus 645464003115 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14601 645464003116 RuvA N terminal domain; Region: RuvA_N; pfam01330 645464003117 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 645464003118 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 645464003119 HMMPfam hit to PF07499; RuvA, C-terminal domain 645464003120 HMMPfam hit to PF01330; RuvA N terminal domain 645464003121 Protein of unknown function (DUF342); Region: DUF342; pfam03961 645464003122 potential frameshift: common BLAST hit: gi|157415072|ref|YP_001482328.1| integral membrane protein MviN 645464003123 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 645464003124 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 645464003125 HMMPfam hit to PF03023; MviN-like protein 645464003126 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 645464003127 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 645464003128 active site 645464003129 HIGH motif; other site 645464003130 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 645464003131 KMSKS motif; other site 645464003132 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 645464003133 tRNA binding surface [nucleotide binding]; other site 645464003134 anticodon binding site; other site 645464003135 HMMPfam hit to PF01406; tRNA synthetases class I (C) catalytic domain 645464003136 HMMPfam hit to PF09334; tRNA synthetases class I (M) 645464003137 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 645464003138 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 645464003139 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645464003140 Walker A/P-loop; other site 645464003141 ATP binding site [chemical binding]; other site 645464003142 Q-loop/lid; other site 645464003143 ABC transporter signature motif; other site 645464003144 Walker B; other site 645464003145 D-loop; other site 645464003146 H-loop/switch region; other site 645464003147 HMMPfam hit to PF00664; ABC transporter transmembrane region 645464003148 HMMPfam hit to PF00005; ABC transporter 645464003149 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 645464003150 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 645464003151 quinone interaction residues [chemical binding]; other site 645464003152 active site 645464003153 catalytic residues [active] 645464003154 FMN binding site [chemical binding]; other site 645464003155 substrate binding site [chemical binding]; other site 645464003156 HMMPfam hit to PF01180; Dihydroorotate dehydrogenase 645464003157 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 645464003158 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 645464003159 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 645464003160 HMMPfam hit to PF00675; Insulinase (Peptidase family M16) 645464003161 HMMPfam hit to PF05193; Peptidase M16 inactive domain 645464003162 dihydrodipicolinate synthase; Region: dapA; TIGR00674 645464003163 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 645464003164 dimer interface [polypeptide binding]; other site 645464003165 active site 645464003166 catalytic residue [active] 645464003167 HMMPfam hit to PF00701; Dihydrodipicolinate synthetase family 645464003168 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 645464003169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 645464003170 NAD(P) binding site [chemical binding]; other site 645464003171 active site 645464003172 HMMPfam hit to PF00106; short chain dehydrogenase 645464003173 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 645464003174 HMMPfam hit to PF00753; Metallo-beta-lactamase superfamily 645464003175 NAD synthetase; Provisional; Region: PRK13980 645464003176 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 645464003177 homodimer interface [polypeptide binding]; other site 645464003178 NAD binding pocket [chemical binding]; other site 645464003179 ATP binding pocket [chemical binding]; other site 645464003180 Mg binding site [ion binding]; other site 645464003181 active-site loop [active] 645464003182 HMMPfam hit to PF02540; NAD synthase 645464003183 HMMPfam hit to PF06508; ExsB 645464003184 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 645464003185 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 645464003186 HMMPfam hit to PF02606; Tetraacyldisaccharide-1-P 4'-kinase 645464003187 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 645464003188 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 645464003189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464003190 catalytic residue [active] 645464003191 HMMPfam hit to PF00291; Pyridoxal-phosphate dependent enzyme 645464003192 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 645464003193 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 645464003194 Ligand binding site; other site 645464003195 oligomer interface; other site 645464003196 HMMPfam hit to PF02348; Cytidylyltransferase 645464003197 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 645464003198 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 645464003199 substrate binding pocket [chemical binding]; other site 645464003200 membrane-bound complex binding site; other site 645464003201 hinge residues; other site 645464003202 HMMPfam hit to PF00497; Bacterial extracellular solute-binding proteins, family 3 645464003203 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 645464003204 HMMPfam hit to PF00813; FliP family 645464003205 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 645464003206 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 645464003207 Substrate binding site; other site 645464003208 Mg++ binding site; other site 645464003209 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 645464003210 active site 645464003211 substrate binding site [chemical binding]; other site 645464003212 CoA binding site [chemical binding]; other site 645464003213 HMMPfam hit to PF00483; Nucleotidyl transferase 645464003214 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464003215 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464003216 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464003217 HMMPfam hit to PF00132; Bacterial transferase hexapeptide (three repeats) 645464003218 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 645464003219 Flavoprotein; Region: Flavoprotein; pfam02441 645464003220 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 645464003221 HMMPfam hit to PF02441; Flavoprotein 645464003222 HMMPfam hit to PF04127; DNA / pantothenate metabolism flavoprotein 645464003223 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 645464003224 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 645464003225 catalytic residue [active] 645464003226 putative FPP diphosphate binding site; other site 645464003227 putative FPP binding hydrophobic cleft; other site 645464003228 dimer interface [polypeptide binding]; other site 645464003229 putative IPP diphosphate binding site; other site 645464003230 HMMPfam hit to PF01255; Putative undecaprenyl diphosphate synthase 645464003231 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 645464003232 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 645464003233 HMMPfam hit to PF06750; Bacterial Peptidase A24 N-terminal domain 645464003234 Predicted permeases [General function prediction only]; Region: COG0795 645464003235 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 645464003236 HMMPfam hit to PF03739; Predicted permease YjgP/YjgQ family 645464003237 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 645464003238 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 645464003239 dimerization interface 3.5A [polypeptide binding]; other site 645464003240 active site 645464003241 HMMPfam hit to PF01416; tRNA pseudouridine synthase 645464003242 HMMPfam hit to PF01416; tRNA pseudouridine synthase 645464003243 threonine dehydratase; Provisional; Region: PRK08526 645464003244 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 645464003245 tetramer interface [polypeptide binding]; other site 645464003246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464003247 catalytic residue [active] 645464003248 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 645464003249 HMMPfam hit to PF00291; Pyridoxal-phosphate dependent enzyme 645464003250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 645464003251 HMMPfam hit to PF04323; Protein of unknown function (DUF474) 645464003252 tRNA (Uracil-5-)-methyltransferase; Region: tRNA_U5-meth_tr; pfam05958 645464003253 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 645464003254 S-adenosylmethionine binding site [chemical binding]; other site 645464003255 HMMPfam hit to PF05958; tRNA (Uracil-5-)-methyltransferase 645464003256 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 645464003257 HMMPfam hit to PF03553; Na+/H+ antiporter family 645464003258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 645464003259 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 645464003260 NAD(P) binding site [chemical binding]; other site 645464003261 active site 645464003262 HMMPfam hit to PF01370; NAD dependent epimerase/dehydratase family 645464003263 HMMPfam hit to PF00106; short chain dehydrogenase 645464003264 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 645464003265 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 645464003266 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 645464003267 HMMPfam hit to PF00023; Ankyrin repeat 645464003268 HMMPfam hit to PF00023; Ankyrin repeat 645464003269 HMMPfam hit to PF00023; Ankyrin repeat 645464003270 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 645464003271 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 645464003272 substrate binding site [chemical binding]; other site 645464003273 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 645464003274 substrate binding site [chemical binding]; other site 645464003275 ligand binding site [chemical binding]; other site 645464003276 HMMPfam hit to PF00330; Aconitase family (aconitate hydratase) 645464003277 HMMPfam hit to PF06434; Aconitate hydratase 2 N-terminus 645464003278 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 645464003279 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 645464003280 DNA binding site [nucleotide binding] 645464003281 active site 645464003282 HMMPfam hit to PF01035; 6-O-methylguanine DNA methyltransferase, DNA binding domain 645464003283 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 645464003284 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 645464003285 active site 645464003286 HIGH motif; other site 645464003287 KMSKS motif; other site 645464003288 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 645464003289 tRNA binding surface [nucleotide binding]; other site 645464003290 anticodon binding site; other site 645464003291 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 645464003292 putative tRNA-binding site [nucleotide binding]; other site 645464003293 dimer interface [polypeptide binding]; other site 645464003294 HMMPfam hit to PF01588; Putative tRNA binding domain 645464003295 HMMPfam hit to PF09334; tRNA synthetases class I (M) 645464003296 Fructose-1,6-bisphosphatase [Carbohydrate transport and metabolism]; Region: Fbp; COG0158 645464003297 active site 645464003298 HMMPfam hit to PF00316; Fructose-1-6-bisphosphatase 645464003299 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 645464003300 Walker A motif; other site 645464003301 HMMPfam hit to PF03205; Molybdopterin guanine dinucleotide synthesis protein B 645464003302 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 645464003303 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 645464003304 N-acetyl-D-glucosamine binding site [chemical binding]; other site 645464003305 catalytic residue [active] 645464003306 HMMPfam hit to PF01464; Transglycosylase SLT domain 645464003307 YGGT family; Region: YGGT; pfam02325 645464003308 HMMPfam hit to PF02325; YGGT family 645464003309 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 645464003310 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 645464003311 active site 645464003312 HIGH motif; other site 645464003313 nucleotide binding site [chemical binding]; other site 645464003314 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 645464003315 active site 645464003316 KMSKS motif; other site 645464003317 HMMPfam hit to PF00749; tRNA synthetases class I (E and Q), catalytic domain 645464003318 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 645464003319 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 645464003320 putative active site [active] 645464003321 putative metal binding site [ion binding]; other site 645464003322 HMMPfam hit to PF00149; Calcineurin-like phosphoesterase 645464003323 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 645464003324 HMMPfam hit to PF02666; Phosphatidylserine decarboxylase 645464003325 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 645464003326 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 645464003327 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 645464003328 putative substrate translocation pore; other site 645464003329 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645464003330 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464003331 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 645464003332 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 645464003333 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 645464003334 inhibitor-cofactor binding pocket; inhibition site 645464003335 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464003336 catalytic residue [active] 645464003337 HMMPfam hit to PF00202; Aminotransferase class-III 645464003338 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14166 645464003339 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 645464003340 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 645464003341 homodimer interface [polypeptide binding]; other site 645464003342 NADP binding site [chemical binding]; other site 645464003343 substrate binding site [chemical binding]; other site 645464003344 HMMPfam hit to PF00763; Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain 645464003345 HMMPfam hit to PF02882; Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain 645464003346 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 645464003347 Catalytic site [active] 645464003348 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 645464003349 HMMPfam hit to PF00717; Peptidase S24-like 645464003350 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 645464003351 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 645464003352 dimer interface [polypeptide binding]; other site 645464003353 putative functional site; other site 645464003354 putative MPT binding site; other site 645464003355 HMMPfam hit to PF03454; MoeA C-terminal region (domain IV) 645464003356 HMMPfam hit to PF00994; Probable molybdopterin binding domain 645464003357 HMMPfam hit to PF03453; MoeA N-terminal region (domain I and II) 645464003358 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 645464003359 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 645464003360 hinge; other site 645464003361 active site 645464003362 HMMPfam hit to PF00275; EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase) 645464003363 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 645464003364 EamA-like transporter family; Region: EamA; pfam00892 645464003365 HMMPfam hit to PF00892; Integral membrane protein DUF6 645464003366 HMMPfam hit to PF00892; Integral membrane protein DUF6 645464003367 potential frameshift: common BLAST hit: gi|153952574|ref|YP_001398118.1| para-aminobenzoate synthase glutamine amidotransferase, component 645464003368 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 645464003369 catalytic triad [active] 645464003370 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 645464003371 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 645464003372 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 645464003373 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 645464003374 substrate-cofactor binding pocket; other site 645464003375 homodimer interface [polypeptide binding]; other site 645464003376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464003377 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 645464003378 catalytic residue [active] 645464003379 HMMPfam hit to PF01063; Aminotransferase class IV 645464003380 HMMPfam hit to PF00425; chorismate binding enzyme 645464003381 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 645464003382 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 645464003383 active site 645464003384 DNA binding site [nucleotide binding] 645464003385 Int/Topo IB signature motif; other site 645464003386 HMMPfam hit to PF00589; Phage integrase family 645464003387 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 645464003388 catalytic residues [active] 645464003389 hinge region; other site 645464003390 alpha helical domain; other site 645464003391 putative disulfide oxidoreductase; Provisional; Region: PRK04307 645464003392 potential frameshift: common BLAST hit: gi|157415133|ref|YP_001482389.1| arylsulfate sulfotransferase 645464003393 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 645464003394 HMMPfam hit to PF05935; Arylsulfotransferase (ASST) 645464003395 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 645464003396 HMMPfam hit to PF05935; Arylsulfotransferase (ASST) 645464003397 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 645464003398 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 645464003399 catalytic residues [active] 645464003400 hinge region; other site 645464003401 alpha helical domain; other site 645464003402 HMMPfam hit to PF01323; DSBA-like thioredoxin domain 645464003403 Cytochrome c [Energy production and conversion]; Region: COG3258 645464003404 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 645464003405 HMMPfam hit to PF00034; Cytochrome c 645464003406 DHH family; Region: DHH; pfam01368 645464003407 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 645464003408 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 645464003409 FHIPEP family; Region: FHIPEP; pfam00771 645464003410 HMMPfam hit to PF00771; FHIPEP family 645464003411 Rrf2 family protein; Region: rrf2_super; TIGR00738 645464003412 Transcriptional regulator; Region: Rrf2; pfam02082 645464003413 HMMPfam hit to PF02082; Transcriptional regulator 645464003414 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 645464003415 16S/18S rRNA binding site [nucleotide binding]; other site 645464003416 S13e-L30e interaction site [polypeptide binding]; other site 645464003417 25S rRNA binding site [nucleotide binding]; other site 645464003418 HMMPfam hit to PF00312; Ribosomal protein S15 645464003419 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 645464003420 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 645464003421 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 645464003422 HMMPfam hit to PF09397; Ftsk gamma domain 645464003423 HMMPfam hit to PF01580; FtsK/SpoIIIE family 645464003424 lagellar hook-associated protein FlgL; Provisional; Region: PRK14692 645464003425 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 645464003426 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 645464003427 HMMPfam hit to PF00669; Bacterial flagellin N-terminus 645464003428 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 645464003429 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645464003430 Walker A/P-loop; other site 645464003431 ATP binding site [chemical binding]; other site 645464003432 Q-loop/lid; other site 645464003433 ABC transporter signature motif; other site 645464003434 Walker B; other site 645464003435 D-loop; other site 645464003436 H-loop/switch region; other site 645464003437 ABC transporter; Region: ABC_tran_2; pfam12848 645464003438 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645464003439 HMMPfam hit to PF00005; ABC transporter 645464003440 HMMPfam hit to PF00005; ABC transporter 645464003441 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645464003442 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 645464003443 ATP binding site [chemical binding]; other site 645464003444 Mg2+ binding site [ion binding]; other site 645464003445 G-X-G motif; other site 645464003446 HMMPfam hit to PF02518; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 645464003447 HMMPfam hit to PF00512; His Kinase A (phosphoacceptor) domain 645464003448 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 645464003449 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 645464003450 active site 645464003451 phosphorylation site [posttranslational modification] 645464003452 intermolecular recognition site; other site 645464003453 dimerization interface [polypeptide binding]; other site 645464003454 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 645464003455 DNA binding site [nucleotide binding] 645464003456 HMMPfam hit to PF00486; Transcriptional regulatory protein, C terminal 645464003457 HMMPfam hit to PF00072; Response regulator receiver domain 645464003458 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 645464003459 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 645464003460 ligand binding site [chemical binding]; other site 645464003461 NAD binding site [chemical binding]; other site 645464003462 dimerization interface [polypeptide binding]; other site 645464003463 catalytic site [active] 645464003464 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 645464003465 putative L-serine binding site [chemical binding]; other site 645464003466 HMMPfam hit to PF01842; ACT domain 645464003467 HMMPfam hit to PF00389; D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain 645464003468 HMMPfam hit to PF02826; D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain 645464003469 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 645464003470 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 645464003471 RNA binding site [nucleotide binding]; other site 645464003472 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 645464003473 RNA binding site [nucleotide binding]; other site 645464003474 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 645464003475 RNA binding site [nucleotide binding]; other site 645464003476 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 645464003477 RNA binding site [nucleotide binding]; other site 645464003478 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 645464003479 RNA binding site [nucleotide binding]; other site 645464003480 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 645464003481 RNA binding site [nucleotide binding]; other site 645464003482 HMMPfam hit to PF00575; S1 RNA binding domain 645464003483 HMMPfam hit to PF00575; S1 RNA binding domain 645464003484 HMMPfam hit to PF00575; S1 RNA binding domain 645464003485 HMMPfam hit to PF00575; S1 RNA binding domain 645464003486 HMMPfam hit to PF00575; S1 RNA binding domain 645464003487 HMMPfam hit to PF00575; S1 RNA binding domain 645464003488 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 645464003489 LytB protein; Region: LYTB; pfam02401 645464003490 HMMPfam hit to PF02401; LytB protein 645464003491 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 645464003492 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 645464003493 hinge; other site 645464003494 active site 645464003495 HMMPfam hit to PF00275; EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase) 645464003496 phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial; Region: pheT_bact; TIGR00472 645464003497 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 645464003498 putative tRNA-binding site [nucleotide binding]; other site 645464003499 B3/4 domain; Region: B3_4; pfam03483 645464003500 tRNA synthetase B5 domain; Region: B5; smart00874 645464003501 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 645464003502 dimer interface [polypeptide binding]; other site 645464003503 motif 1; other site 645464003504 motif 3; other site 645464003505 motif 2; other site 645464003506 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 645464003507 HMMPfam hit to PF03147; Ferredoxin-fold anticodon binding domain 645464003508 HMMPfam hit to PF03484; tRNA synthetase B5 domain 645464003509 HMMPfam hit to PF03483; B3/4 domain 645464003510 HMMPfam hit to PF01588; Putative tRNA binding domain 645464003511 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 645464003512 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 645464003513 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 645464003514 dimer interface [polypeptide binding]; other site 645464003515 motif 1; other site 645464003516 active site 645464003517 motif 2; other site 645464003518 motif 3; other site 645464003519 HMMPfam hit to PF01409; tRNA synthetases class II core domain (F) 645464003520 HMMPfam hit to PF02912; Aminoacyl tRNA synthetase class II, N-terminal domain 645464003521 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 645464003522 nucleotide binding site/active site [active] 645464003523 HIT family signature motif; other site 645464003524 catalytic residue [active] 645464003525 HMMPfam hit to PF01230; HIT domain 645464003526 DJ-1 family protein; Region: not_thiJ; TIGR01383 645464003527 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 645464003528 conserved cys residue [active] 645464003529 HMMPfam hit to PF01965; DJ-1/PfpI family 645464003530 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 645464003531 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 645464003532 dimer interface [polypeptide binding]; other site 645464003533 conserved gate region; other site 645464003534 putative PBP binding loops; other site 645464003535 ABC-ATPase subunit interface; other site 645464003536 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464003537 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 645464003538 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 645464003539 Walker A/P-loop; other site 645464003540 ATP binding site [chemical binding]; other site 645464003541 Q-loop/lid; other site 645464003542 ABC transporter signature motif; other site 645464003543 Walker B; other site 645464003544 D-loop; other site 645464003545 H-loop/switch region; other site 645464003546 HMMPfam hit to PF00005; ABC transporter 645464003547 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 645464003548 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 645464003549 HMMPfam hit to PF01235; Sodium:alanine symporter family 645464003550 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 645464003551 HMMPfam hit to PF00588; SpoU rRNA Methylase family 645464003552 alanine racemase; Reviewed; Region: alr; PRK00053 645464003553 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 645464003554 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 645464003555 catalytic residue [active] 645464003556 HMMPfam hit to PF00842; Alanine racemase, C-terminal domain 645464003557 HMMPfam hit to PF01168; Alanine racemase, N-terminal domain 645464003558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 645464003559 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 645464003560 HMMPfam hit to PF03734; Ykud domain 645464003561 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 645464003562 HMMPfam hit to PF04314; Protein of unknown function (DUF461) 645464003563 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 645464003564 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 645464003565 Cu(I) binding site [ion binding]; other site 645464003566 HMMPfam hit to PF02630; SCO1/SenC 645464003567 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 645464003568 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 645464003569 dimer interface [polypeptide binding]; other site 645464003570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464003571 catalytic residue [active] 645464003572 HMMPfam hit to PF00291; Pyridoxal-phosphate dependent enzyme 645464003573 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 645464003574 IHF dimer interface [polypeptide binding]; other site 645464003575 IHF - DNA interface [nucleotide binding]; other site 645464003576 HMMPfam hit to PF00216; Bacterial DNA-binding protein 645464003577 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 645464003578 HMMPfam hit to PF03061; Thioesterase superfamily 645464003579 carbon starvation protein A; Provisional; Region: PRK15015 645464003580 Carbon starvation protein CstA; Region: CstA; pfam02554 645464003581 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 645464003582 HMMPfam hit to PF02554; Carbon starvation protein CstA 645464003583 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 645464003584 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 645464003585 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645464003586 active site 645464003587 HMMPfam hit to PF00156; Phosphoribosyl transferase domain 645464003588 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 645464003589 dimer interface [polypeptide binding]; other site 645464003590 conserved gate region; other site 645464003591 putative PBP binding loops; other site 645464003592 ABC-ATPase subunit interface; other site 645464003593 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464003594 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 645464003595 dimer interface [polypeptide binding]; other site 645464003596 conserved gate region; other site 645464003597 putative PBP binding loops; other site 645464003598 ABC-ATPase subunit interface; other site 645464003599 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464003600 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 645464003601 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 645464003602 substrate binding pocket [chemical binding]; other site 645464003603 membrane-bound complex binding site; other site 645464003604 hinge residues; other site 645464003605 HMMPfam hit to PF00497; Bacterial extracellular solute-binding proteins, family 3 645464003606 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 645464003607 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 645464003608 Walker A/P-loop; other site 645464003609 ATP binding site [chemical binding]; other site 645464003610 Q-loop/lid; other site 645464003611 ABC transporter signature motif; other site 645464003612 Walker B; other site 645464003613 D-loop; other site 645464003614 H-loop/switch region; other site 645464003615 HMMPfam hit to PF00005; ABC transporter 645464003616 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 645464003617 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 645464003618 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 645464003619 S-adenosylmethionine binding site [chemical binding]; other site 645464003620 HMMPfam hit to PF01739; CheR methyltransferase, SAM binding domain 645464003621 HMMPfam hit to PF03705; CheR methyltransferase, all-alpha domain 645464003622 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 645464003623 CheB methylesterase; Region: CheB_methylest; pfam01339 645464003624 HMMPfam hit to PF01339; CheB methylesterase 645464003625 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 645464003626 HMMPfam hit to PF02502; Ribose/Galactose Isomerase 645464003627 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 645464003628 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 645464003629 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645464003630 active site 645464003631 HMMPfam hit to PF00156; Phosphoribosyl transferase domain 645464003632 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 645464003633 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 645464003634 multifunctional aminopeptidase A; Provisional; Region: PRK00913 645464003635 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 645464003636 interface (dimer of trimers) [polypeptide binding]; other site 645464003637 Substrate-binding/catalytic site; other site 645464003638 Zn-binding sites [ion binding]; other site 645464003639 HMMPfam hit to PF00883; Cytosol aminopeptidase family, catalytic domain 645464003640 GTP-binding protein YchF; Reviewed; Region: PRK09601 645464003641 YchF GTPase; Region: YchF; cd01900 645464003642 G1 box; other site 645464003643 GTP/Mg2+ binding site [chemical binding]; other site 645464003644 Switch I region; other site 645464003645 G2 box; other site 645464003646 Switch II region; other site 645464003647 G3 box; other site 645464003648 G4 box; other site 645464003649 G5 box; other site 645464003650 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 645464003651 HMMPfam hit to PF01926; GTPase of unknown function 645464003652 HMMPfam hit to PF06071; Protein of unknown function (DUF933) 645464003653 argininosuccinate lyase; Provisional; Region: PRK00855 645464003654 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 645464003655 active sites [active] 645464003656 tetramer interface [polypeptide binding]; other site 645464003657 HMMPfam hit to PF00206; Lyase 645464003658 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 645464003659 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 645464003660 active site 645464003661 substrate-binding site [chemical binding]; other site 645464003662 metal-binding site [ion binding] 645464003663 ATP binding site [chemical binding]; other site 645464003664 HMMPfam hit to PF01293; Phosphoenolpyruvate carboxykinase 645464003665 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 645464003666 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 645464003667 active site 645464003668 catalytic residues [active] 645464003669 metal binding site [ion binding]; metal-binding site 645464003670 homodimer binding site [polypeptide binding]; other site 645464003671 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 645464003672 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 645464003673 carboxyltransferase (CT) interaction site; other site 645464003674 biotinylation site [posttranslational modification]; other site 645464003675 HMMPfam hit to PF00364; Biotin-requiring enzyme 645464003676 HMMPfam hit to PF00682; HMGL-like 645464003677 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 645464003678 Na2 binding site [ion binding]; other site 645464003679 putative substrate binding site 1 [chemical binding]; other site 645464003680 Na binding site 1 [ion binding]; other site 645464003681 putative substrate binding site 2 [chemical binding]; other site 645464003682 HMMPfam hit to PF00209; Sodium:neurotransmitter symporter family 645464003683 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 645464003684 Na2 binding site [ion binding]; other site 645464003685 putative substrate binding site 1 [chemical binding]; other site 645464003686 Na binding site 1 [ion binding]; other site 645464003687 putative substrate binding site 2 [chemical binding]; other site 645464003688 HMMPfam hit to PF00209; Sodium:neurotransmitter symporter family 645464003689 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 645464003690 HMMPfam hit to PF00137; ATP synthase subunit C 645464003691 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 645464003692 HMMPfam hit to PF03681; Uncharacterised protein family (UPF0150) 645464003693 potential frameshift: common BLAST hit: gi|57237852|ref|YP_179100.1| TraG-like protein 645464003694 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 645464003695 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 645464003696 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 645464003697 Predicted permeases [General function prediction only]; Region: COG0679 645464003698 HMMPfam hit to PF03547; Membrane transport protein 645464003699 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 645464003700 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 645464003701 putative substrate translocation pore; other site 645464003702 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 645464003703 putative acyl-acceptor binding pocket; other site 645464003704 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 645464003705 acyl-activating enzyme (AAE) consensus motif; other site 645464003706 AMP binding site [chemical binding]; other site 645464003707 active site 645464003708 CoA binding site [chemical binding]; other site 645464003709 HMMPfam hit to PF00501; AMP-binding enzyme 645464003710 HMMPfam hit to PF01553; Acyltransferase 645464003711 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464003712 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 645464003713 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 645464003714 dimer interface [polypeptide binding]; other site 645464003715 conserved gate region; other site 645464003716 putative PBP binding loops; other site 645464003717 ABC-ATPase subunit interface; other site 645464003718 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464003719 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 645464003720 FtsX-like permease family; Region: FtsX; pfam02687 645464003721 HMMPfam hit to PF02687; Predicted permease 645464003722 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 645464003723 DEAD/DEAH box helicase; Region: DEAD; pfam00270 645464003724 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 645464003725 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 645464003726 nucleotide binding region [chemical binding]; other site 645464003727 ATP-binding site [chemical binding]; other site 645464003728 SEC-C motif; Region: SEC-C; pfam02810 645464003729 HMMPfam hit to PF02810; SEC-C motif 645464003730 HMMPfam hit to PF07516; SecA Wing and Scaffold domain 645464003731 HMMPfam hit to PF00271; Helicase conserved C-terminal domain 645464003732 HMMPfam hit to PF07517; SecA DEAD-like domain 645464003733 HMMPfam hit to PF01043; SecA preprotein cross-linking domain 645464003734 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 645464003735 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 645464003736 HMMPfam hit to PF03548; Outer membrane lipoprotein carrier protein LolA 645464003737 PIF1-like helicase; Region: PIF1; pfam05970 645464003738 Helicase; Region: Herpes_Helicase; pfam02689 645464003739 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 645464003740 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 645464003741 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 645464003742 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 645464003743 NlpC/P60 family; Region: NLPC_P60; cl17555 645464003744 HMMPfam hit to PF00877; NlpC/P60 family 645464003745 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 645464003746 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 645464003747 putative active site; other site 645464003748 catalytic triad [active] 645464003749 putative dimer interface [polypeptide binding]; other site 645464003750 HMMPfam hit to PF00795; Carbon-nitrogen hydrolase 645464003751 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 645464003752 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 645464003753 HMMPfam hit to PF01545; Cation efflux family 645464003754 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 645464003755 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 645464003756 HMMPfam hit to PF04371; Porphyromonas-type peptidyl-arginine deiminase 645464003757 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 645464003758 HMMPfam hit to PF03724; META domain 645464003759 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 645464003760 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 645464003761 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 645464003762 dimer interface [polypeptide binding]; other site 645464003763 putative CheW interface [polypeptide binding]; other site 645464003764 HMMPfam hit to PF00015; Methyl-accepting chemotaxis protein (MCP) signaling domain 645464003765 HMMPfam hit to PF00672; HAMP domain 645464003766 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 645464003767 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 645464003768 purine monophosphate binding site [chemical binding]; other site 645464003769 dimer interface [polypeptide binding]; other site 645464003770 putative catalytic residues [active] 645464003771 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 645464003772 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 645464003773 HMMPfam hit to PF01808; AICARFT/IMPCHase bienzyme 645464003774 HMMPfam hit to PF02142; MGS-like domain 645464003775 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 645464003776 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 645464003777 putative metal binding site [ion binding]; other site 645464003778 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 645464003779 HSP70 interaction site [polypeptide binding]; other site 645464003780 HMMPfam hit to PF00226; DnaJ domain 645464003781 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 645464003782 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 645464003783 dimerization interface [polypeptide binding]; other site 645464003784 ATP binding site [chemical binding]; other site 645464003785 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 645464003786 dimerization interface [polypeptide binding]; other site 645464003787 ATP binding site [chemical binding]; other site 645464003788 HMMPfam hit to PF02769; AIR synthase related protein, C-terminal domain 645464003789 HMMPfam hit to PF00586; AIR synthase related protein, N-terminal domain 645464003790 HMMPfam hit to PF02769; AIR synthase related protein, C-terminal domain 645464003791 HMMPfam hit to PF00586; AIR synthase related protein, N-terminal domain 645464003792 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 645464003793 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 645464003794 trmE is a tRNA modification GTPase; Region: trmE; cd04164 645464003795 G1 box; other site 645464003796 GTP/Mg2+ binding site [chemical binding]; other site 645464003797 Switch I region; other site 645464003798 G2 box; other site 645464003799 Switch II region; other site 645464003800 G3 box; other site 645464003801 G4 box; other site 645464003802 G5 box; other site 645464003803 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 645464003804 HMMPfam hit to PF01926; GTPase of unknown function 645464003805 HMMPfam hit to PF08477; Miro-like protein 645464003806 HMMPfam hit to PF10396; GTP-binding protein TrmE N-terminus 645464003807 membrane protein insertase; Provisional; Region: PRK01318 645464003808 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 645464003809 HMMPfam hit to PF02096; 60Kd inner membrane protein 645464003810 Uncharacterized conserved protein [Function unknown]; Region: COG0759 645464003811 HMMPfam hit to PF01809; Domain of unknown function DUF37 645464003812 RNase P protein component [Translation, ribosomal structure and biogenesis]; Region: RnpA; COG0594 645464003813 HMMPfam hit to PF00825; Ribonuclease P 645464003814 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 645464003815 HMMPfam hit to PF00468; Ribosomal protein L34 645464003816 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645464003817 Coenzyme A binding pocket [chemical binding]; other site 645464003818 HMMPfam hit to PF00583; Acetyltransferase (GNAT) family 645464003819 Uracil-DNA glycosylase [DNA replication, recombination, and repair]; Region: COG1573 645464003820 ligand binding site [chemical binding]; other site 645464003821 active site 645464003822 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 645464003823 active site 645464003824 HMMPfam hit to PF03061; Thioesterase superfamily 645464003825 haemagglutination activity domain; Region: Haemagg_act; pfam05860 645464003826 HMMPfam hit to PF05860; haemagglutination activity domain 645464003827 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 645464003828 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 645464003829 Surface antigen; Region: Bac_surface_Ag; pfam01103 645464003830 HMMPfam hit to PF08479; POTRA domain, ShlB-type 645464003831 Hemerythrin; Region: Hemerythrin; cd12107 645464003832 Fe binding site [ion binding]; other site 645464003833 HMMPfam hit to PF01814; Hemerythrin HHE cation binding domain 645464003834 potential frameshift: common BLAST hit: gi|315123674|ref|YP_004065678.1| Hemerythrin HHE cation binding domain subfamily 645464003835 Hemerythrin; Region: Hemerythrin; cd12107 645464003836 Hemerythrin family; Region: Hemerythrin-like; cl15774 645464003837 Methyltransferase domain; Region: Methyltransf_23; pfam13489 645464003838 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 645464003839 S-adenosylmethionine binding site [chemical binding]; other site 645464003840 HMMPfam hit to PF08003; Protein of unknown function (DUF1698) 645464003841 HMMPfam hit to PF08242; Methyltransferase domain 645464003842 HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PaaI; COG2050 645464003843 active site 1 [active] 645464003844 active site 2 [active] 645464003845 potential frameshift: common BLAST hit: gi|157415239|ref|YP_001482495.1| aminoacyl-histidine dipeptidase 645464003846 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 645464003847 metal binding site [ion binding]; metal-binding site 645464003848 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 645464003849 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 645464003850 metabolite-proton symporter; Region: 2A0106; TIGR00883 645464003851 putative substrate translocation pore; other site 645464003852 HMMPfam hit to PF00083; Sugar (and other) transporter 645464003853 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464003854 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 645464003855 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 645464003856 substrate binding pocket [chemical binding]; other site 645464003857 membrane-bound complex binding site; other site 645464003858 hinge residues; other site 645464003859 HMMPfam hit to PF00497; Bacterial extracellular solute-binding proteins, family 3 645464003860 Protein of unknown function (DUF328); Region: DUF328; cl01143 645464003861 HMMPfam hit to PF03883; Protein of unknown function (DUF328) 645464003862 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645464003863 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 645464003864 metal binding site [ion binding]; metal-binding site 645464003865 putative dimer interface [polypeptide binding]; other site 645464003866 HMMPfam hit to PF01546; Peptidase family M20/M25/M40 645464003867 HMMPfam hit to PF07687; Peptidase dimerisation domain 645464003868 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 645464003869 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645464003870 putative substrate translocation pore; other site 645464003871 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464003872 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 645464003873 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 645464003874 Cysteine-rich domain; Region: CCG; pfam02754 645464003875 Cysteine-rich domain; Region: CCG; pfam02754 645464003876 HMMPfam hit to PF02754; Cysteine-rich domain 645464003877 HMMPfam hit to PF02754; Cysteine-rich domain 645464003878 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 645464003879 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 645464003880 FeS/SAM binding site; other site 645464003881 HemN C-terminal domain; Region: HemN_C; pfam06969 645464003882 HMMPfam hit to PF06969; HemN C-terminal region 645464003883 HMMPfam hit to PF04055; Radical SAM superfamily 645464003884 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 645464003885 HMMPfam hit to PF10788; Protein of unknown function (DUF2603) 645464003886 ornithine carbamoyltransferase; Provisional; Region: PRK00779 645464003887 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 645464003888 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 645464003889 HMMPfam hit to PF00185; Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain 645464003890 HMMPfam hit to PF02729; Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain 645464003891 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 645464003892 dimer interface [polypeptide binding]; other site 645464003893 active site 645464003894 Schiff base residues; other site 645464003895 HMMPfam hit to PF00490; Delta-aminolevulinic acid dehydratase 645464003896 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 645464003897 dimerization interface [polypeptide binding]; other site 645464003898 active site 645464003899 HMMPfam hit to PF00925; GTP cyclohydrolase II 645464003900 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 645464003901 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 645464003902 HMMPfam hit to PF02527; Glucose inhibited division protein 645464003903 Conserved hypothetical protein 698; Region: Cons_hypoth698; pfam03601 645464003904 HMMPfam hit to PF03601; Conserved hypothetical protein 698 645464003905 Transcriptional regulator [Transcription]; Region: LysR; COG0583 645464003906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 645464003907 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 645464003908 dimerization interface [polypeptide binding]; other site 645464003909 HMMPfam hit to PF00126; Bacterial regulatory helix-turn-helix protein, lysR family 645464003910 HMMPfam hit to PF03466; LysR substrate binding domain 645464003911 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 645464003912 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645464003913 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 645464003914 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 645464003915 DNA binding residues [nucleotide binding] 645464003916 HMMPfam hit to PF00140; Sigma-70 factor, region 1.2 645464003917 HMMPfam hit to PF04542; Sigma-70 region 2 645464003918 HMMPfam hit to PF04539; Sigma-70 region 3 645464003919 HMMPfam hit to PF04545; Sigma-70, region 4 645464003920 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 645464003921 catalytic core [active] 645464003922 HMMPfam hit to PF00300; Phosphoglycerate mutase family 645464003923 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 645464003924 HMMPfam hit to PF01694; Rhomboid family 645464003925 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 645464003926 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645464003927 Walker A motif; other site 645464003928 ATP binding site [chemical binding]; other site 645464003929 Walker B motif; other site 645464003930 arginine finger; other site 645464003931 HMMPfam hit to PF01434; Peptidase family M41 645464003932 HMMPfam hit to PF00004; ATPase family associated with various cellular activities (AAA) 645464003933 HMMPfam hit to PF07728; ATPase family associated with various cellular activities (AAA) 645464003934 HMMPfam hit to PF06480; FtsH Extracellular 645464003935 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 645464003936 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 645464003937 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 645464003938 HMMPfam hit to PF04055; Radical SAM superfamily 645464003939 HMMPfam hit to PF00919; Uncharacterized protein family UPF0004 645464003940 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 645464003941 Mechanosensitive ion channel; Region: MS_channel; pfam00924 645464003942 HMMPfam hit to PF00924; Mechanosensitive ion channel 645464003943 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 645464003944 active site 645464003945 dimer interface [polypeptide binding]; other site 645464003946 metal binding site [ion binding]; metal-binding site 645464003947 HMMPfam hit to PF01761; 3-dehydroquinate synthase 645464003948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 645464003949 TrkA-C domain; Region: TrkA_C; pfam02080 645464003950 HMMPfam hit to PF02080; TrkA-C domain 645464003951 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 645464003952 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 645464003953 HMMPfam hit to PF01702; Queuine tRNA-ribosyltransferase 645464003954 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 645464003955 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 645464003956 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 645464003957 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 645464003958 HMMPfam hit to PF01578; Cytochrome C assembly protein 645464003959 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 645464003960 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 645464003961 Walker A/P-loop; other site 645464003962 ATP binding site [chemical binding]; other site 645464003963 Q-loop/lid; other site 645464003964 ABC transporter signature motif; other site 645464003965 Walker B; other site 645464003966 D-loop; other site 645464003967 H-loop/switch region; other site 645464003968 HMMPfam hit to PF00005; ABC transporter 645464003969 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 645464003970 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 645464003971 Walker A/P-loop; other site 645464003972 ATP binding site [chemical binding]; other site 645464003973 Q-loop/lid; other site 645464003974 ABC transporter signature motif; other site 645464003975 Walker B; other site 645464003976 D-loop; other site 645464003977 H-loop/switch region; other site 645464003978 HMMPfam hit to PF00005; ABC transporter 645464003979 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 645464003980 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 645464003981 TM-ABC transporter signature motif; other site 645464003982 HMMPfam hit to PF02653; Branched-chain amino acid transport system / permease component 645464003983 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 645464003984 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 645464003985 TM-ABC transporter signature motif; other site 645464003986 HMMPfam hit to PF02653; Branched-chain amino acid transport system / permease component 645464003987 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 645464003988 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 645464003989 putative ligand binding site [chemical binding]; other site 645464003990 HMMPfam hit to PF01094; Receptor family ligand binding region 645464003991 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 645464003992 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 645464003993 putative ligand binding site [chemical binding]; other site 645464003994 HMMPfam hit to PF01094; Receptor family ligand binding region 645464003995 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 645464003996 Cytochrome c; Region: Cytochrom_C; cl11414 645464003997 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 645464003998 Predicted membrane protein [Function unknown]; Region: COG2862 645464003999 HMMPfam hit to PF03350; Uncharacterized protein family, UPF0114 645464004000 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 645464004001 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 645464004002 HMMPfam hit to PF02774; Semialdehyde dehydrogenase, dimerisation domain 645464004003 HMMPfam hit to PF01118; Semialdehyde dehydrogenase, NAD binding domain 645464004004 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 645464004005 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 645464004006 active site 645464004007 phosphorylation site [posttranslational modification] 645464004008 intermolecular recognition site; other site 645464004009 dimerization interface [polypeptide binding]; other site 645464004010 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 645464004011 Walker A motif; other site 645464004012 ATP binding site [chemical binding]; other site 645464004013 Walker B motif; other site 645464004014 arginine finger; other site 645464004015 HMMPfam hit to PF02954; Bacterial regulatory protein, Fis family 645464004016 HMMPfam hit to PF00158; Sigma-54 interaction domain 645464004017 HMMPfam hit to PF07728; ATPase family associated with various cellular activities (AAA) 645464004018 HMMPfam hit to PF00072; Response regulator receiver domain 645464004019 LPP20 lipoprotein; Region: LPP20; cl15824 645464004020 HMMPfam hit to PF04164; Protein of unknown function, DUF400 645464004021 DNA gyrase subunit A; Validated; Region: PRK05560 645464004022 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 645464004023 CAP-like domain; other site 645464004024 active site 645464004025 primary dimer interface [polypeptide binding]; other site 645464004026 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 645464004027 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 645464004028 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 645464004029 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 645464004030 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 645464004031 HMMPfam hit to PF03989; DNA gyrase C-terminal domain, beta-propeller 645464004032 HMMPfam hit to PF03989; DNA gyrase C-terminal domain, beta-propeller 645464004033 HMMPfam hit to PF03989; DNA gyrase C-terminal domain, beta-propeller 645464004034 HMMPfam hit to PF03989; DNA gyrase C-terminal domain, beta-propeller 645464004035 HMMPfam hit to PF03989; DNA gyrase C-terminal domain, beta-propeller 645464004036 HMMPfam hit to PF03989; DNA gyrase C-terminal domain, beta-propeller 645464004037 HMMPfam hit to PF00521; DNA gyrase/topoisomerase IV, subunit A 645464004038 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 645464004039 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645464004040 active site 645464004041 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 645464004042 GTP-binding protein LepA; Provisional; Region: PRK05433 645464004043 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 645464004044 G1 box; other site 645464004045 putative GEF interaction site [polypeptide binding]; other site 645464004046 GTP/Mg2+ binding site [chemical binding]; other site 645464004047 Switch I region; other site 645464004048 G2 box; other site 645464004049 G3 box; other site 645464004050 Switch II region; other site 645464004051 G4 box; other site 645464004052 G5 box; other site 645464004053 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 645464004054 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 645464004055 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 645464004056 HMMPfam hit to PF06421; GTP-binding protein LepA C-terminus 645464004057 HMMPfam hit to PF00679; Elongation factor G C-terminus 645464004058 HMMPfam hit to PF03144; Elongation factor Tu domain 2 645464004059 HMMPfam hit to PF00009; Elongation factor Tu GTP binding domain 645464004060 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 645464004061 HMMPfam hit to PF02321; Outer membrane efflux protein 645464004062 HMMPfam hit to PF02321; Outer membrane efflux protein 645464004063 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 645464004064 HlyD family secretion protein; Region: HlyD_3; pfam13437 645464004065 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 645464004066 HMMPfam hit to PF00873; AcrB/AcrD/AcrF family 645464004067 potential frameshift: common BLAST hit: gi|157415291|ref|YP_001482547.1| adenylosuccinate lyase 645464004068 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 645464004069 HSP70 interaction site [polypeptide binding]; other site 645464004070 HMMPfam hit to PF00226; DnaJ domain 645464004071 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 645464004072 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 645464004073 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 645464004074 HMMPfam hit to PF04377; Arginine-tRNA-protein transferase, C terminus 645464004075 HMMPfam hit to PF04376; Arginine-tRNA-protein transferase, N terminus 645464004076 acetyl-CoA carboxylase subunit A; Validated; Region: PRK08463 645464004077 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 645464004078 ATP-grasp domain; Region: ATP-grasp_4; cl17255 645464004079 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 645464004080 HMMPfam hit to PF02785; Biotin carboxylase C-terminal domain 645464004081 HMMPfam hit to PF02786; Carbamoyl-phosphate synthase L chain, ATP binding domain 645464004082 HMMPfam hit to PF08443; RimK-like ATP-grasp domain 645464004083 HMMPfam hit to PF02222; ATP-grasp domain 645464004084 HMMPfam hit to PF00289; Carbamoyl-phosphate synthase L chain, N-terminal domain 645464004085 cell division protein FtsW; Region: ftsW; TIGR02614 645464004086 HMMPfam hit to PF01098; Cell cycle protein 645464004087 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 645464004088 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 645464004089 active site 645464004090 homodimer interface [polypeptide binding]; other site 645464004091 HMMPfam hit to PF03033; Glycosyltransferase family 28 N-terminal domain 645464004092 HMMPfam hit to PF04101; Glycosyltransferase family 28 C-terminal domain 645464004093 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 645464004094 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464004095 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645464004096 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645464004097 HMMPfam hit to PF00165; Bacterial regulatory helix-turn-helix proteins, AraC family 645464004098 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 645464004099 thiamine phosphate binding site [chemical binding]; other site 645464004100 active site 645464004101 pyrophosphate binding site [ion binding]; other site 645464004102 HMMPfam hit to PF02581; Thiamine monophosphate synthase/TENI 645464004103 thiazole biosynthesis protein ThiH; Region: thiH; TIGR02351 645464004104 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 645464004105 FeS/SAM binding site; other site 645464004106 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 645464004107 HMMPfam hit to PF06968; Biotin and Thiamin Synthesis associated domain 645464004108 HMMPfam hit to PF04055; Radical SAM superfamily 645464004109 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 645464004110 ThiS interaction site; other site 645464004111 putative active site [active] 645464004112 tetramer interface [polypeptide binding]; other site 645464004113 HMMPfam hit to PF05690; Thiazole biosynthesis protein ThiG 645464004114 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 645464004115 thiamine biosynthesis protein ThiF, family 2; Region: thiF_fam2; TIGR02354 645464004116 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 645464004117 putative ATP binding site [chemical binding]; other site 645464004118 putative substrate interface [chemical binding]; other site 645464004119 HMMPfam hit to PF00899; ThiF family 645464004120 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 645464004121 thiS-thiF/thiG interaction site; other site 645464004122 HMMPfam hit to PF02597; ThiS family 645464004123 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 645464004124 HMMPfam hit to PF01420; Type I restriction modification DNA specificity domain 645464004125 HMMPfam hit to PF01420; Type I restriction modification DNA specificity domain 645464004126 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 645464004127 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 645464004128 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 645464004129 Methyltransferase domain; Region: Methyltransf_26; pfam13659 645464004130 HMMPfam hit to PF02384; N-6 DNA Methylase 645464004131 succinyl-diaminopimelate desuccinylase, proteobacterial clade; Region: dapE_proteo; TIGR01246 645464004132 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 645464004133 metal binding site [ion binding]; metal-binding site 645464004134 dimer interface [polypeptide binding]; other site 645464004135 HMMPfam hit to PF01546; Peptidase family M20/M25/M40 645464004136 HMMPfam hit to PF07687; Peptidase dimerisation domain 645464004137 LysE type translocator; Region: LysE; pfam01810 645464004138 HMMPfam hit to PF01810; LysE type translocator 645464004139 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 645464004140 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 645464004141 HMMPfam hit to PF02146; Sir2 family 645464004142 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 645464004143 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 645464004144 Methyltransferase domain; Region: Methyltransf_26; pfam13659 645464004145 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 645464004146 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 645464004147 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 645464004148 HMMPfam hit to PF01420; Type I restriction modification DNA specificity domain 645464004149 HMMPfam hit to PF01420; Type I restriction modification DNA specificity domain 645464004150 HMMPfam hit to PF02384; N-6 DNA Methylase 645464004151 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 645464004152 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645464004153 Walker A/P-loop; other site 645464004154 ATP binding site [chemical binding]; other site 645464004155 Q-loop/lid; other site 645464004156 ABC transporter signature motif; other site 645464004157 Walker B; other site 645464004158 D-loop; other site 645464004159 H-loop/switch region; other site 645464004160 Smr domain; Region: Smr; pfam01713 645464004161 HMMPfam hit to PF01713; Smr domain 645464004162 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 645464004163 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 645464004164 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 645464004165 HMMPfam hit to PF02875; Mur ligase family, glutamate ligase domain 645464004166 HMMPfam hit to PF08245; Mur ligase middle domain 645464004167 HMMPfam hit to PF01225; Mur ligase family, catalytic domain 645464004168 Predicted amidohydrolase [General function prediction only]; Region: COG0388 645464004169 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 645464004170 active site 645464004171 catalytic triad [active] 645464004172 dimer interface [polypeptide binding]; other site 645464004173 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 645464004174 HMMPfam hit to PF02609; Exonuclease VII small subunit 645464004175 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 645464004176 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 645464004177 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 645464004178 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 645464004179 active site 645464004180 HMMPfam hit to PF00478; IMP dehydrogenase / GMP reductase domain 645464004181 HMMPfam hit to PF00571; CBS domain pair 645464004182 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 645464004183 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 645464004184 HMMPfam hit to PF01425; Amidase 645464004185 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 645464004186 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 645464004187 active site 645464004188 HIGH motif; other site 645464004189 nucleotide binding site [chemical binding]; other site 645464004190 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 645464004191 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 645464004192 active site 645464004193 KMSKS motif; other site 645464004194 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 645464004195 tRNA binding surface [nucleotide binding]; other site 645464004196 anticodon binding site; other site 645464004197 HMMPfam hit to PF06827; Zinc finger found in FPG and IleRS 645464004198 HMMPfam hit to PF08264; Anticodon-binding domain 645464004199 HMMPfam hit to PF09334; tRNA synthetases class I (M) 645464004200 HMMPfam hit to PF00133; tRNA synthetases class I (I, L, M and V) 645464004201 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 645464004202 HMMPfam hit to PF02464; Competence-damaged protein 645464004203 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645464004204 Coenzyme A binding pocket [chemical binding]; other site 645464004205 HMMPfam hit to PF00583; Acetyltransferase (GNAT) family 645464004206 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 645464004207 dimer interface [polypeptide binding]; other site 645464004208 FMN binding site [chemical binding]; other site 645464004209 HMMPfam hit to PF00881; Nitroreductase family 645464004210 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 645464004211 dimer interface [polypeptide binding]; other site 645464004212 FMN binding site [chemical binding]; other site 645464004213 HMMPfam hit to PF00881; Nitroreductase family 645464004214 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 645464004215 HMMPfam hit to PF01066; CDP-alcohol phosphatidyltransferase 645464004216 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 645464004217 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 645464004218 active site 645464004219 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 645464004220 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 645464004221 putative substrate binding region [chemical binding]; other site 645464004222 HMMPfam hit to PF02163; Peptidase family M50 645464004223 Protein of unknown function (DUF535); Region: DUF535; cl01128 645464004224 Protein of unknown function (DUF535); Region: DUF535; cl01128 645464004225 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 645464004226 HMMPfam hit to PF01250; Ribosomal protein S6 645464004227 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 645464004228 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 645464004229 dimer interface [polypeptide binding]; other site 645464004230 ssDNA binding site [nucleotide binding]; other site 645464004231 tetramer (dimer of dimers) interface [polypeptide binding]; other site 645464004232 HMMPfam hit to PF00436; Single-strand binding protein family 645464004233 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 645464004234 HMMPfam hit to PF01084; Ribosomal protein S18 645464004235 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 645464004236 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 645464004237 Walker A motif; other site 645464004238 ATP binding site [chemical binding]; other site 645464004239 Walker B motif; other site 645464004240 arginine finger; other site 645464004241 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 645464004242 HMMPfam hit to PF05362; Lon protease (S16) C-terminal proteolytic domain 645464004243 HMMPfam hit to PF00004; ATPase family associated with various cellular activities (AAA) 645464004244 HMMPfam hit to PF07728; ATPase family associated with various cellular activities (AAA) 645464004245 HMMPfam hit to PF02190; ATP-dependent protease La (LON) domain 645464004246 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 645464004247 flagellar assembly protein FliW; Provisional; Region: PRK13282 645464004248 HMMPfam hit to PF02623; FliW protein 645464004249 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 645464004250 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 645464004251 HMMPfam hit to PF03807; NADP oxidoreductase coenzyme F420-dependent 645464004252 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 645464004253 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 645464004254 active site 645464004255 HMMPfam hit to PF02602; Uroporphyrinogen-III synthase HemD 645464004256 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 645464004257 thiamine phosphate binding site [chemical binding]; other site 645464004258 active site 645464004259 pyrophosphate binding site [ion binding]; other site 645464004260 HMMPfam hit to PF02581; Thiamine monophosphate synthase/TENI 645464004261 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 645464004262 substrate binding site [chemical binding]; other site 645464004263 dimer interface [polypeptide binding]; other site 645464004264 ATP binding site [chemical binding]; other site 645464004265 HMMPfam hit to PF01256; Carbohydrate kinase 645464004266 HMMPfam hit to PF08543; Phosphomethylpyrimidine kinase 645464004267 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 645464004268 minor groove reading motif; other site 645464004269 helix-hairpin-helix signature motif; other site 645464004270 active site 645464004271 HMMPfam hit to PF00730; HhH-GPD superfamily base excision DNA repair protein 645464004272 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 645464004273 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645464004274 Walker A motif; other site 645464004275 ATP binding site [chemical binding]; other site 645464004276 Walker B motif; other site 645464004277 arginine finger; other site 645464004278 HMMPfam hit to PF05673; Protein of unknown function (DUF815) 645464004279 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 645464004280 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 645464004281 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 645464004282 ATP binding site [chemical binding]; other site 645464004283 putative Mg++ binding site [ion binding]; other site 645464004284 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 645464004285 nucleotide binding region [chemical binding]; other site 645464004286 ATP-binding site [chemical binding]; other site 645464004287 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 645464004288 HMMPfam hit to PF03461; TRCF domain 645464004289 HMMPfam hit to PF00271; Helicase conserved C-terminal domain 645464004290 HMMPfam hit to PF00270; DEAD/DEAH box helicase 645464004291 HMMPfam hit to PF04851; Type III restriction enzyme, res subunit 645464004292 HMMPfam hit to PF02559; CarD-like/TRCF domain 645464004293 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 645464004294 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 645464004295 HMMPfam hit to PF04519; Protein of unknown function, DUF583 645464004296 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 645464004297 Peptidase family M23; Region: Peptidase_M23; pfam01551 645464004298 HMMPfam hit to PF01551; Peptidase family M23 645464004299 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 645464004300 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 645464004301 HMMPfam hit to PF08245; Mur ligase middle domain 645464004302 Lipopolysaccharide-assembly; Region: LptE; pfam04390 645464004303 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 645464004304 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 645464004305 HIGH motif; other site 645464004306 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 645464004307 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 645464004308 active site 645464004309 KMSKS motif; other site 645464004310 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 645464004311 tRNA binding surface [nucleotide binding]; other site 645464004312 anticodon binding site; other site 645464004313 HMMPfam hit to PF09334; tRNA synthetases class I (M) 645464004314 HMMPfam hit to PF00133; tRNA synthetases class I (I, L, M and V) 645464004315 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 645464004316 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 645464004317 Protein export membrane protein; Region: SecD_SecF; pfam02355 645464004318 HMMPfam hit to PF02355; Protein export membrane protein 645464004319 HMMPfam hit to PF07549; SecD/SecF GG Motif 645464004320 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 645464004321 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 645464004322 HMMPfam hit to PF02355; Protein export membrane protein 645464004323 HMMPfam hit to PF07549; SecD/SecF GG Motif 645464004324 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 645464004325 HMMPfam hit to PF02699; Preprotein translocase subunit 645464004326 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 645464004327 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 645464004328 active site 645464004329 catalytic triad [active] 645464004330 S-adenosylmethionine synthetase; Validated; Region: PRK05250 645464004331 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 645464004332 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 645464004333 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 645464004334 HMMPfam hit to PF02773; S-adenosylmethionine synthetase, C-terminal domain 645464004335 HMMPfam hit to PF02772; S-adenosylmethionine synthetase, central domain 645464004336 HMMPfam hit to PF00438; S-adenosylmethionine synthetase, N-terminal domain 645464004337 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 645464004338 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 645464004339 HMMPfam hit to PF00375; Sodium:dicarboxylate symporter family 645464004340 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 645464004341 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 645464004342 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 645464004343 HMMPfam hit to PF02729; Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain 645464004344 HMMPfam hit to PF00185; Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain 645464004345 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 645464004346 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 645464004347 active site 645464004348 Zn binding site [ion binding]; other site 645464004349 HMMPfam hit to PF08439; Oligopeptidase F 645464004350 HMMPfam hit to PF01432; Peptidase family M3 645464004351 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 645464004352 Part of AAA domain; Region: AAA_19; pfam13245 645464004353 Family description; Region: UvrD_C_2; pfam13538 645464004354 HMMPfam hit to PF00580; UvrD/REP helicase 645464004355 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK04099 645464004356 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 645464004357 active site 645464004358 HMMPfam hit to PF01509; TruB family pseudouridylate synthase (N terminal domain) 645464004359 RNA-binding global regulator CsrA [Signal transduction mechanisms]; Region: CsrA; COG1551 645464004360 HMMPfam hit to PF02599; Global regulator protein family 645464004361 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 645464004362 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 645464004363 HMMPfam hit to PF00288; GHMP kinases N terminal domain 645464004364 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 645464004365 SmpB-tmRNA interface; other site 645464004366 HMMPfam hit to PF01668; SmpB protein 645464004367 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 645464004368 catalytic residues [active] 645464004369 Uncharacterized conserved protein [Function unknown]; Region: COG2127 645464004370 HMMPfam hit to PF02617; ATP-dependent Clp protease adaptor protein ClpS 645464004371 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 645464004372 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 645464004373 Walker A motif; other site 645464004374 ATP binding site [chemical binding]; other site 645464004375 Walker B motif; other site 645464004376 arginine finger; other site 645464004377 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 645464004378 Walker A motif; other site 645464004379 ATP binding site [chemical binding]; other site 645464004380 Walker B motif; other site 645464004381 arginine finger; other site 645464004382 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 645464004383 HMMPfam hit to PF02861; Clp amino terminal domain 645464004384 HMMPfam hit to PF00004; ATPase family associated with various cellular activities (AAA) 645464004385 HMMPfam hit to PF07724; ATPase family associated with various cellular activities (AAA) 645464004386 HMMPfam hit to PF07728; ATPase family associated with various cellular activities (AAA) 645464004387 HMMPfam hit to PF10431; C-terminal, D2-small domain, of ClpB protein 645464004388 Leu/Phe-tRNA-protein transferase [Posttranslational modification, protein turnover, chaperones]; Region: Aat; COG2360 645464004389 HMMPfam hit to PF03588; Leucyl/phenylalanyl-tRNA protein transferase 645464004390 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 645464004391 PAS domain; Region: PAS_9; pfam13426 645464004392 putative active site [active] 645464004393 heme pocket [chemical binding]; other site 645464004394 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 645464004395 PAS domain; Region: PAS_9; pfam13426 645464004396 putative active site [active] 645464004397 heme pocket [chemical binding]; other site 645464004398 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 645464004399 dimer interface [polypeptide binding]; other site 645464004400 putative CheW interface [polypeptide binding]; other site 645464004401 HMMPfam hit to PF00015; Methyl-accepting chemotaxis protein (MCP) signaling domain 645464004402 HMMPfam hit to PF08447; PAS fold 645464004403 HMMPfam hit to PF08447; PAS fold 645464004404 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 645464004405 HMMPfam hit to PF01914; MarC family integral membrane protein 645464004406 methionine sulfoxide reductase B; Provisional; Region: PRK05508 645464004407 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 645464004408 HMMPfam hit to PF01641; SelR domain 645464004409 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 645464004410 dinuclear metal binding motif [ion binding]; other site 645464004411 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 645464004412 HMMPfam hit to PF04305; Protein of unknown function (DUF455) 645464004413 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 645464004414 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 645464004415 HMMPfam hit to PF01066; CDP-alcohol phosphatidyltransferase 645464004416 Phosphatidylserine decarboxylase [Lipid metabolism]; Region: Psd; COG0688 645464004417 HMMPfam hit to PF02666; Phosphatidylserine decarboxylase 645464004418 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 645464004419 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 645464004420 Walker A motif; other site 645464004421 ATP binding site [chemical binding]; other site 645464004422 Walker B motif; other site 645464004423 arginine finger; other site 645464004424 Peptidase family M41; Region: Peptidase_M41; pfam01434 645464004425 HMMPfam hit to PF01434; Peptidase family M41 645464004426 HMMPfam hit to PF00004; ATPase family associated with various cellular activities (AAA) 645464004427 HMMPfam hit to PF07728; ATPase family associated with various cellular activities (AAA) 645464004428 HMMPfam hit to PF06480; FtsH Extracellular 645464004429 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 645464004430 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 645464004431 S-adenosylmethionine binding site [chemical binding]; other site 645464004432 HMMPfam hit to PF06325; Ribosomal protein L11 methyltransferase (PrmA) 645464004433 HMMPfam hit to PF05175; Methyltransferase small domain 645464004434 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 645464004435 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 645464004436 active site 645464004437 phosphorylation site [posttranslational modification] 645464004438 intermolecular recognition site; other site 645464004439 dimerization interface [polypeptide binding]; other site 645464004440 HMMPfam hit to PF00072; Response regulator receiver domain 645464004441 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 645464004442 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 645464004443 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 645464004444 NAD(P) binding site [chemical binding]; other site 645464004445 homodimer interface [polypeptide binding]; other site 645464004446 substrate binding site [chemical binding]; other site 645464004447 active site 645464004448 HMMPfam hit to PF02719; Polysaccharide biosynthesis protein 645464004449 HMMPfam hit to PF04321; RmlD substrate binding domain 645464004450 HMMPfam hit to PF01073; 3-beta hydroxysteroid dehydrogenase/isomerase family 645464004451 HMMPfam hit to PF01370; NAD dependent epimerase/dehydratase family 645464004452 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 645464004453 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 645464004454 inhibitor-cofactor binding pocket; inhibition site 645464004455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464004456 catalytic residue [active] 645464004457 HMMPfam hit to PF01041; DegT/DnrJ/EryC1/StrS aminotransferase family 645464004458 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 645464004459 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 645464004460 putative trimer interface [polypeptide binding]; other site 645464004461 putative CoA binding site [chemical binding]; other site 645464004462 Bacterial sugar transferase; Region: Bac_transf; pfam02397 645464004463 HMMPfam hit to PF02397; Bacterial sugar transferase 645464004464 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 645464004465 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 645464004466 putative ADP-binding pocket [chemical binding]; other site 645464004467 HMMPfam hit to PF00534; Glycosyl transferases group 1 645464004468 Oligosaccharyl transferase STT3 subunit; Region: STT3; pfam02516 645464004469 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 645464004470 HMMPfam hit to PF02516; Oligosaccharyl transferase STT3 subunit 645464004471 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 645464004472 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 645464004473 putative ADP-binding pocket [chemical binding]; other site 645464004474 HMMPfam hit to PF00534; Glycosyl transferases group 1 645464004475 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 645464004476 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 645464004477 active site 645464004478 HMMPfam hit to PF00535; Glycosyl transferase family 2 645464004479 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 645464004480 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 645464004481 putative ADP-binding pocket [chemical binding]; other site 645464004482 HMMPfam hit to PF00534; Glycosyl transferases group 1 645464004483 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 645464004484 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 645464004485 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645464004486 Walker A/P-loop; other site 645464004487 ATP binding site [chemical binding]; other site 645464004488 Q-loop/lid; other site 645464004489 ABC transporter signature motif; other site 645464004490 Walker B; other site 645464004491 D-loop; other site 645464004492 H-loop/switch region; other site 645464004493 HMMPfam hit to PF00005; ABC transporter 645464004494 HMMPfam hit to PF00664; ABC transporter transmembrane region 645464004495 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 645464004496 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 645464004497 NAD binding site [chemical binding]; other site 645464004498 homodimer interface [polypeptide binding]; other site 645464004499 active site 645464004500 substrate binding site [chemical binding]; other site 645464004501 HMMPfam hit to PF04321; RmlD substrate binding domain 645464004502 HMMPfam hit to PF01073; 3-beta hydroxysteroid dehydrogenase/isomerase family 645464004503 HMMPfam hit to PF02719; Polysaccharide biosynthesis protein 645464004504 HMMPfam hit to PF01370; NAD dependent epimerase/dehydratase family 645464004505 HMMPfam hit to PF07993; Male sterility protein 645464004506 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 645464004507 active site 645464004508 catalytic site [active] 645464004509 substrate binding site [chemical binding]; other site 645464004510 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 645464004511 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 645464004512 HMMPfam hit to PF10108; Predicted 3'-5' exonuclease related to the exonuclease domain of PolB 645464004513 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 645464004514 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 645464004515 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 645464004516 putative active site [active] 645464004517 HMMPfam hit to PF01075; Glycosyltransferase family 9 (heptosyltransferase) 645464004518 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 645464004519 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 645464004520 putative acyl-acceptor binding pocket; other site 645464004521 HMMPfam hit to PF03279; Bacterial lipid A biosynthesis acyltransferase 645464004522 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 645464004523 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 645464004524 putative metal binding site; other site 645464004525 HMMPfam hit to PF00535; Glycosyl transferase family 2 645464004526 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 645464004527 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 645464004528 substrate binding site; other site 645464004529 tetramer interface; other site 645464004530 HMMPfam hit to PF00483; Nucleotidyl transferase 645464004531 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 645464004532 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 645464004533 NAD binding site [chemical binding]; other site 645464004534 substrate binding site [chemical binding]; other site 645464004535 homodimer interface [polypeptide binding]; other site 645464004536 active site 645464004537 HMMPfam hit to PF04321; RmlD substrate binding domain 645464004538 HMMPfam hit to PF01370; NAD dependent epimerase/dehydratase family 645464004539 HMMPfam hit to PF02719; Polysaccharide biosynthesis protein 645464004540 HMMPfam hit to PF01073; 3-beta hydroxysteroid dehydrogenase/isomerase family 645464004541 HMMPfam hit to PF07993; Male sterility protein 645464004542 WxcM-like, C-terminal; Region: FdtA; pfam05523 645464004543 HMMPfam hit to PF05523; WxcM-like, C-terminal 645464004544 WxcM-like, C-terminal; Region: FdtA; pfam05523 645464004545 HMMPfam hit to PF05523; WxcM-like, C-terminal 645464004546 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 645464004547 active site 645464004548 substrate binding site [chemical binding]; other site 645464004549 cosubstrate binding site; other site 645464004550 catalytic site [active] 645464004551 Carboxy-terminal domain of Formyltransferase and similar domains; Region: FMT_C_like; cl14785 645464004552 HMMPfam hit to PF00551; Formyl transferase 645464004553 Methyltransferase domain; Region: Methyltransf_23; pfam13489 645464004554 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 645464004555 S-adenosylmethionine binding site [chemical binding]; other site 645464004556 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 645464004557 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 645464004558 active site 645464004559 HMMPfam hit to PF00535; Glycosyl transferase family 2 645464004560 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 645464004561 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 645464004562 inhibitor-cofactor binding pocket; inhibition site 645464004563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464004564 catalytic residue [active] 645464004565 HMMPfam hit to PF01041; DegT/DnrJ/EryC1/StrS aminotransferase family 645464004566 Protein of unknown function (DUF2972); Region: DUF2972; pfam11186 645464004567 Beta-1,4-N-acetylgalactosaminyltransferase (CgtA); Region: CgtA; pfam06306 645464004568 HMMPfam hit to PF06306; Beta-1,4-N-acetylgalactosaminyltransferase (CgtA) 645464004569 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 645464004570 HMMPfam hit to PF01755; Glycosyltransferase family 25 (LPS biosynthesis protein) 645464004571 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 645464004572 HMMPfam hit to PF05704; Capsular polysaccharide synthesis protein 645464004573 Bacterial protein of unknown function (HtrL_YibB); Region: HtrL_YibB; cl08171 645464004574 HMMPfam hit to PF09612; Bacterial protein of unknown function (HtrL_YibB) 645464004575 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 645464004576 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 645464004577 active site 645464004578 HMMPfam hit to PF00535; Glycosyl transferase family 2 645464004579 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 645464004580 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 645464004581 putative active site [active] 645464004582 HMMPfam hit to PF01075; Glycosyltransferase family 9 (heptosyltransferase) 645464004583 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 645464004584 HMMPfam hit to PF03062; MBOAT family 645464004585 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 645464004586 dimer interface [polypeptide binding]; other site 645464004587 active site 645464004588 HMMPfam hit to PF01380; SIS domain 645464004589 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 645464004590 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 645464004591 putative ribose interaction site [chemical binding]; other site 645464004592 putative ADP binding site [chemical binding]; other site 645464004593 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 645464004594 active site 645464004595 nucleotide binding site [chemical binding]; other site 645464004596 HIGH motif; other site 645464004597 KMSKS motif; other site 645464004598 HMMPfam hit to PF01467; Cytidylyltransferase 645464004599 HMMPfam hit to PF00294; pfkB family carbohydrate kinase 645464004600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 645464004601 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 645464004602 NAD(P) binding site [chemical binding]; other site 645464004603 active site 645464004604 HMMPfam hit to PF01073; 3-beta hydroxysteroid dehydrogenase/isomerase family 645464004605 HMMPfam hit to PF01370; NAD dependent epimerase/dehydratase family 645464004606 HMMPfam hit to PF07993; Male sterility protein 645464004607 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 645464004608 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 645464004609 active site 645464004610 motif I; other site 645464004611 motif II; other site 645464004612 HMMPfam hit to PF08645; Polynucleotide kinase 3 phosphatase 645464004613 Cytochrome c553 [Energy production and conversion]; Region: COG2863 645464004614 HMMPfam hit to PF00034; Cytochrome c 645464004615 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 645464004616 HMMPfam hit to PF03597; Cytochrome oxidase maturation protein cbb3-type 645464004617 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 645464004618 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 645464004619 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 645464004620 metal-binding site [ion binding] 645464004621 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 645464004622 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 645464004623 motif II; other site 645464004624 HMMPfam hit to PF00702; haloacid dehalogenase-like hydrolase 645464004625 HMMPfam hit to PF00122; E1-E2 ATPase 645464004626 potential frameshift: common BLAST hit: gi|218562768|ref|YP_002344547.1| transcription termination factor Rho 645464004627 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 645464004628 HMMPfam hit to PF07498; Rho termination factor, N-terminal domain 645464004629 transcription termination factor Rho; Provisional; Region: rho; PRK09376 645464004630 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 645464004631 RNA binding site [nucleotide binding]; other site 645464004632 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 645464004633 multimer interface [polypeptide binding]; other site 645464004634 Walker A motif; other site 645464004635 ATP binding site [chemical binding]; other site 645464004636 Walker B motif; other site 645464004637 HMMPfam hit to PF07497; Rho termination factor, RNA-binding domain 645464004638 HMMPfam hit to PF00006; ATP synthase alpha/beta family, nucleotide-binding domain 645464004639 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 645464004640 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 645464004641 Walker A motif; other site 645464004642 ATP binding site [chemical binding]; other site 645464004643 DNA polymerase III subunit delta'; Validated; Region: PRK08485 645464004644 Walker B motif; other site 645464004645 HMMPfam hit to PF00004; ATPase family associated with various cellular activities (AAA) 645464004646 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 645464004647 HMMPfam hit to PF09933; Predicted small integral membrane protein (DUF2165) 645464004648 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 645464004649 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 645464004650 metal-binding site [ion binding] 645464004651 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 645464004652 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 645464004653 HMMPfam hit to PF00702; haloacid dehalogenase-like hydrolase 645464004654 HMMPfam hit to PF00122; E1-E2 ATPase 645464004655 HMMPfam hit to PF00403; Heavy-metal-associated domain 645464004656 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 645464004657 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 645464004658 HMMPfam hit to PF01545; Cation efflux family 645464004659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 645464004660 Uncharacterized conserved protein [Function unknown]; Region: COG3610 645464004661 Uncharacterized conserved protein [Function unknown]; Region: COG2966 645464004662 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 645464004663 HMMPfam hit to PF06738; Protein of unknown function (DUF1212) 645464004664 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 645464004665 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 645464004666 NAD binding site [chemical binding]; other site 645464004667 dimer interface [polypeptide binding]; other site 645464004668 tetramer (dimer of dimers) interface [polypeptide binding]; other site 645464004669 substrate binding site [chemical binding]; other site 645464004670 HMMPfam hit to PF00056; lactate/malate dehydrogenase, NAD binding domain 645464004671 HMMPfam hit to PF02866; lactate/malate dehydrogenase, alpha/beta C-terminal domain 645464004672 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 645464004673 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 645464004674 HMMPfam hit to PF09335; SNARE associated Golgi protein 645464004675 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 645464004676 TraC-like protein; Region: TraC; cl06725 645464004677 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 645464004678 active site 645464004679 HMMPfam hit to PF00160; Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD 645464004680 hypothetical protein; Provisional; Region: PRK12378 645464004681 HMMPfam hit to PF01709; Domain of unknown function DUF28 645464004682 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 645464004683 HMMPfam hit to PF00893; Small Multidrug Resistance protein 645464004684 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 645464004685 HMMPfam hit to PF00893; Small Multidrug Resistance protein 645464004686 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 645464004687 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 645464004688 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 645464004689 active site 645464004690 HIGH motif; other site 645464004691 KMSK motif region; other site 645464004692 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 645464004693 tRNA binding surface [nucleotide binding]; other site 645464004694 anticodon binding site; other site 645464004695 HMMPfam hit to PF05746; DALR anticodon binding domain 645464004696 HMMPfam hit to PF09334; tRNA synthetases class I (M) 645464004697 HMMPfam hit to PF01406; tRNA synthetases class I (C) catalytic domain 645464004698 HMMPfam hit to PF00750; tRNA synthetases class I (R) 645464004699 HMMPfam hit to PF03485; Arginyl tRNA synthetase N terminal domain 645464004700 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 645464004701 HMMPfam hit to PF02416; mttA/Hcf106 family 645464004702 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 645464004703 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 645464004704 catalytic site [active] 645464004705 G-X2-G-X-G-K; other site 645464004706 HMMPfam hit to PF00625; Guanylate kinase 645464004707 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 645464004708 HMMPfam hit to PF01311; Bacterial export proteins, family 1 645464004709 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645464004710 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645464004711 Walker A/P-loop; other site 645464004712 ATP binding site [chemical binding]; other site 645464004713 Q-loop/lid; other site 645464004714 ABC transporter signature motif; other site 645464004715 Walker B; other site 645464004716 D-loop; other site 645464004717 H-loop/switch region; other site 645464004718 HMMPfam hit to PF00005; ABC transporter 645464004719 elongation factor Ts; Provisional; Region: tsf; PRK09377 645464004720 UBA/TS-N domain; Region: UBA; pfam00627 645464004721 Elongation factor TS; Region: EF_TS; pfam00889 645464004722 Elongation factor TS; Region: EF_TS; pfam00889 645464004723 HMMPfam hit to PF00889; Elongation factor TS 645464004724 HMMPfam hit to PF00627; UBA/TS-N domain 645464004725 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 645464004726 rRNA interaction site [nucleotide binding]; other site 645464004727 S8 interaction site; other site 645464004728 putative laminin-1 binding site; other site 645464004729 HMMPfam hit to PF00318; Ribosomal protein S2 645464004730 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 645464004731 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 645464004732 S-adenosylmethionine binding site [chemical binding]; other site 645464004733 HMMPfam hit to PF02353; Cyclopropane-fatty-acyl-phospholipid synthase 645464004734 HMMPfam hit to PF08241; Methyltransferase domain 645464004735 HMMPfam hit to PF08242; Methyltransferase domain 645464004736 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 645464004737 Cytochrome c; Region: Cytochrom_C; pfam00034 645464004738 HMMPfam hit to PF00034; Cytochrome c 645464004739 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 645464004740 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 645464004741 intrachain domain interface; other site 645464004742 interchain domain interface [polypeptide binding]; other site 645464004743 heme bH binding site [chemical binding]; other site 645464004744 Qi binding site; other site 645464004745 heme bL binding site [chemical binding]; other site 645464004746 Qo binding site; other site 645464004747 interchain domain interface [polypeptide binding]; other site 645464004748 intrachain domain interface; other site 645464004749 Qi binding site; other site 645464004750 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 645464004751 Qo binding site; other site 645464004752 HMMPfam hit to PF00032; Cytochrome b(C-terminal)/b6/petD 645464004753 HMMPfam hit to PF00033; Cytochrome b(N-terminal)/b6/petB 645464004754 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 645464004755 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 645464004756 [2Fe-2S] cluster binding site [ion binding]; other site 645464004757 HMMPfam hit to PF00355; Rieske [2Fe-2S] domain 645464004758 arsenical pump membrane protein; Provisional; Region: PRK15445 645464004759 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 645464004760 transmembrane helices; other site 645464004761 HMMPfam hit to PF02040; Arsenical pump membrane protein 645464004762 HMMPfam hit to PF03600; Citrate transporter 645464004763 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 645464004764 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 645464004765 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 645464004766 HMMPfam hit to PF01134; Glucose inhibited division protein A 645464004767 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 645464004768 PAS domain; Region: PAS_9; pfam13426 645464004769 putative active site [active] 645464004770 heme pocket [chemical binding]; other site 645464004771 HMMPfam hit to PF08447; PAS fold 645464004772 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 645464004773 dimer interface [polypeptide binding]; other site 645464004774 putative CheW interface [polypeptide binding]; other site 645464004775 HMMPfam hit to PF00015; Methyl-accepting chemotaxis protein (MCP) signaling domain 645464004776 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 645464004777 PAS domain; Region: PAS_9; pfam13426 645464004778 putative active site [active] 645464004779 heme pocket [chemical binding]; other site 645464004780 HMMPfam hit to PF08447; PAS fold 645464004781 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 645464004782 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 645464004783 HMMPfam hit to PF00375; Sodium:dicarboxylate symporter family 645464004784 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 645464004785 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 645464004786 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 645464004787 HMMPfam hit to PF01384; Phosphate transporter family 645464004788 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 645464004789 dihydroorotase; Provisional; Region: PRK08417 645464004790 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 645464004791 active site 645464004792 HMMPfam hit to PF01979; Amidohydrolase family 645464004793 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 645464004794 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 645464004795 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 645464004796 HMMPfam hit to PF07479; NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus 645464004797 HMMPfam hit to PF01210; NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus 645464004798 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 645464004799 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 645464004800 GatB domain; Region: GatB_Yqey; smart00845 645464004801 HMMPfam hit to PF02637; GatB domain 645464004802 HMMPfam hit to PF01162; PET112 family, C terminal region 645464004803 HMMPfam hit to PF02934; PET112 family, N terminal region 645464004804 S-ribosylhomocysteinase; Provisional; Region: PRK02260 645464004805 HMMPfam hit to PF02664; S-Ribosylhomocysteinase (LuxS) 645464004806 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 645464004807 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 645464004808 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 645464004809 HMMPfam hit to PF03171; 2OG-Fe(II) oxygenase superfamily 645464004810 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 645464004811 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 645464004812 HMMPfam hit to PF03180; NLPA lipoprotein 645464004813 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 645464004814 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 645464004815 THF binding site; other site 645464004816 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 645464004817 substrate binding site [chemical binding]; other site 645464004818 THF binding site; other site 645464004819 zinc-binding site [ion binding]; other site 645464004820 HMMPfam hit to PF08267; Cobalamin-independent synthase, N-terminal domain 645464004821 HMMPfam hit to PF01717; Cobalamin-independent synthase, Catalytic domain 645464004822 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 645464004823 FAD binding site [chemical binding]; other site 645464004824 HMMPfam hit to PF02219; Methylenetetrahydrofolate reductase 645464004825 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 645464004826 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 645464004827 HMMPfam hit to PF00119; ATP synthase A chain 645464004828 DNA repair protein RadA; Provisional; Region: PRK11823 645464004829 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 645464004830 Walker A motif; other site 645464004831 ATP binding site [chemical binding]; other site 645464004832 Walker B motif; other site 645464004833 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 645464004834 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 645464004835 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 645464004836 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 645464004837 P loop; other site 645464004838 GTP binding site [chemical binding]; other site 645464004839 HMMPfam hit to PF00448; SRP54-type protein, GTPase domain 645464004840 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 645464004841 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 645464004842 catalytic residues [active] 645464004843 HMMPfam hit to PF08534; Redoxin 645464004844 HMMPfam hit to PF00578; AhpC/TSA family 645464004845 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 645464004846 HMMPfam hit to PF01812; 5-formyltetrahydrofolate cyclo-ligase family 645464004847 phosphodiesterase; Provisional; Region: PRK12704 645464004848 KH domain; Region: KH_1; pfam00013 645464004849 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 645464004850 Zn2+ binding site [ion binding]; other site 645464004851 Mg2+ binding site [ion binding]; other site 645464004852 HMMPfam hit to PF00013; KH domain 645464004853 HMMPfam hit to PF08668; HDOD domain 645464004854 HMMPfam hit to PF01966; HD domain 645464004855 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 645464004856 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 645464004857 HMMPfam hit to PF09335; SNARE associated Golgi protein 645464004858 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 645464004859 HMMPfam hit to PF03772; Competence protein 645464004860 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 645464004861 HMMPfam hit to PF03631; Ribonuclease BN-like family 645464004862 FAD binding domain; Region: FAD_binding_4; pfam01565 645464004863 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 645464004864 HMMPfam hit to PF02913; FAD linked oxidases, C-terminal domain 645464004865 HMMPfam hit to PF01565; FAD binding domain 645464004866 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 645464004867 Peptidase family M23; Region: Peptidase_M23; pfam01551 645464004868 HMMPfam hit to PF01551; Peptidase family M23 645464004869 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 645464004870 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 645464004871 HMMPfam hit to PF02578; Multi-copper polyphenol oxidoreductase laccase 645464004872 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 645464004873 Lumazine binding domain; Region: Lum_binding; pfam00677 645464004874 Lumazine binding domain; Region: Lum_binding; pfam00677 645464004875 HMMPfam hit to PF00677; Lumazine binding domain 645464004876 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 645464004877 oligomerisation interface [polypeptide binding]; other site 645464004878 mobile loop; other site 645464004879 roof hairpin; other site 645464004880 HMMPfam hit to PF00166; Chaperonin 10 Kd subunit 645464004881 chaperonin GroL; Region: GroEL; TIGR02348 645464004882 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 645464004883 ring oligomerisation interface [polypeptide binding]; other site 645464004884 ATP/Mg binding site [chemical binding]; other site 645464004885 stacking interactions; other site 645464004886 hinge regions; other site 645464004887 HMMPfam hit to PF00118; TCP-1/cpn60 chaperonin family 645464004888 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645464004889 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 645464004890 dimer interface [polypeptide binding]; other site 645464004891 phosphorylation site [posttranslational modification] 645464004892 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 645464004893 ATP binding site [chemical binding]; other site 645464004894 Mg2+ binding site [ion binding]; other site 645464004895 G-X-G motif; other site 645464004896 HMMPfam hit to PF02518; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 645464004897 HMMPfam hit to PF00512; His Kinase A (phosphoacceptor) domain 645464004898 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645464004899 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 645464004900 active site 645464004901 phosphorylation site [posttranslational modification] 645464004902 intermolecular recognition site; other site 645464004903 dimerization interface [polypeptide binding]; other site 645464004904 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 645464004905 DNA binding site [nucleotide binding] 645464004906 HMMPfam hit to PF00486; Transcriptional regulatory protein, C terminal 645464004907 HMMPfam hit to PF00072; Response regulator receiver domain 645464004908 Hemerythrin; Region: Hemerythrin; cd12107 645464004909 Fe binding site [ion binding]; other site 645464004910 HMMPfam hit to PF01814; Hemerythrin HHE cation binding domain 645464004911 HMMPfam hit to PF01814; Hemerythrin HHE cation binding domain 645464004912 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 645464004913 HMMPfam hit to PF01402; Ribbon-helix-helix protein, copG family 645464004914 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645464004915 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 645464004916 dimer interface [polypeptide binding]; other site 645464004917 phosphorylation site [posttranslational modification] 645464004918 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 645464004919 ATP binding site [chemical binding]; other site 645464004920 Mg2+ binding site [ion binding]; other site 645464004921 G-X-G motif; other site 645464004922 HMMPfam hit to PF02518; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 645464004923 HMMPfam hit to PF00512; His Kinase A (phosphoacceptor) domain 645464004924 HMMPfam hit to PF00672; HAMP domain 645464004925 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645464004926 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 645464004927 active site 645464004928 phosphorylation site [posttranslational modification] 645464004929 intermolecular recognition site; other site 645464004930 dimerization interface [polypeptide binding]; other site 645464004931 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 645464004932 DNA binding site [nucleotide binding] 645464004933 HMMPfam hit to PF00486; Transcriptional regulatory protein, C terminal 645464004934 HMMPfam hit to PF00072; Response regulator receiver domain 645464004935 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 645464004936 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 645464004937 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 645464004938 protein binding site [polypeptide binding]; other site 645464004939 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 645464004940 protein binding site [polypeptide binding]; other site 645464004941 HMMPfam hit to PF00595; PDZ domain (Also known as DHR or GLGF) 645464004942 HMMPfam hit to PF00089; Trypsin 645464004943 chaperone protein DnaJ; Provisional; Region: PRK14299 645464004944 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 645464004945 HSP70 interaction site [polypeptide binding]; other site 645464004946 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 645464004947 substrate binding site [polypeptide binding]; other site 645464004948 dimer interface [polypeptide binding]; other site 645464004949 HMMPfam hit to PF00226; DnaJ domain 645464004950 HMMPfam hit to PF01556; DnaJ C terminal region 645464004951 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 645464004952 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 645464004953 DNA binding residues [nucleotide binding] 645464004954 putative dimer interface [polypeptide binding]; other site 645464004955 HMMPfam hit to PF00376; MerR family regulatory protein 645464004956 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 645464004957 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 645464004958 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 645464004959 TrkA-N domain; Region: TrkA_N; pfam02254 645464004960 HMMPfam hit to PF00999; Sodium/hydrogen exchanger family 645464004961 HMMPfam hit to PF02254; TrkA-N domain 645464004962 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 645464004963 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 645464004964 motif II; other site 645464004965 HMMPfam hit to PF00702; haloacid dehalogenase-like hydrolase 645464004966 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 645464004967 HMMPfam hit to PF02092; Glycyl-tRNA synthetase beta subunit 645464004968 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 645464004969 Peptidase family M23; Region: Peptidase_M23; pfam01551 645464004970 HMMPfam hit to PF01551; Peptidase family M23 645464004971 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 645464004972 HMMPfam hit to PF02636; Uncharacterized ACR, COG1565 645464004973 exopolyphosphatase; Region: exo_poly_only; TIGR03706 645464004974 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 645464004975 HMMPfam hit to PF02541; Ppx/GppA phosphatase family 645464004976 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 645464004977 active site 645464004978 hydrophilic channel; other site 645464004979 dimerization interface [polypeptide binding]; other site 645464004980 catalytic residues [active] 645464004981 active site lid [active] 645464004982 HMMPfam hit to PF03740; Pyridoxal phosphate biosynthesis protein PdxJ 645464004983 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 645464004984 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 645464004985 HMMPfam hit to PF04166; Pyridoxal phosphate biosynthetic protein PdxA 645464004986 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 645464004987 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 645464004988 putative substrate translocation pore; other site 645464004989 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464004990 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 645464004991 substrate binding site [chemical binding]; other site 645464004992 active site 645464004993 HMMPfam hit to PF01208; Uroporphyrinogen decarboxylase (URO-D) 645464004994 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 645464004995 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 645464004996 FeS/SAM binding site; other site 645464004997 HMMPfam hit to PF04055; Radical SAM superfamily 645464004998 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 645464004999 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 645464005000 GIY-YIG motif/motif A; other site 645464005001 active site 645464005002 catalytic site [active] 645464005003 putative DNA binding site [nucleotide binding]; other site 645464005004 metal binding site [ion binding]; metal-binding site 645464005005 UvrB/uvrC motif; Region: UVR; pfam02151 645464005006 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 645464005007 HMMPfam hit to PF08459; UvrC Helix-hairpin-helix N-terminal 645464005008 HMMPfam hit to PF02151; UvrB/uvrC motif 645464005009 HMMPfam hit to PF01541; GIY-YIG catalytic domain 645464005010 GMP synthase; Reviewed; Region: guaA; PRK00074 645464005011 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 645464005012 AMP/PPi binding site [chemical binding]; other site 645464005013 candidate oxyanion hole; other site 645464005014 catalytic triad [active] 645464005015 potential glutamine specificity residues [chemical binding]; other site 645464005016 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 645464005017 ATP Binding subdomain [chemical binding]; other site 645464005018 Ligand Binding sites [chemical binding]; other site 645464005019 Dimerization subdomain; other site 645464005020 HMMPfam hit to PF00117; Glutamine amidotransferase class-I 645464005021 HMMPfam hit to PF00958; GMP synthase C terminal domain 645464005022 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 645464005023 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 645464005024 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 645464005025 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 645464005026 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 645464005027 HMMPfam hit to PF02844; Phosphoribosylglycinamide synthetase, N domain 645464005028 HMMPfam hit to PF01071; Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain 645464005029 HMMPfam hit to PF02655; ATP-grasp domain 645464005030 HMMPfam hit to PF02843; Phosphoribosylglycinamide synthetase, C domain 645464005031 Predicted membrane protein/domain [Function unknown]; Region: COG1714 645464005032 HMMPfam hit to PF06271; RDD family 645464005033 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 645464005034 OstA-like protein; Region: OstA; cl00844 645464005035 Organic solvent tolerance protein; Region: OstA_C; pfam04453 645464005036 HMMPfam hit to PF04453; Organic solvent tolerance protein 645464005037 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 645464005038 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 645464005039 oligomer interface [polypeptide binding]; other site 645464005040 RNA binding site [nucleotide binding]; other site 645464005041 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 645464005042 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 645464005043 RNase E interface [polypeptide binding]; other site 645464005044 trimer interface [polypeptide binding]; other site 645464005045 active site 645464005046 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 645464005047 putative nucleic acid binding region [nucleotide binding]; other site 645464005048 G-X-X-G motif; other site 645464005049 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 645464005050 RNA binding site [nucleotide binding]; other site 645464005051 HMMPfam hit to PF01138; 3' exoribonuclease family, domain 1 645464005052 HMMPfam hit to PF03725; 3' exoribonuclease family, domain 2 645464005053 HMMPfam hit to PF03726; Polyribonucleotide nucleotidyltransferase, RNA binding domain 645464005054 HMMPfam hit to PF01138; 3' exoribonuclease family, domain 1 645464005055 HMMPfam hit to PF03725; 3' exoribonuclease family, domain 2 645464005056 HMMPfam hit to PF00013; KH domain 645464005057 HMMPfam hit to PF00575; S1 RNA binding domain 645464005058 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 645464005059 putative active site [active] 645464005060 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 645464005061 drug efflux system protein MdtG; Provisional; Region: PRK09874 645464005062 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 645464005063 putative substrate translocation pore; other site 645464005064 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464005065 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 645464005066 Low molecular weight phosphatase family; Region: LMWPc; cd00115 645464005067 active site 645464005068 HMMPfam hit to PF01451; Low molecular weight phosphotyrosine protein phosphatase 645464005069 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 645464005070 HMMPfam hit to PF05538; Campylobacter major outer membrane protein 645464005071 chaperone protein DnaJ; Provisional; Region: PRK10767 645464005072 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 645464005073 HSP70 interaction site [polypeptide binding]; other site 645464005074 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 645464005075 substrate binding site [polypeptide binding]; other site 645464005076 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 645464005077 Zn binding sites [ion binding]; other site 645464005078 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 645464005079 dimer interface [polypeptide binding]; other site 645464005080 HMMPfam hit to PF01556; DnaJ C terminal region 645464005081 HMMPfam hit to PF00684; DnaJ central domain (4 repeats) 645464005082 HMMPfam hit to PF00226; DnaJ domain 645464005083 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645464005084 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 645464005085 active site 645464005086 phosphorylation site [posttranslational modification] 645464005087 intermolecular recognition site; other site 645464005088 dimerization interface [polypeptide binding]; other site 645464005089 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 645464005090 DNA binding site [nucleotide binding] 645464005091 HMMPfam hit to PF00072; Response regulator receiver domain 645464005092 HMMPfam hit to PF00486; Transcriptional regulatory protein, C terminal 645464005093 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645464005094 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 645464005095 dimer interface [polypeptide binding]; other site 645464005096 phosphorylation site [posttranslational modification] 645464005097 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 645464005098 ATP binding site [chemical binding]; other site 645464005099 Mg2+ binding site [ion binding]; other site 645464005100 G-X-G motif; other site 645464005101 HMMPfam hit to PF00672; HAMP domain 645464005102 HMMPfam hit to PF00512; His Kinase A (phosphoacceptor) domain 645464005103 HMMPfam hit to PF02518; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 645464005104 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 645464005105 RecR protein; Region: RecR; pfam02132 645464005106 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 645464005107 putative active site [active] 645464005108 putative metal-binding site [ion binding]; other site 645464005109 tetramer interface [polypeptide binding]; other site 645464005110 HMMPfam hit to PF02132; RecR protein 645464005111 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 645464005112 putative substrate-binding site; other site 645464005113 nickel binding site [ion binding]; other site 645464005114 HMMPfam hit to PF01750; Hydrogenase maturation protease 645464005115 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 645464005116 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 645464005117 HMMPfam hit to PF01292; Prokaryotic cytochrome b561 645464005118 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 645464005119 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 645464005120 HMMPfam hit to PF00374; Nickel-dependent hydrogenase 645464005121 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 645464005122 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 645464005123 HMMPfam hit to PF01058; NADH ubiquinone oxidoreductase, 20 Kd subunit 645464005124 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 645464005125 Uncharacterized conserved protein [Function unknown]; Region: COG4121 645464005126 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 645464005127 HMMPfam hit to PF01266; FAD dependent oxidoreductase 645464005128 HMMPfam hit to PF05430; Protein of unknown function (DUF752) 645464005129 AMIN domain; Region: AMIN; pfam11741 645464005130 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 645464005131 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 645464005132 active site 645464005133 metal binding site [ion binding]; metal-binding site 645464005134 HMMPfam hit to PF01520; N-acetylmuramoyl-L-alanine amidase 645464005135 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 645464005136 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 645464005137 FMN binding site [chemical binding]; other site 645464005138 substrate binding site [chemical binding]; other site 645464005139 putative catalytic residue [active] 645464005140 HMMPfam hit to PF03060; 2-nitropropane dioxygenase 645464005141 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 645464005142 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 645464005143 active site 645464005144 HIGH motif; other site 645464005145 dimer interface [polypeptide binding]; other site 645464005146 KMSKS motif; other site 645464005147 HMMPfam hit to PF01479; S4 domain 645464005148 HMMPfam hit to PF00579; tRNA synthetases class I (W and Y) 645464005149 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 645464005150 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 645464005151 Zn2+ binding site [ion binding]; other site 645464005152 Mg2+ binding site [ion binding]; other site 645464005153 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 645464005154 synthetase active site [active] 645464005155 NTP binding site [chemical binding]; other site 645464005156 metal binding site [ion binding]; metal-binding site 645464005157 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 645464005158 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 645464005159 HMMPfam hit to PF01842; ACT domain 645464005160 HMMPfam hit to PF02824; TGS domain 645464005161 HMMPfam hit to PF04607; Region found in RelA / SpoT proteins 645464005162 HMMPfam hit to PF01966; HD domain 645464005163 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 645464005164 HMMPfam hit to PF01192; RNA polymerase Rpb6 645464005165 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 645464005166 putative nucleotide binding site [chemical binding]; other site 645464005167 uridine monophosphate binding site [chemical binding]; other site 645464005168 homohexameric interface [polypeptide binding]; other site 645464005169 HMMPfam hit to PF00696; Amino acid kinase family 645464005170 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 645464005171 Peptidase family M23; Region: Peptidase_M23; pfam01551 645464005172 HMMPfam hit to PF01551; Peptidase family M23 645464005173 FtsX-like permease family; Region: FtsX; pfam02687 645464005174 HMMPfam hit to PF02687; Predicted permease 645464005175 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645464005176 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645464005177 Walker A/P-loop; other site 645464005178 ATP binding site [chemical binding]; other site 645464005179 Q-loop/lid; other site 645464005180 ABC transporter signature motif; other site 645464005181 Walker B; other site 645464005182 D-loop; other site 645464005183 H-loop/switch region; other site 645464005184 HMMPfam hit to PF00005; ABC transporter 645464005185 tRNA (guanine-N(7)-)-methyltransferase; Provisional; Region: PRK14121 645464005186 HMMPfam hit to PF02390; Putative methyltransferase 645464005187 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 645464005188 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 645464005189 Interdomain contacts; other site 645464005190 Cytokine receptor motif; other site 645464005191 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 645464005192 Interdomain contacts; other site 645464005193 Cytokine receptor motif; other site 645464005194 HMMPfam hit to PF00041; Fibronectin type III domain 645464005195 HMMPfam hit to PF00041; Fibronectin type III domain 645464005196 HMMPfam hit to PF00041; Fibronectin type III domain 645464005197 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 645464005198 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 645464005199 RNA binding surface [nucleotide binding]; other site 645464005200 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 645464005201 active site 645464005202 HMMPfam hit to PF00849; RNA pseudouridylate synthase 645464005203 HMMPfam hit to PF01479; S4 domain 645464005204 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 645464005205 HMMPfam hit to PF01098; Cell cycle protein 645464005206 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 645464005207 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 645464005208 HMMPfam hit to PF02386; Cation transport protein 645464005209 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 645464005210 TrkA-N domain; Region: TrkA_N; pfam02254 645464005211 HMMPfam hit to PF02254; TrkA-N domain 645464005212 HMMPfam hit to PF02080; TrkA-C domain 645464005213 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 645464005214 HMMPfam hit to PF02621; Uncharacterized ACR, COG1427 645464005215 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645464005216 active site 645464005217 Malic enzyme, N-terminal domain; Region: malic; pfam00390 645464005218 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 645464005219 putative NAD(P) binding site [chemical binding]; other site 645464005220 HMMPfam hit to PF03949; Malic enzyme, NAD binding domain 645464005221 HMMPfam hit to PF00390; Malic enzyme, N-terminal domain 645464005222 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 645464005223 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 645464005224 active site 645464005225 HIGH motif; other site 645464005226 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 645464005227 active site 645464005228 KMSKS motif; other site 645464005229 HMMPfam hit to PF00749; tRNA synthetases class I (E and Q), catalytic domain 645464005230 SurA N-terminal domain; Region: SurA_N; pfam09312 645464005231 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 645464005232 HMMPfam hit to PF09312; SurA N-terminal domain 645464005233 biotin carboxylase; Validated; Region: PRK08462 645464005234 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 645464005235 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 645464005236 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 645464005237 HMMPfam hit to PF02785; Biotin carboxylase C-terminal domain 645464005238 HMMPfam hit to PF02786; Carbamoyl-phosphate synthase L chain, ATP binding domain 645464005239 HMMPfam hit to PF08443; RimK-like ATP-grasp domain 645464005240 HMMPfam hit to PF02222; ATP-grasp domain 645464005241 HMMPfam hit to PF00289; Carbamoyl-phosphate synthase L chain, N-terminal domain 645464005242 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 645464005243 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 645464005244 carboxyltransferase (CT) interaction site; other site 645464005245 biotinylation site [posttranslational modification]; other site 645464005246 HMMPfam hit to PF00364; Biotin-requiring enzyme 645464005247 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 645464005248 trimer interface [polypeptide binding]; other site 645464005249 active site 645464005250 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 645464005251 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 645464005252 NAD(P) binding site [chemical binding]; other site 645464005253 homodimer interface [polypeptide binding]; other site 645464005254 substrate binding site [chemical binding]; other site 645464005255 active site 645464005256 HMMPfam hit to PF02719; Polysaccharide biosynthesis protein 645464005257 HMMPfam hit to PF01370; NAD dependent epimerase/dehydratase family 645464005258 HMMPfam hit to PF01073; 3-beta hydroxysteroid dehydrogenase/isomerase family 645464005259 HMMPfam hit to PF07993; Male sterility protein 645464005260 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 645464005261 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 645464005262 inhibitor-cofactor binding pocket; inhibition site 645464005263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464005264 catalytic residue [active] 645464005265 HMMPfam hit to PF01041; DegT/DnrJ/EryC1/StrS aminotransferase family 645464005266 HMMPfam hit to PF01212; Beta-eliminating lyase 645464005267 Uncharacterized protein conserved in bacteria with an aminopeptidase-like domain [General function prediction only]; Region: COG4310 645464005268 M28 Zn-Peptidases; Region: M28_like_3; cd05644 645464005269 active site 645464005270 metal binding site [ion binding]; metal-binding site 645464005271 HMMPfam hit to PF09940; Uncharacterized bacterial protein with aminopeptidase-like domain (DUF2172) 645464005272 Aminoglycoside N3'-acetyltransferase [Defense mechanisms]; Region: COG2746 645464005273 HMMPfam hit to PF02522; Aminoglycoside 3-N-acetyltransferase 645464005274 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 645464005275 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 645464005276 acyl-activating enzyme (AAE) consensus motif; other site 645464005277 AMP binding site [chemical binding]; other site 645464005278 HMMPfam hit to PF00501; AMP-binding enzyme 645464005279 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 645464005280 active site 645464005281 cosubstrate binding site; other site 645464005282 substrate binding site [chemical binding]; other site 645464005283 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 645464005284 catalytic site [active] 645464005285 HMMPfam hit to PF00551; Formyl transferase 645464005286 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 645464005287 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 645464005288 ligand binding site; other site 645464005289 tetramer interface; other site 645464005290 HMMPfam hit to PF02348; Cytidylyltransferase 645464005291 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 645464005292 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 645464005293 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645464005294 Coenzyme A binding pocket [chemical binding]; other site 645464005295 HMMPfam hit to PF00583; Acetyltransferase (GNAT) family 645464005296 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 645464005297 HMMPfam hit to PF00583; Acetyltransferase (GNAT) family 645464005298 imidazole glycerol phosphate synthase subunit HisF; Provisional; Region: PRK01033 645464005299 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 645464005300 substrate binding site [chemical binding]; other site 645464005301 glutamase interaction surface [polypeptide binding]; other site 645464005302 HMMPfam hit to PF00977; Histidine biosynthesis protein 645464005303 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13152 645464005304 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 645464005305 putative active site [active] 645464005306 oxyanion strand; other site 645464005307 catalytic triad [active] 645464005308 HMMPfam hit to PF00117; Glutamine amidotransferase class-I 645464005309 HMMPfam hit to PF01174; SNO glutamine amidotransferase family 645464005310 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 645464005311 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 645464005312 Ligand Binding Site [chemical binding]; other site 645464005313 pseudaminic acid synthase; Region: PseI; TIGR03586 645464005314 NeuB family; Region: NeuB; pfam03102 645464005315 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 645464005316 NeuB binding interface [polypeptide binding]; other site 645464005317 putative substrate binding site [chemical binding]; other site 645464005318 HMMPfam hit to PF03102; NeuB family 645464005319 HMMPfam hit to PF08666; SAF domain 645464005320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 645464005321 HMMPfam hit to PF01973; Protein of unknown function DUF115 645464005322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 645464005323 HMMPfam hit to PF01973; Protein of unknown function DUF115 645464005324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 645464005325 HMMPfam hit to PF01973; Protein of unknown function DUF115 645464005326 potential frameshift: common BLAST hit: gi|157415575|ref|YP_001482831.1| flagellin 645464005327 flagellin; Provisional; Region: PRK13589 645464005328 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 645464005329 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 645464005330 HMMPfam hit to PF00700; Bacterial flagellin C-terminus 645464005331 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 645464005332 HMMPfam hit to PF00669; Bacterial flagellin N-terminus 645464005333 flagellin; Reviewed; Region: PRK08411 645464005334 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 645464005335 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 645464005336 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 645464005337 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 645464005338 HMMPfam hit to PF00700; Bacterial flagellin C-terminus 645464005339 HMMPfam hit to PF07196; Flagellin hook IN motif 645464005340 HMMPfam hit to PF07196; Flagellin hook IN motif 645464005341 HMMPfam hit to PF00669; Bacterial flagellin N-terminus 645464005342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 645464005343 HMMPfam hit to PF01973; Protein of unknown function DUF115 645464005344 potential frameshift: common BLAST hit: gi|218562951|ref|YP_002344730.1| motility accessory factor 645464005345 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 645464005346 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 645464005347 HMMPfam hit to PF07963; Prokaryotic N-terminal methylation motif 645464005348 UGMP family protein; Validated; Region: PRK09604 645464005349 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 645464005350 HMMPfam hit to PF00814; Glycoprotease family 645464005351 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 645464005352 active site 645464005353 Zn binding site [ion binding]; other site 645464005354 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]; Region: Dxr; COG0743 645464005355 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 645464005356 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 645464005357 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 645464005358 HMMPfam hit to PF08436; 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal 645464005359 HMMPfam hit to PF02670; 1-deoxy-D-xylulose 5-phosphate reductoisomerase 645464005360 potential frameshift: common BLAST hit: gi|157415583|ref|YP_001482839.1| phosphatidate cytidylyltransferase 645464005361 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 645464005362 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 645464005363 HMMPfam hit to PF01148; Cytidylyltransferase family 645464005364 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 645464005365 Domain of unknown function (DUF814); Region: DUF814; pfam05670 645464005366 HMMPfam hit to PF05670; Domain of unknown function (DUF814) 645464005367 HMMPfam hit to PF05833; Fibronectin-binding protein A N-terminus (FbpA) 645464005368 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 645464005369 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 645464005370 GTP binding site; other site 645464005371 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 645464005372 dimerization interface [polypeptide binding]; other site 645464005373 substrate binding site [chemical binding]; other site 645464005374 active site 645464005375 calcium binding site [ion binding]; other site 645464005376 HMMPfam hit to PF02253; Phospholipase A1 645464005377 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 645464005378 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 645464005379 ABC-ATPase subunit interface; other site 645464005380 dimer interface [polypeptide binding]; other site 645464005381 putative PBP binding regions; other site 645464005382 HMMPfam hit to PF01032; FecCD transport family 645464005383 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 645464005384 ABC-ATPase subunit interface; other site 645464005385 dimer interface [polypeptide binding]; other site 645464005386 putative PBP binding regions; other site 645464005387 HMMPfam hit to PF01032; FecCD transport family 645464005388 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 645464005389 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 645464005390 Walker A/P-loop; other site 645464005391 ATP binding site [chemical binding]; other site 645464005392 Q-loop/lid; other site 645464005393 ABC transporter signature motif; other site 645464005394 Walker B; other site 645464005395 D-loop; other site 645464005396 H-loop/switch region; other site 645464005397 HMMPfam hit to PF00005; ABC transporter 645464005398 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 645464005399 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 645464005400 putative ligand binding residues [chemical binding]; other site 645464005401 HMMPfam hit to PF01497; Periplasmic binding protein 645464005402 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 645464005403 HMMPfam hit to PF05016; Plasmid stabilisation system protein 645464005404 Formate-dependent nitrite reductase, periplasmic cytochrome c552 subunit [Inorganic ion transport and metabolism]; Region: NrfA; COG3303 645464005405 HMMPfam hit to PF02335; Cytochrome c552 645464005406 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 645464005407 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 645464005408 HMMPfam hit to PF03264; NapC/NirT cytochrome c family, N-terminal region 645464005409 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 645464005410 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 645464005411 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 645464005412 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 645464005413 putative domain interface [polypeptide binding]; other site 645464005414 putative active site [active] 645464005415 catalytic site [active] 645464005416 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 645464005417 putative domain interface [polypeptide binding]; other site 645464005418 putative active site [active] 645464005419 catalytic site [active] 645464005420 HMMPfam hit to PF02503; Polyphosphate kinase 645464005421 Autotransporter beta-domain; Region: Autotransporter; smart00869 645464005422 HMMPfam hit to PF03797; Autotransporter beta-domain 645464005423 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 645464005424 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 645464005425 Walker A motif; other site 645464005426 ATP binding site [chemical binding]; other site 645464005427 Walker B motif; other site 645464005428 arginine finger; other site 645464005429 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 645464005430 HMMPfam hit to PF05496; Holliday junction DNA helicase ruvB N-terminus 645464005431 HMMPfam hit to PF00004; ATPase family associated with various cellular activities (AAA) 645464005432 HMMPfam hit to PF07728; ATPase family associated with various cellular activities (AAA) 645464005433 HMMPfam hit to PF05491; Holliday junction DNA helicase ruvB C-terminus 645464005434 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 645464005435 Domain of unknown function DUF20; Region: UPF0118; pfam01594 645464005436 HMMPfam hit to PF01594; Domain of unknown function DUF20 645464005437 fumarate hydratase; Reviewed; Region: fumC; PRK00485 645464005438 Class II fumarases; Region: Fumarase_classII; cd01362 645464005439 active site 645464005440 tetramer interface [polypeptide binding]; other site 645464005441 HMMPfam hit to PF10415; Fumarase C C-terminus 645464005442 HMMPfam hit to PF00206; Lyase 645464005443 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 645464005444 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 645464005445 glutaminase active site [active] 645464005446 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 645464005447 dimer interface [polypeptide binding]; other site 645464005448 active site 645464005449 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 645464005450 dimer interface [polypeptide binding]; other site 645464005451 active site 645464005452 HMMPfam hit to PF01380; SIS domain 645464005453 HMMPfam hit to PF01380; SIS domain 645464005454 HMMPfam hit to PF00310; Glutamine amidotransferases class-II 645464005455 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 645464005456 hypothetical protein; Provisional; Region: PRK08444 645464005457 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 645464005458 FeS/SAM binding site; other site 645464005459 HMMPfam hit to PF04055; Radical SAM superfamily 645464005460 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 645464005461 Sulfate transporter family; Region: Sulfate_transp; pfam00916 645464005462 HMMPfam hit to PF00860; Permease family 645464005463 HMMPfam hit to PF00916; Sulfate transporter family 645464005464 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 645464005465 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645464005466 active site 645464005467 HMMPfam hit to PF00156; Phosphoribosyl transferase domain 645464005468 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 645464005469 HMMPfam hit to PF04333; VacJ like lipoprotein 645464005470 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 645464005471 HMMPfam hit to PF05494; Toluene tolerance, Ttg2 645464005472 potential frameshift: common BLAST hit: gi|218562982|ref|YP_002344761.1| integral membrane protein 645464005473 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 645464005474 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 645464005475 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 645464005476 active site 645464005477 dimerization interface [polypeptide binding]; other site 645464005478 HMMPfam hit to PF01725; Ham1 family 645464005479 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 645464005480 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645464005481 putative substrate translocation pore; other site 645464005482 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464005483 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 645464005484 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 645464005485 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464005486 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464005487 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 645464005488 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 645464005489 HMMPfam hit to PF03841; L-seryl-tRNA selenium transferase 645464005490 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 645464005491 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 645464005492 G1 box; other site 645464005493 putative GEF interaction site [polypeptide binding]; other site 645464005494 GTP/Mg2+ binding site [chemical binding]; other site 645464005495 Switch I region; other site 645464005496 G2 box; other site 645464005497 G3 box; other site 645464005498 Switch II region; other site 645464005499 G4 box; other site 645464005500 G5 box; other site 645464005501 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 645464005502 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 645464005503 HMMPfam hit to PF00009; Elongation factor Tu GTP binding domain 645464005504 HMMPfam hit to PF09107; Elongation factor SelB, winged helix 645464005505 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 645464005506 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 645464005507 flavodoxin FldA; Validated; Region: PRK09267 645464005508 HMMPfam hit to PF00258; Flavodoxin 645464005509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4378 645464005510 HMMPfam hit to PF10087; Uncharacterized protein conserved in bacteria (DUF2325) 645464005511 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 645464005512 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 645464005513 tetramer interface [polypeptide binding]; other site 645464005514 heme binding pocket [chemical binding]; other site 645464005515 NADPH binding site [chemical binding]; other site 645464005516 HMMPfam hit to PF00199; Catalase 645464005517 HMMPfam hit to PF06628; Catalase-related immune-responsive 645464005518 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 645464005519 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 645464005520 HMMPfam hit to PF00023; Ankyrin repeat 645464005521 HMMPfam hit to PF00023; Ankyrin repeat 645464005522 HMMPfam hit to PF00023; Ankyrin repeat 645464005523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 645464005524 YheO-like PAS domain; Region: PAS_6; pfam08348 645464005525 HTH domain; Region: HTH_22; pfam13309 645464005526 HMMPfam hit to PF08348; YheO-like PAS domain 645464005527 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 645464005528 homotrimer interaction site [polypeptide binding]; other site 645464005529 putative active site [active] 645464005530 HMMPfam hit to PF01042; Endoribonuclease L-PSP 645464005531 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 645464005532 HMMPfam hit to PF03606; C4-dicarboxylate anaerobic carrier 645464005533 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 645464005534 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 645464005535 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645464005536 catalytic residue [active] 645464005537 HMMPfam hit to PF01053; Cys/Met metabolism PLP-dependent enzyme 645464005538 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 645464005539 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 645464005540 tetramer interface [polypeptide binding]; other site 645464005541 active site 645464005542 HMMPfam hit to PF00206; Lyase 645464005543 HMMPfam hit to PF10397; Adenylosuccinate lyase C-terminus 645464005544 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 645464005545 HMMPfam hit to PF03972; MmgE/PrpD family 645464005546 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 645464005547 HMMPfam hit to PF04023; FeoA domain 645464005548 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 645464005549 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 645464005550 G1 box; other site 645464005551 GTP/Mg2+ binding site [chemical binding]; other site 645464005552 Switch I region; other site 645464005553 G2 box; other site 645464005554 G3 box; other site 645464005555 Switch II region; other site 645464005556 G4 box; other site 645464005557 G5 box; other site 645464005558 Nucleoside recognition; Region: Gate; pfam07670 645464005559 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 645464005560 Nucleoside recognition; Region: Gate; pfam07670 645464005561 HMMPfam hit to PF01926; GTPase of unknown function 645464005562 HMMPfam hit to PF02421; Ferrous iron transport protein B 645464005563 HMMPfam hit to PF07670; Nucleoside recognition 645464005564 HMMPfam hit to PF07664; Ferrous iron transport protein B C terminus 645464005565 HMMPfam hit to PF07670; Nucleoside recognition 645464005566 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 645464005567 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 645464005568 HMMPfam hit to PF01058; NADH ubiquinone oxidoreductase, 20 Kd subunit 645464005569 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 645464005570 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 645464005571 NAD binding site [chemical binding]; other site 645464005572 homotetramer interface [polypeptide binding]; other site 645464005573 homodimer interface [polypeptide binding]; other site 645464005574 substrate binding site [chemical binding]; other site 645464005575 active site 645464005576 HMMPfam hit to PF00106; short chain dehydrogenase 645464005577 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 645464005578 triosephosphate isomerase; Provisional; Region: PRK14565 645464005579 substrate binding site [chemical binding]; other site 645464005580 dimer interface [polypeptide binding]; other site 645464005581 catalytic triad [active] 645464005582 HMMPfam hit to PF00121; Triosephosphate isomerase 645464005583 Phosphoglycerate kinase; Region: PGK; pfam00162 645464005584 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 645464005585 substrate binding site [chemical binding]; other site 645464005586 hinge regions; other site 645464005587 ADP binding site [chemical binding]; other site 645464005588 catalytic site [active] 645464005589 HMMPfam hit to PF00162; Phosphoglycerate kinase 645464005590 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 645464005591 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 645464005592 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 645464005593 HMMPfam hit to PF02800; Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain 645464005594 HMMPfam hit to PF00044; Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain 645464005595 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 645464005596 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 645464005597 active site 645464005598 (T/H)XGH motif; other site 645464005599 HMMPfam hit to PF01467; Cytidylyltransferase 645464005600 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 645464005601 HMMPfam hit to PF02410; Domain of unknown function DUF143 645464005602 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 645464005603 HMMPfam hit to PF06476; Protein of unknown function (DUF1090) 645464005604 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 645464005605 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 645464005606 active site 645464005607 substrate binding site [chemical binding]; other site 645464005608 metal binding site [ion binding]; metal-binding site 645464005609 HMMPfam hit to PF00408; Phosphoglucomutase/phosphomannomutase, C-terminal domain 645464005610 HMMPfam hit to PF02880; Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain III 645464005611 HMMPfam hit to PF02879; Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II 645464005612 HMMPfam hit to PF02878; Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I 645464005613 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 645464005614 HMMPfam hit to PF03748; Flagellar basal body-associated protein FliL 645464005615 Phosphopantetheinyl transferase (holo-ACP synthase) [Lipid metabolism]; Region: AcpS; COG0736 645464005616 HMMPfam hit to PF01648; 4'-phosphopantetheinyl transferase superfamily 645464005617 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 645464005618 Cytochrome P450; Region: p450; cl12078 645464005619 HMMPfam hit to PF00067; Cytochrome P450 645464005620 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 645464005621 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 645464005622 HMMPfam hit to PF05159; Capsule polysaccharide biosynthesis protein 645464005623 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 645464005624 HMMPfam hit to PF05159; Capsule polysaccharide biosynthesis protein 645464005625 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 645464005626 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 645464005627 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 645464005628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 645464005629 NAD(P) binding site [chemical binding]; other site 645464005630 active site 645464005631 HMMPfam hit to PF01370; NAD dependent epimerase/dehydratase family 645464005632 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 645464005633 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 645464005634 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 645464005635 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 645464005636 HMMPfam hit to PF03720; UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain 645464005637 HMMPfam hit to PF00984; UDP-glucose/GDP-mannose dehydrogenase family, central domain 645464005638 HMMPfam hit to PF03721; UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain 645464005639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 645464005640 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 645464005641 NAD(P) binding site [chemical binding]; other site 645464005642 active site 645464005643 HMMPfam hit to PF01073; 3-beta hydroxysteroid dehydrogenase/isomerase family 645464005644 HMMPfam hit to PF01370; NAD dependent epimerase/dehydratase family 645464005645 HMMPfam hit to PF07993; Male sterility protein 645464005646 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 645464005647 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 645464005648 inhibitor-cofactor binding pocket; inhibition site 645464005649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645464005650 catalytic residue [active] 645464005651 HMMPfam hit to PF01041; DegT/DnrJ/EryC1/StrS aminotransferase family 645464005652 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 645464005653 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 645464005654 substrate binding site; other site 645464005655 HMMPfam hit to PF00483; Nucleotidyl transferase 645464005656 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 645464005657 active site 645464005658 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 645464005659 HMMPfam hit to PF01501; Glycosyl transferase family 8 645464005660 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 645464005661 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 645464005662 active site 645464005663 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 645464005664 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 645464005665 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 645464005666 active site 645464005667 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 645464005668 HMMPfam hit to PF01501; Glycosyl transferase family 8 645464005669 HMMPfam hit to PF00535; Glycosyl transferase family 2 645464005670 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 645464005671 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 645464005672 UDP-galactopyranose mutase; Region: GLF; pfam03275 645464005673 HMMPfam hit to PF03275; UDP-galactopyranose mutase 645464005674 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 645464005675 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 645464005676 NAD binding site [chemical binding]; other site 645464005677 homodimer interface [polypeptide binding]; other site 645464005678 active site 645464005679 substrate binding site [chemical binding]; other site 645464005680 HMMPfam hit to PF04321; RmlD substrate binding domain 645464005681 HMMPfam hit to PF01370; NAD dependent epimerase/dehydratase family 645464005682 HMMPfam hit to PF01073; 3-beta hydroxysteroid dehydrogenase/isomerase family 645464005683 HMMPfam hit to PF02719; Polysaccharide biosynthesis protein 645464005684 HMMPfam hit to PF07993; Male sterility protein 645464005685 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 645464005686 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 645464005687 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 645464005688 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 645464005689 HMMPfam hit to PF03720; UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain 645464005690 HMMPfam hit to PF00984; UDP-glucose/GDP-mannose dehydrogenase family, central domain 645464005691 HMMPfam hit to PF03721; UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain 645464005692 HMMPfam hit to PF02558; Ketopantoate reductase PanE/ApbA 645464005693 HMMPfam hit to PF00070; Pyridine nucleotide-disulphide oxidoreductase 645464005694 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 645464005695 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 645464005696 NAD binding site [chemical binding]; other site 645464005697 putative substrate binding site 2 [chemical binding]; other site 645464005698 putative substrate binding site 1 [chemical binding]; other site 645464005699 active site 645464005700 HMMPfam hit to PF01073; 3-beta hydroxysteroid dehydrogenase/isomerase family 645464005701 HMMPfam hit to PF01370; NAD dependent epimerase/dehydratase family 645464005702 HMMPfam hit to PF07993; Male sterility protein 645464005703 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 645464005704 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 645464005705 active site 645464005706 HMMPfam hit to PF00535; Glycosyl transferase family 2 645464005707 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 645464005708 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 645464005709 active site 645464005710 HMMPfam hit to PF00535; Glycosyl transferase family 2 645464005711 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 645464005712 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 645464005713 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 645464005714 HMMPfam hit to PF10111; Predicted glycosyltransferase involved in capsule biosynthesis 645464005715 KpsF/GutQ family protein; Region: kpsF; TIGR00393 645464005716 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 645464005717 putative active site [active] 645464005718 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 645464005719 HMMPfam hit to PF00571; CBS domain pair 645464005720 HMMPfam hit to PF01380; SIS domain 645464005721 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 645464005722 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 645464005723 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 645464005724 HMMPfam hit to PF10531; SLBB domain 645464005725 HMMPfam hit to PF02563; Polysaccharide biosynthesis/export protein 645464005726 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 645464005727 HMMPfam hit to PF02706; Chain length determinant protein 645464005728 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 645464005729 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 645464005730 Walker A/P-loop; other site 645464005731 ATP binding site [chemical binding]; other site 645464005732 Q-loop/lid; other site 645464005733 ABC transporter signature motif; other site 645464005734 Walker B; other site 645464005735 D-loop; other site 645464005736 H-loop/switch region; other site 645464005737 HMMPfam hit to PF00005; ABC transporter 645464005738 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 645464005739 ABC-2 type transporter; Region: ABC2_membrane; cl17235 645464005740 HMMPfam hit to PF01061; ABC-2 type transporter 645464005741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 645464005742 dUTPase; Region: dUTPase_2; pfam08761 645464005743 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 645464005744 active site 645464005745 homodimer interface [polypeptide binding]; other site 645464005746 metal binding site [ion binding]; metal-binding site 645464005747 HMMPfam hit to PF08761; dUTPase 645464005748 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 645464005749 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 645464005750 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 645464005751 Ligand Binding Site [chemical binding]; other site 645464005752 HMMPfam hit to PF01171; PP-loop family 645464005753 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 645464005754 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 645464005755 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 645464005756 FeS/SAM binding site; other site 645464005757 HMMPfam hit to PF04055; Radical SAM superfamily 645464005758 HMMPfam hit to PF00919; Uncharacterized protein family UPF0004 645464005759 peptide chain release factor 2; Validated; Region: prfB; PRK00578 645464005760 This domain is found in peptide chain release factors; Region: PCRF; smart00937 645464005761 RF-1 domain; Region: RF-1; pfam00472 645464005762 HMMPfam hit to PF03462; PCRF domain 645464005763 HMMPfam hit to PF00472; RF-1 domain 645464005764 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 645464005765 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 645464005766 Permutation of conserved domain; other site 645464005767 active site 645464005768 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 645464005769 HMMPfam hit to PF01142; tRNA pseudouridine synthase D (TruD) 645464005770 thiamine monophosphate kinase; Provisional; Region: PRK05731 645464005771 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 645464005772 ATP binding site [chemical binding]; other site 645464005773 dimerization interface [polypeptide binding]; other site 645464005774 HMMPfam hit to PF02769; AIR synthase related protein, C-terminal domain 645464005775 HMMPfam hit to PF00586; AIR synthase related protein, N-terminal domain 645464005776 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 645464005777 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 645464005778 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 645464005779 HMMPfam hit to PF03602; Conserved hypothetical protein 95 645464005780 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 645464005781 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 645464005782 HMMPfam hit to PF02119; Flagellar P-ring protein 645464005783 Rod binding protein; Region: Rod-binding; cl01626 645464005784 FlgN protein; Region: FlgN; pfam05130 645464005785 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 645464005786 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 645464005787 HMMPfam hit to PF00460; Flagella basal body rod protein 645464005788 HMMPfam hit to PF06429; Domain of unknown function (DUF1078) 645464005789 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 645464005790 HMMPfam hit to PF09674; Protein of unknown function (DUF2400) 645464005791 hypothetical protein; Provisional; Region: PRK10621 645464005792 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 645464005793 HMMPfam hit to PF01925; Domain of unknown function DUF81 645464005794 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 645464005795 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 645464005796 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 645464005797 HMMPfam hit to PF00482; Bacterial type II secretion system protein F domain 645464005798 HMMPfam hit to PF00482; Bacterial type II secretion system protein F domain 645464005799 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 645464005800 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 645464005801 Walker A motif; other site 645464005802 ATP binding site [chemical binding]; other site 645464005803 Walker B motif; other site 645464005804 HMMPfam hit to PF00437; Type II/IV secretion system protein 645464005805 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 645464005806 AAA domain; Region: AAA_22; pfam13401 645464005807 Walker A motif; other site 645464005808 ATP binding site [chemical binding]; other site 645464005809 Walker B motif; other site 645464005810 arginine finger; other site 645464005811 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 645464005812 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 645464005813 HMMPfam hit to PF00263; Bacterial type II and III secretion system protein 645464005814 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 645464005815 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 645464005816 dimer interface [polypeptide binding]; other site 645464005817 PYR/PP interface [polypeptide binding]; other site 645464005818 TPP binding site [chemical binding]; other site 645464005819 substrate binding site [chemical binding]; other site 645464005820 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 645464005821 Domain of unknown function; Region: EKR; pfam10371 645464005822 4Fe-4S binding domain; Region: Fer4_6; pfam12837 645464005823 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 645464005824 TPP-binding site [chemical binding]; other site 645464005825 dimer interface [polypeptide binding]; other site 645464005826 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464005827 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464005828 HMMPfam hit to PF10371; Domain of unknown function 645464005829 HMMPfam hit to PF01558; Pyruvate ferredoxin/flavodoxin oxidoreductase 645464005830 HMMPfam hit to PF01855; Pyruvate flavodoxin/ferredoxin oxidoreductase, thiamine diP-binding domain 645464005831 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 645464005832 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 645464005833 motif II; other site 645464005834 HMMPfam hit to PF00702; haloacid dehalogenase-like hydrolase 645464005835 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 645464005836 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 645464005837 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 645464005838 ligand binding site [chemical binding]; other site 645464005839 HMMPfam hit to PF00691; OmpA family 645464005840 HMMPfam hit to PF05736; OprF membrane domain; HMMPfam hit to PF01389, e-value: 0.00097; OmpA-like transmembrane domain 645464005841 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 645464005842 HMMPfam hit to PF00380; Ribosomal protein S9/S16 645464005843 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 645464005844 23S rRNA interface [nucleotide binding]; other site 645464005845 L3 interface [polypeptide binding]; other site 645464005846 HMMPfam hit to PF00572; Ribosomal protein L13 645464005847 Part of AAA domain; Region: AAA_19; pfam13245 645464005848 putative recombination protein RecB; Provisional; Region: PRK13909 645464005849 Family description; Region: UvrD_C_2; pfam13538 645464005850 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 645464005851 HMMPfam hit to PF00580; UvrD/REP helicase 645464005852 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 645464005853 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 645464005854 FixH; Region: FixH; pfam05751 645464005855 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 645464005856 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 645464005857 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 645464005858 Cytochrome c; Region: Cytochrom_C; cl11414 645464005859 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 645464005860 HMMPfam hit to PF00034; Cytochrome c 645464005861 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 645464005862 HMMPfam hit to PF09672; Cytochrome c oxidase cbb3-type (Cbb3_Q_epsi) 645464005863 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 645464005864 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 645464005865 HMMPfam hit to PF02433; Cytochrome C oxidase, mono-heme subunit/FixO 645464005866 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 645464005867 Low-spin heme binding site [chemical binding]; other site 645464005868 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 645464005869 D-pathway; other site 645464005870 Putative water exit pathway; other site 645464005871 Binuclear center (active site) [active] 645464005872 K-pathway; other site 645464005873 Putative proton exit pathway; other site 645464005874 HMMPfam hit to PF00115; Cytochrome C and Quinol oxidase polypeptide I 645464005875 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645464005876 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 645464005877 active site 645464005878 phosphorylation site [posttranslational modification] 645464005879 intermolecular recognition site; other site 645464005880 dimerization interface [polypeptide binding]; other site 645464005881 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 645464005882 DNA binding site [nucleotide binding] 645464005883 HMMPfam hit to PF00486; Transcriptional regulatory protein, C terminal 645464005884 HMMPfam hit to PF00072; Response regulator receiver domain 645464005885 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 645464005886 PAS domain; Region: PAS_9; pfam13426 645464005887 putative active site [active] 645464005888 heme pocket [chemical binding]; other site 645464005889 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645464005890 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 645464005891 ATP binding site [chemical binding]; other site 645464005892 Mg2+ binding site [ion binding]; other site 645464005893 G-X-G motif; other site 645464005894 HMMPfam hit to PF02518; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 645464005895 HMMPfam hit to PF08447; PAS fold 645464005896 Uncharacterized conserved protein [Function unknown]; Region: COG2836 645464005897 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 645464005898 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 645464005899 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 645464005900 catalytic site [active] 645464005901 subunit interface [polypeptide binding]; other site 645464005902 HMMPfam hit to PF00117; Glutamine amidotransferase class-I 645464005903 HMMPfam hit to PF00988; Carbamoyl-phosphate synthase small chain, CPSase domain 645464005904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 645464005905 HMMPfam hit to PF04368; Protein of unknown function (DUF507) 645464005906 Uncharacterized conserved protein [Function unknown]; Region: COG3334 645464005907 Flagellar FliJ protein; Region: FliJ; pfam02050 645464005908 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 645464005909 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 645464005910 GDP-binding site [chemical binding]; other site 645464005911 ACT binding site; other site 645464005912 IMP binding site; other site 645464005913 HMMPfam hit to PF00709; Adenylosuccinate synthetase 645464005914 putative inner membrane protein; Provisional; Region: PRK11099 645464005915 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 645464005916 HMMPfam hit to PF04143; YeeE/YedE family (DUF395) 645464005917 HMMPfam hit to PF04143; YeeE/YedE family (DUF395) 645464005918 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 645464005919 CPxP motif; other site 645464005920 HMMPfam hit to PF01206; SirA-like protein 645464005921 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 645464005922 Na binding site [ion binding]; other site 645464005923 HMMPfam hit to PF00474; Sodium:solute symporter family 645464005924 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 645464005925 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 645464005926 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 645464005927 Glutamate binding site [chemical binding]; other site 645464005928 NAD binding site [chemical binding]; other site 645464005929 catalytic residues [active] 645464005930 HMMPfam hit to PF00171; Aldehyde dehydrogenase family 645464005931 HMMPfam hit to PF01619; Proline dehydrogenase 645464005932 Selenophosphate synthase [Amino acid transport and metabolism]; Region: SelD; COG0709 645464005933 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 645464005934 dimerization interface [polypeptide binding]; other site 645464005935 putative ATP binding site [chemical binding]; other site 645464005936 HMMPfam hit to PF02769; AIR synthase related protein, C-terminal domain 645464005937 HMMPfam hit to PF00586; AIR synthase related protein, N-terminal domain 645464005938 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 645464005939 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 645464005940 CPxP motif; other site 645464005941 HMMPfam hit to PF01206; SirA-like protein 645464005942 Cache domain; Region: Cache_1; pfam02743 645464005943 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 645464005944 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 645464005945 dimer interface [polypeptide binding]; other site 645464005946 putative CheW interface [polypeptide binding]; other site 645464005947 HMMPfam hit to PF00015; Methyl-accepting chemotaxis protein (MCP) signaling domain 645464005948 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 645464005949 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 645464005950 HMMPfam hit to PF02634; FdhD/NarQ family 645464005951 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 645464005952 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 645464005953 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 645464005954 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464005955 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 645464005956 molybdopterin cofactor binding site; other site 645464005957 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 645464005958 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 645464005959 molybdopterin cofactor binding site; other site 645464005960 HMMPfam hit to PF01568; Molydopterin dinucleotide binding domain 645464005961 HMMPfam hit to PF00384; Molybdopterin oxidoreductase 645464005962 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 645464005963 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 645464005964 HMMPfam hit to PF04879; Molybdopterin oxidoreductase Fe4S4 domain 645464005965 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 645464005966 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 645464005967 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 645464005968 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 645464005969 dimer interface [polypeptide binding]; other site 645464005970 active site 645464005971 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 645464005972 catalytic residues [active] 645464005973 substrate binding site [chemical binding]; other site 645464005974 HMMPfam hit to PF00278; Pyridoxal-dependent decarboxylase, C-terminal sheet domain 645464005975 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 645464005976 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 645464005977 Multicopper oxidase; Region: Cu-oxidase; pfam00394 645464005978 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 645464005979 HMMPfam hit to PF07732; Multicopper oxidase 645464005980 HMMPfam hit to PF00394; Multicopper oxidase 645464005981 HMMPfam hit to PF07731; Multicopper oxidase 645464005982 ThiS family; Region: ThiS; pfam02597 645464005983 charged pocket; other site 645464005984 hydrophobic patch; other site 645464005985 HMMPfam hit to PF02597; ThiS family 645464005986 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 645464005987 MoaE homodimer interface [polypeptide binding]; other site 645464005988 MoaD interaction [polypeptide binding]; other site 645464005989 active site residues [active] 645464005990 HMMPfam hit to PF02391; MoaE protein 645464005991 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 645464005992 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 645464005993 dimer interface [polypeptide binding]; other site 645464005994 putative functional site; other site 645464005995 putative MPT binding site; other site 645464005996 HMMPfam hit to PF03453; MoeA N-terminal region (domain I and II) 645464005997 HMMPfam hit to PF00994; Probable molybdopterin binding domain 645464005998 HMMPfam hit to PF03454; MoeA C-terminal region (domain IV) 645464005999 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 645464006000 HMMPfam hit to PF09827; CRISPR associated protein Cas2 645464006001 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 645464006002 HMMPfam hit to PF01867; Protein of unknown function DUF48 645464006003 potential frameshift: common BLAST hit: gi|218563121|ref|YP_002344900.1| CRISPR-associated protein 645464006004 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 645464006005 CRISPR-associated protein Cas9/Csn1, subtype II/NMEMI; Region: cas_Csn1; TIGR01865 645464006006 CRISPR/Cas system-associated protein Cas9; Region: Csn1; cd09643 645464006007 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 645464006008 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 645464006009 HMMPfam hit to PF03606; C4-dicarboxylate anaerobic carrier 645464006010 HMMPfam hit to PF06808; DctM-like transporters 645464006011 HMMPfam hit to PF03553; Na+/H+ antiporter family 645464006012 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 645464006013 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 645464006014 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 645464006015 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 645464006016 dimerization interface [polypeptide binding]; other site 645464006017 putative ATP binding site [chemical binding]; other site 645464006018 HMMPfam hit to PF02769; AIR synthase related protein, C-terminal domain 645464006019 HMMPfam hit to PF00586; AIR synthase related protein, N-terminal domain 645464006020 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 645464006021 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 645464006022 CoA-binding site [chemical binding]; other site 645464006023 ATP-binding [chemical binding]; other site 645464006024 HMMPfam hit to PF01121; Dephospho-CoA kinase 645464006025 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 645464006026 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 645464006027 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 645464006028 HMMPfam hit to PF01678; Diaminopimelate epimerase 645464006029 HMMPfam hit to PF01678; Diaminopimelate epimerase 645464006030 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 645464006031 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 645464006032 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 645464006033 AAA domain; Region: AAA_14; pfam13173 645464006034 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 645464006035 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 645464006036 dimerization interface [polypeptide binding]; other site 645464006037 DPS ferroxidase diiron center [ion binding]; other site 645464006038 ion pore; other site 645464006039 HMMPfam hit to PF00210; Ferritin-like domain 645464006040 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 645464006041 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 645464006042 active site 645464006043 dimer interface [polypeptide binding]; other site 645464006044 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 645464006045 dimer interface [polypeptide binding]; other site 645464006046 active site 645464006047 HMMPfam hit to PF00342; Phosphoglucose isomerase 645464006048 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 645464006049 active site 645464006050 tetramer interface; other site 645464006051 HMMPfam hit to PF00483; Nucleotidyl transferase 645464006052 acetyl-CoA synthetase; Provisional; Region: PRK00174 645464006053 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 645464006054 active site 645464006055 CoA binding site [chemical binding]; other site 645464006056 acyl-activating enzyme (AAE) consensus motif; other site 645464006057 AMP binding site [chemical binding]; other site 645464006058 acetate binding site [chemical binding]; other site 645464006059 HMMPfam hit to PF00501; AMP-binding enzyme 645464006060 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 645464006061 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645464006062 Walker A/P-loop; other site 645464006063 ATP binding site [chemical binding]; other site 645464006064 Q-loop/lid; other site 645464006065 ABC transporter signature motif; other site 645464006066 Walker B; other site 645464006067 D-loop; other site 645464006068 H-loop/switch region; other site 645464006069 HMMPfam hit to PF00005; ABC transporter 645464006070 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 645464006071 dimer interface [polypeptide binding]; other site 645464006072 conserved gate region; other site 645464006073 putative PBP binding loops; other site 645464006074 ABC-ATPase subunit interface; other site 645464006075 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464006076 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 645464006077 PBP superfamily domain; Region: PBP_like_2; pfam12849 645464006078 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 645464006079 putative active site [active] 645464006080 HMMPfam hit to PF03746; LamB/YcsF family 645464006081 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 645464006082 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 645464006083 HMMPfam hit to PF02682; Allophanate hydrolase subunit 1 645464006084 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 645464006085 HMMPfam hit to PF02626; Allophanate hydrolase subunit 2 645464006086 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 645464006087 HMMPfam hit to PF00892; Integral membrane protein DUF6 645464006088 HMMPfam hit to PF00892; Integral membrane protein DUF6 645464006089 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 645464006090 HMMPfam hit to PF02525; Flavodoxin-like fold 645464006091 Predicted transcriptional regulators [Transcription]; Region: COG1733 645464006092 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 645464006093 HMMPfam hit to PF01638; HxlR-like helix-turn-helix 645464006094 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 645464006095 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 645464006096 HMMPfam hit to PF08212; Lipocalin-like domain 645464006097 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 645464006098 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 645464006099 putative NAD(P) binding site [chemical binding]; other site 645464006100 putative substrate binding site [chemical binding]; other site 645464006101 catalytic Zn binding site [ion binding]; other site 645464006102 structural Zn binding site [ion binding]; other site 645464006103 dimer interface [polypeptide binding]; other site 645464006104 HMMPfam hit to PF00107; Zinc-binding dehydrogenase 645464006105 HMMPfam hit to PF08240; Alcohol dehydrogenase GroES-like domain 645464006106 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 645464006107 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 645464006108 DEAD-like helicases superfamily; Region: DEXDc; smart00487 645464006109 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 645464006110 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 645464006111 putative Mg++ binding site [ion binding]; other site 645464006112 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 645464006113 HMMPfam hit to PF04313; Type I restriction enzyme R protein N terminus (HSDR_N) 645464006114 HMMPfam hit to PF04851; Type III restriction enzyme, res subunit 645464006115 HMMPfam hit to PF08463; EcoEI R protein C-terminal 645464006116 AAA domain; Region: AAA_21; pfam13304 645464006117 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645464006118 Q-loop/lid; other site 645464006119 ABC transporter signature motif; other site 645464006120 Walker B; other site 645464006121 D-loop; other site 645464006122 H-loop/switch region; other site 645464006123 RloB-like protein; Region: RloB; pfam13707 645464006124 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 645464006125 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 645464006126 HMMPfam hit to PF01420; Type I restriction modification DNA specificity domain 645464006127 HMMPfam hit to PF01420; Type I restriction modification DNA specificity domain 645464006128 HsdM N-terminal domain; Region: HsdM_N; pfam12161 645464006129 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 645464006130 Methyltransferase domain; Region: Methyltransf_26; pfam13659 645464006131 HMMPfam hit to PF02384; N-6 DNA Methylase 645464006132 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 645464006133 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 645464006134 HMMPfam hit to PF02627; Carboxymuconolactone decarboxylase family 645464006135 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 645464006136 HMMPfam hit to PF07883; Cupin domain 645464006137 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 645464006138 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 645464006139 putative substrate translocation pore; other site 645464006140 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464006141 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 645464006142 dimerization interface [polypeptide binding]; other site 645464006143 putative DNA binding site [nucleotide binding]; other site 645464006144 putative Zn2+ binding site [ion binding]; other site 645464006145 HMMPfam hit to PF01022; Bacterial regulatory protein, arsR family 645464006146 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645464006147 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 645464006148 DNA binding residues [nucleotide binding] 645464006149 putative dimer interface [polypeptide binding]; other site 645464006150 HMMPfam hit to PF00376; MerR family regulatory protein 645464006151 Cache domain; Region: Cache_1; pfam02743 645464006152 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 645464006153 dimer interface [polypeptide binding]; other site 645464006154 putative CheW interface [polypeptide binding]; other site 645464006155 HMMPfam hit to PF02743; Cache domain 645464006156 HMMPfam hit to PF00015; Methyl-accepting chemotaxis protein (MCP) signaling domain 645464006157 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15490 645464006158 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 645464006159 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 645464006160 HMMPfam hit to PF00361; NADH-Ubiquinone/plastoquinone (complex I), various chains 645464006161 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 645464006162 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 645464006163 HMMPfam hit to PF00361; NADH-Ubiquinone/plastoquinone (complex I), various chains 645464006164 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 645464006165 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 645464006166 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 645464006167 HMMPfam hit to PF06455; NADH dehydrogenase subunit 5 C-terminus 645464006168 HMMPfam hit to PF00361; NADH-Ubiquinone/plastoquinone (complex I), various chains 645464006169 HMMPfam hit to PF00662; NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus 645464006170 NADH:ubiquinone oxidoreductase subunit 11 or 4L (chain K) [Energy production and conversion]; Region: NuoK; COG0713 645464006171 HMMPfam hit to PF00420; NADH-ubiquinone/plastoquinone oxidoreductase chain 4L 645464006172 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 645464006173 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 645464006174 HMMPfam hit to PF00499; NADH-ubiquinone/plastoquinone oxidoreductase chain 6 645464006175 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 645464006176 4Fe-4S binding domain; Region: Fer4; cl02805 645464006177 4Fe-4S binding domain; Region: Fer4; pfam00037 645464006178 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464006179 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464006180 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 645464006181 HMMPfam hit to PF00146; NADH dehydrogenase 645464006182 NADH dehydrogenase subunit G; Validated; Region: PRK08493 645464006183 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 645464006184 catalytic loop [active] 645464006185 iron binding site [ion binding]; other site 645464006186 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 645464006187 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 645464006188 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464006189 HMMPfam hit to PF10588; NADH-ubiquinone oxidoreductase-G iron-sulfur binding region 645464006190 HMMPfam hit to PF00111; 2Fe-2S iron-sulfur cluster binding domain 645464006191 NADH dehydrogenase subunit D; Validated; Region: PRK06075 645464006192 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 645464006193 HMMPfam hit to PF00346; Respiratory-chain NADH dehydrogenase, 49 Kd subunit 645464006194 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 645464006195 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 645464006196 HMMPfam hit to PF00329; Respiratory-chain NADH dehydrogenase, 30 Kd subunit 645464006197 NADH dehydrogenase subunit B; Validated; Region: PRK06411 645464006198 HMMPfam hit to PF01058; NADH ubiquinone oxidoreductase, 20 Kd subunit 645464006199 NADH dehydrogenase subunit A; Validated; Region: PRK08489 645464006200 HMMPfam hit to PF00507; NADH-ubiquinone/plastoquinone oxidoreductase, chain 3 645464006201 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645464006202 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 645464006203 Walker A/P-loop; other site 645464006204 ATP binding site [chemical binding]; other site 645464006205 Q-loop/lid; other site 645464006206 ABC transporter signature motif; other site 645464006207 Walker B; other site 645464006208 D-loop; other site 645464006209 H-loop/switch region; other site 645464006210 HMMPfam hit to PF00005; ABC transporter 645464006211 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 645464006212 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 645464006213 Walker A/P-loop; other site 645464006214 ATP binding site [chemical binding]; other site 645464006215 Q-loop/lid; other site 645464006216 ABC transporter signature motif; other site 645464006217 Walker B; other site 645464006218 D-loop; other site 645464006219 H-loop/switch region; other site 645464006220 HMMPfam hit to PF00005; ABC transporter 645464006221 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 645464006222 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 645464006223 putative PBP binding loops; other site 645464006224 ABC-ATPase subunit interface; other site 645464006225 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464006226 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 645464006227 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 645464006228 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464006229 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 645464006230 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 645464006231 HMMPfam hit to PF00496; Bacterial extracellular solute-binding proteins, family 5 Middle 645464006232 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 645464006233 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 645464006234 putative [Fe4-S4] binding site [ion binding]; other site 645464006235 putative molybdopterin cofactor binding site [chemical binding]; other site 645464006236 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 645464006237 molybdopterin cofactor binding site; other site 645464006238 HMMPfam hit to PF04879; Molybdopterin oxidoreductase Fe4S4 domain 645464006239 HMMPfam hit to PF00384; Molybdopterin oxidoreductase 645464006240 HMMPfam hit to PF01568; Molydopterin dinucleotide binding domain 645464006241 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 645464006242 4Fe-4S binding domain; Region: Fer4; pfam00037 645464006243 HMMPfam hit to PF00037; 4Fe-4S binding domain 645464006244 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 645464006245 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 645464006246 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 645464006247 heme-binding site [chemical binding]; other site 645464006248 HMMPfam hit to PF00042; Globin 645464006249 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 645464006250 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 645464006251 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 645464006252 Walker A/P-loop; other site 645464006253 ATP binding site [chemical binding]; other site 645464006254 Q-loop/lid; other site 645464006255 ABC transporter signature motif; other site 645464006256 Walker B; other site 645464006257 D-loop; other site 645464006258 H-loop/switch region; other site 645464006259 HMMPfam hit to PF00005; ABC transporter 645464006260 metabolite-proton symporter; Region: 2A0106; TIGR00883 645464006261 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 645464006262 putative substrate translocation pore; other site 645464006263 HMMPfam hit to PF00083; Sugar (and other) transporter 645464006264 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464006265 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 645464006266 HMMPfam hit to PF00753; Metallo-beta-lactamase superfamily 645464006267 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 645464006268 rRNA binding site [nucleotide binding]; other site 645464006269 predicted 30S ribosome binding site; other site 645464006270 HMMPfam hit to PF01176; Translation initiation factor 1A / IF-1 645464006271 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 645464006272 30S ribosomal protein S13; Region: bact_S13; TIGR03631 645464006273 HMMPfam hit to PF00416; Ribosomal protein S13/S18 645464006274 30S ribosomal protein S11; Validated; Region: PRK05309 645464006275 HMMPfam hit to PF00411; Ribosomal protein S11 645464006276 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 645464006277 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 645464006278 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 645464006279 RNA binding surface [nucleotide binding]; other site 645464006280 HMMPfam hit to PF00163; Ribosomal protein S4/S9 N-terminal domain 645464006281 HMMPfam hit to PF01479; S4 domain 645464006282 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 645464006283 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 645464006284 alphaNTD homodimer interface [polypeptide binding]; other site 645464006285 alphaNTD - beta interaction site [polypeptide binding]; other site 645464006286 alphaNTD - beta' interaction site [polypeptide binding]; other site 645464006287 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 645464006288 HMMPfam hit to PF01193; RNA polymerase Rpb3/Rpb11 dimerisation domain 645464006289 HMMPfam hit to PF01000; RNA polymerase Rpb3/RpoA insert domain 645464006290 HMMPfam hit to PF03118; Bacterial RNA polymerase, alpha chain C terminal domain 645464006291 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 645464006292 HMMPfam hit to PF01196; Ribosomal protein L17 645464006293 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 645464006294 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 645464006295 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 645464006296 HMMPfam hit to PF01634; ATP phosphoribosyltransferase 645464006297 HMMPfam hit to PF08029; HisG, C-terminal domain 645464006298 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 645464006299 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 645464006300 NAD binding site [chemical binding]; other site 645464006301 dimerization interface [polypeptide binding]; other site 645464006302 product binding site; other site 645464006303 substrate binding site [chemical binding]; other site 645464006304 zinc binding site [ion binding]; other site 645464006305 catalytic residues [active] 645464006306 HMMPfam hit to PF00815; Histidinol dehydrogenase 645464006307 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 645464006308 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 645464006309 active site 645464006310 motif I; other site 645464006311 motif II; other site 645464006312 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 645464006313 putative active site pocket [active] 645464006314 4-fold oligomerization interface [polypeptide binding]; other site 645464006315 metal binding residues [ion binding]; metal-binding site 645464006316 3-fold/trimer interface [polypeptide binding]; other site 645464006317 HMMPfam hit to PF08645; Polynucleotide kinase 3 phosphatase 645464006318 HMMPfam hit to PF00475; Imidazoleglycerol-phosphate dehydratase 645464006319 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 645464006320 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 645464006321 putative active site [active] 645464006322 oxyanion strand; other site 645464006323 catalytic triad [active] 645464006324 HMMPfam hit to PF00117; Glutamine amidotransferase class-I 645464006325 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 645464006326 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 645464006327 catalytic residues [active] 645464006328 HMMPfam hit to PF00977; Histidine biosynthesis protein 645464006329 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 645464006330 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 645464006331 substrate binding site [chemical binding]; other site 645464006332 glutamase interaction surface [polypeptide binding]; other site 645464006333 HMMPfam hit to PF00977; Histidine biosynthesis protein 645464006334 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 645464006335 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 645464006336 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 645464006337 metal binding site [ion binding]; metal-binding site 645464006338 HMMPfam hit to PF01502; Phosphoribosyl-AMP cyclohydrolase 645464006339 HMMPfam hit to PF01503; Phosphoribosyl-ATP pyrophosphohydrolase 645464006340 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 645464006341 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 645464006342 putative trimer interface [polypeptide binding]; other site 645464006343 putative CoA binding site [chemical binding]; other site 645464006344 antiporter inner membrane protein; Provisional; Region: PRK11670 645464006345 Domain of unknown function DUF59; Region: DUF59; pfam01883 645464006346 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 645464006347 HMMPfam hit to PF10609; ParA/MinD ATPase like 645464006348 HMMPfam hit to PF01883; Domain of unknown function DUF59 645464006349 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 645464006350 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 645464006351 substrate binding site; other site 645464006352 dimer interface; other site 645464006353 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 645464006354 homotrimer interaction site [polypeptide binding]; other site 645464006355 zinc binding site [ion binding]; other site 645464006356 CDP-binding sites; other site 645464006357 HMMPfam hit to PF01128; Uncharacterized protein family UPF0007 645464006358 HMMPfam hit to PF02542; YgbB family 645464006359 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 645464006360 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 645464006361 active site 645464006362 intermolecular recognition site; other site 645464006363 dimerization interface [polypeptide binding]; other site 645464006364 HMMPfam hit to PF00072; Response regulator receiver domain 645464006365 ATP sulfurylase (sulfate adenylyltransferase) [Inorganic ion transport and metabolism]; Region: MET3; COG2046 645464006366 ATP-sulfurylase; Region: ATP-sulfurylase; pfam01747 645464006367 HMMPfam hit to PF01747; ATP-sulfurylase 645464006368 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 645464006369 tetramer interfaces [polypeptide binding]; other site 645464006370 binuclear metal-binding site [ion binding]; other site 645464006371 HMMPfam hit to PF04608; Phosphatidylglycerophosphatase A 645464006372 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 645464006373 HMMPfam hit to PF01649; Ribosomal protein S20 645464006374 peptide chain release factor 1; Validated; Region: prfA; PRK00591 645464006375 This domain is found in peptide chain release factors; Region: PCRF; smart00937 645464006376 RF-1 domain; Region: RF-1; pfam00472 645464006377 HMMPfam hit to PF03462; PCRF domain 645464006378 HMMPfam hit to PF00472; RF-1 domain 645464006379 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 645464006380 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 645464006381 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 645464006382 HMMPfam hit to PF01243; Pyridoxamine 5'-phosphate oxidase 645464006383 HMMPfam hit to PF10615; Protein of unknown function (DUF2470) 645464006384 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 645464006385 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 645464006386 N-terminal plug; other site 645464006387 ligand-binding site [chemical binding]; other site 645464006388 HMMPfam hit to PF07715; TonB-dependent Receptor Plug Domain 645464006389 HMMPfam hit to PF00593; TonB dependent receptor 645464006390 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 645464006391 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 645464006392 ABC-ATPase subunit interface; other site 645464006393 dimer interface [polypeptide binding]; other site 645464006394 putative PBP binding regions; other site 645464006395 HMMPfam hit to PF01032; FecCD transport family 645464006396 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 645464006397 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 645464006398 Walker A/P-loop; other site 645464006399 ATP binding site [chemical binding]; other site 645464006400 Q-loop/lid; other site 645464006401 ABC transporter signature motif; other site 645464006402 Walker B; other site 645464006403 D-loop; other site 645464006404 H-loop/switch region; other site 645464006405 HMMPfam hit to PF00005; ABC transporter 645464006406 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 645464006407 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 645464006408 putative binding site residues; other site 645464006409 HMMPfam hit to PF01497; Periplasmic binding protein 645464006410 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 645464006411 FeS/SAM binding site; other site 645464006412 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 645464006413 HMMPfam hit to PF04055; Radical SAM superfamily 645464006414 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 645464006415 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 645464006416 putative substrate translocation pore; other site 645464006417 HMMPfam hit to PF00083; Sugar (and other) transporter 645464006418 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464006419 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 645464006420 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 645464006421 minor groove reading motif; other site 645464006422 helix-hairpin-helix signature motif; other site 645464006423 substrate binding pocket [chemical binding]; other site 645464006424 active site 645464006425 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 645464006426 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 645464006427 nudix motif; other site 645464006428 HMMPfam hit to PF10576; Iron-sulfur binding domain of endonuclease III 645464006429 HMMPfam hit to PF00730; HhH-GPD superfamily base excision DNA repair protein 645464006430 HMMPfam hit to PF00633; Helix-hairpin-helix motif 645464006431 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 645464006432 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 645464006433 catalytic motif [active] 645464006434 Zn binding site [ion binding]; other site 645464006435 RibD C-terminal domain; Region: RibD_C; cl17279 645464006436 HMMPfam hit to PF00383; Cytidine and deoxycytidylate deaminase zinc-binding region 645464006437 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 645464006438 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 645464006439 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 645464006440 HMMPfam hit to PF03313; Serine dehydratase alpha chain 645464006441 HMMPfam hit to PF03315; Serine dehydratase beta chain 645464006442 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 645464006443 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 645464006444 HMMPfam hit to PF03222; Tryptophan/tyrosine permease family 645464006445 HMMPfam hit to PF03845; Spore germination protein 645464006446 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 645464006447 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 645464006448 Domain of unknown function (DUF4261); Region: DUF4261; pfam14080 645464006449 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 645464006450 HMMPfam hit to PF01618; MotA/TolQ/ExbB proton channel family 645464006451 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 645464006452 TonB system transport protein ExbD, group 2; Region: ExbD_2; TIGR02804 645464006453 HMMPfam hit to PF02472; Biopolymer transport protein ExbD/TolR 645464006454 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 645464006455 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 645464006456 HMMPfam hit to PF03544; Gram-negative bacterial tonB protein 645464006457 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 645464006458 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 645464006459 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 645464006460 Ligand Binding Site [chemical binding]; other site 645464006461 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 645464006462 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 645464006463 Tetramer interface [polypeptide binding]; other site 645464006464 active site 645464006465 FMN-binding site [chemical binding]; other site 645464006466 HMMPfam hit to PF01264; Chorismate synthase 645464006467 ribonuclease III; Reviewed; Region: rnc; PRK00102 645464006468 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 645464006469 dimerization interface [polypeptide binding]; other site 645464006470 active site 645464006471 metal binding site [ion binding]; metal-binding site 645464006472 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 645464006473 dsRNA binding site [nucleotide binding]; other site 645464006474 HMMPfam hit to PF00035; Double-stranded RNA binding motif 645464006475 HMMPfam hit to PF00636; RNase3 domain 645464006476 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 645464006477 RNA/DNA hybrid binding site [nucleotide binding]; other site 645464006478 active site 645464006479 HMMPfam hit to PF00075; RNase H 645464006480 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 645464006481 TPR motif; other site 645464006482 binding surface 645464006483 Tetratricopeptide repeat; Region: TPR_16; pfam13432 645464006484 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 645464006485 Zinc-binding sites [ion binding]; other site 645464006486 zinc cluster 1 [ion binding]; other site 645464006487 putative charged binding surface; other site 645464006488 putative hydrophobic binding surface; other site 645464006489 zinc cluster 2 [ion binding]; other site 645464006490 potential frameshift: common BLAST hit: gi|157415858|ref|YP_001483114.1| DNA primase 645464006491 DNA primase, catalytic core; Region: dnaG; TIGR01391 645464006492 CHC2 zinc finger; Region: zf-CHC2; pfam01807 645464006493 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 645464006494 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 645464006495 active site 645464006496 metal binding site [ion binding]; metal-binding site 645464006497 interdomain interaction site; other site 645464006498 HMMPfam hit to PF01807; CHC2 zinc finger 645464006499 HMMPfam hit to PF08275; DNA primase catalytic core, N-terminal domain 645464006500 HMMPfam hit to PF01751; Toprim domain 645464006501 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 645464006502 HMMPfam hit to PF01106; NifU-like domain 645464006503 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 645464006504 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 645464006505 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 645464006506 HMMPfam hit to PF08245; Mur ligase middle domain 645464006507 HMMPfam hit to PF02875; Mur ligase family, glutamate ligase domain 645464006508 hypothetical protein; Provisional; Region: PRK03762 645464006509 HMMPfam hit to PF02575; Uncharacterised BCR, YbaB family COG0718 645464006510 PDZ domain; Region: PDZ_2; pfam13180 645464006511 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 645464006512 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 645464006513 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 645464006514 substrate binding pocket [chemical binding]; other site 645464006515 chain length determination region; other site 645464006516 substrate-Mg2+ binding site; other site 645464006517 catalytic residues [active] 645464006518 aspartate-rich region 1; other site 645464006519 active site lid residues [active] 645464006520 aspartate-rich region 2; other site 645464006521 HMMPfam hit to PF00348; Polyprenyl synthetase 645464006522 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 645464006523 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 645464006524 TPP-binding site [chemical binding]; other site 645464006525 dimer interface [polypeptide binding]; other site 645464006526 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 645464006527 PYR/PP interface [polypeptide binding]; other site 645464006528 dimer interface [polypeptide binding]; other site 645464006529 TPP binding site [chemical binding]; other site 645464006530 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 645464006531 HMMPfam hit to PF00456; Transketolase, thiamine diphosphate binding domain 645464006532 HMMPfam hit to PF02779; Transketolase, pyrimidine binding domain 645464006533 HMMPfam hit to PF02780; Transketolase, C-terminal domain 645464006534 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 645464006535 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 645464006536 Permease; Region: Permease; pfam02405 645464006537 HMMPfam hit to PF02405; Domain of unknown function DUF140 645464006538 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 645464006539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645464006540 Walker A/P-loop; other site 645464006541 ATP binding site [chemical binding]; other site 645464006542 Q-loop/lid; other site 645464006543 ABC transporter signature motif; other site 645464006544 Walker B; other site 645464006545 D-loop; other site 645464006546 H-loop/switch region; other site 645464006547 HMMPfam hit to PF00005; ABC transporter 645464006548 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 645464006549 mce related protein; Region: MCE; pfam02470 645464006550 HMMPfam hit to PF02470; mce related protein 645464006551 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 645464006552 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 645464006553 active site 645464006554 HMMPfam hit to PF00557; metallopeptidase family M24 645464006555 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 645464006556 HMMPfam hit to PF01177; Asp/Glu/Hydantoin racemase 645464006557 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 645464006558 NlpC/P60 family; Region: NLPC_P60; pfam00877 645464006559 HMMPfam hit to PF00877; NlpC/P60 family 645464006560 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 645464006561 HMMPfam hit to PF06965; Na+/H+ antiporter 1 645464006562 Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: NhaA; COG3004 645464006563 HMMPfam hit to PF06965; Na+/H+ antiporter 1 645464006564 Putative motility protein; Region: YjfB_motility; pfam14070 645464006565 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 645464006566 Predicted membrane protein [Function unknown]; Region: COG4280 645464006567 HMMPfam hit to PF03239; Iron permease FTR1 family 645464006568 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 645464006569 HMMPfam hit to PF10634; Fe2+ transport protein 645464006570 Predicted membrane protein [Function unknown]; Region: COG4393 645464006571 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 645464006572 Uncharacterized conserved protein [Function unknown]; Region: COG3350 645464006573 HMMPfam hit to PF10080; Predicted membrane protein (DUF2318) 645464006574 HMMPfam hit to PF04945; YHS domain 645464006575 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645464006576 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645464006577 FtsX-like permease family; Region: FtsX; pfam02687 645464006578 HMMPfam hit to PF02687; Predicted permease 645464006579 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645464006580 FtsX-like permease family; Region: FtsX; pfam02687 645464006581 HMMPfam hit to PF02687; Predicted permease 645464006582 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 645464006583 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645464006584 Walker A/P-loop; other site 645464006585 ATP binding site [chemical binding]; other site 645464006586 Q-loop/lid; other site 645464006587 ABC transporter signature motif; other site 645464006588 Walker B; other site 645464006589 D-loop; other site 645464006590 H-loop/switch region; other site 645464006591 HMMPfam hit to PF00005; ABC transporter 645464006592 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 645464006593 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 645464006594 catalytic residues [active] 645464006595 HMMPfam hit to PF08534; Redoxin 645464006596 HMMPfam hit to PF00578; AhpC/TSA family 645464006597 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 645464006598 Predicted metal-binding protein [General function prediction only]; Region: COG3019 645464006599 HMMPfam hit to PF04214; Protein of unknown function, DUF 645464006600 DNA ligase; Provisional; Region: PRK09125 645464006601 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 645464006602 DNA binding site [nucleotide binding] 645464006603 active site 645464006604 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 645464006605 DNA binding site [nucleotide binding] 645464006606 HMMPfam hit to PF01068; ATP dependent DNA ligase domain 645464006607 AMIN domain; Region: AMIN; pfam11741 645464006608 enolase; Provisional; Region: eno; PRK00077 645464006609 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 645464006610 dimer interface [polypeptide binding]; other site 645464006611 metal binding site [ion binding]; metal-binding site 645464006612 substrate binding pocket [chemical binding]; other site 645464006613 HMMPfam hit to PF00113; Enolase, C-terminal TIM barrel domain 645464006614 HMMPfam hit to PF03952; Enolase, N-terminal domain 645464006615 recombinase A; Provisional; Region: recA; PRK09354 645464006616 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 645464006617 hexamer interface [polypeptide binding]; other site 645464006618 Walker A motif; other site 645464006619 ATP binding site [chemical binding]; other site 645464006620 Walker B motif; other site 645464006621 HMMPfam hit to PF00154; recA bacterial DNA recombination protein 645464006622 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 645464006623 HMMPfam hit to PF02642; Uncharacterized ACR, COG2107 645464006624 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 645464006625 HMMPfam hit to PF01313; Bacterial export proteins, family 3 645464006626 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 645464006627 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 645464006628 HMMPfam hit to PF02873; UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain 645464006629 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 645464006630 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 645464006631 active site 645464006632 HMMPfam hit to PF00459; Inositol monophosphatase family 645464006633 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 645464006634 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 645464006635 dimer interface [polypeptide binding]; other site 645464006636 active site 645464006637 citrylCoA binding site [chemical binding]; other site 645464006638 NADH binding [chemical binding]; other site 645464006639 cationic pore residues; other site 645464006640 oxalacetate/citrate binding site [chemical binding]; other site 645464006641 coenzyme A binding site [chemical binding]; other site 645464006642 catalytic triad [active] 645464006643 HMMPfam hit to PF00285; Citrate synthase 645464006644 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 645464006645 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 645464006646 HMMPfam hit to PF00999; Sodium/hydrogen exchanger family 645464006647 potential frameshift: common BLAST hit: gi|153951861|ref|YP_001398962.1| biotin synthase 645464006648 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 645464006649 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 645464006650 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 645464006651 FeS/SAM binding site; other site 645464006652 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 645464006653 HMMPfam hit to PF04055; Radical SAM superfamily 645464006654 DNA topoisomerase I; Validated; Region: PRK05582 645464006655 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 645464006656 active site 645464006657 interdomain interaction site; other site 645464006658 putative metal-binding site [ion binding]; other site 645464006659 nucleotide binding site [chemical binding]; other site 645464006660 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 645464006661 domain I; other site 645464006662 DNA binding groove [nucleotide binding] 645464006663 phosphate binding site [ion binding]; other site 645464006664 domain II; other site 645464006665 domain III; other site 645464006666 nucleotide binding site [chemical binding]; other site 645464006667 catalytic site [active] 645464006668 domain IV; other site 645464006669 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 645464006670 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 645464006671 HMMPfam hit to PF01396; Topoisomerase DNA binding C4 zinc finger 645464006672 HMMPfam hit to PF01396; Topoisomerase DNA binding C4 zinc finger 645464006673 HMMPfam hit to PF01396; Topoisomerase DNA binding C4 zinc finger 645464006674 HMMPfam hit to PF01131; DNA topoisomerase 645464006675 HMMPfam hit to PF01751; Toprim domain 645464006676 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 645464006677 putative substrate translocation pore; other site 645464006678 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645464006679 HMMPfam hit to PF07690; Major Facilitator Superfamily 645464006680 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 645464006681 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645464006682 Walker A/P-loop; other site 645464006683 ATP binding site [chemical binding]; other site 645464006684 Q-loop/lid; other site 645464006685 ABC transporter signature motif; other site 645464006686 Walker B; other site 645464006687 D-loop; other site 645464006688 H-loop/switch region; other site 645464006689 TOBE domain; Region: TOBE_2; pfam08402 645464006690 HMMPfam hit to PF00005; ABC transporter 645464006691 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 645464006692 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464006693 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 645464006694 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 645464006695 dimer interface [polypeptide binding]; other site 645464006696 conserved gate region; other site 645464006697 putative PBP binding loops; other site 645464006698 ABC-ATPase subunit interface; other site 645464006699 HMMPfam hit to PF00528; Binding-protein-dependent transport system inner membrane component 645464006700 potential frameshift: common BLAST hit: gi|39933203|ref|NP_945479.1| sugar ABC transporter sugar binding protein 645464006701 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 645464006702 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 645464006703 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 645464006704 HMMPfam hit to PF01547; Bacterial extracellular solute-binding protein 645464006705 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 645464006706 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 645464006707 motif I; other site 645464006708 active site 645464006709 HMMPfam hit to PF00702; haloacid dehalogenase-like hydrolase 645464006710 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 645464006711 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 645464006712 active site 645464006713 metal binding site [ion binding]; metal-binding site 645464006714 hexamer interface [polypeptide binding]; other site 645464006715 HMMPfam hit to PF00149; Calcineurin-like phosphoesterase 645464006716 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 645464006717 SecY translocase; Region: SecY; pfam00344 645464006718 HMMPfam hit to PF00344; eubacterial secY protein 645464006719 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 645464006720 HMMPfam hit to PF01305; Ribosomal protein L15 amino terminal region 645464006721 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 645464006722 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 645464006723 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 645464006724 HMMPfam hit to PF03719; Ribosomal protein S5, C-terminal domain 645464006725 HMMPfam hit to PF00333; Ribosomal protein S5, N-terminal domain 645464006726 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 645464006727 5S rRNA interface [nucleotide binding]; other site 645464006728 23S rRNA interface [nucleotide binding]; other site 645464006729 L5 interface [polypeptide binding]; other site 645464006730 HMMPfam hit to PF00861; Ribosomal L18p/L5e family 645464006731 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 645464006732 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 645464006733 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 645464006734 HMMPfam hit to PF00347; Ribosomal protein L6 645464006735 HMMPfam hit to PF00347; Ribosomal protein L6 645464006736 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 645464006737 HMMPfam hit to PF00410; Ribosomal protein S8 645464006738 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 645464006739 HMMPfam hit to PF00253; Ribosomal protein S14p/S29e 645464006740 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 645464006741 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 645464006742 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 645464006743 HMMPfam hit to PF00673; ribosomal L5P family C-terminus 645464006744 HMMPfam hit to PF00281; Ribosomal protein L5 645464006745 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 645464006746 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 645464006747 RNA binding site [nucleotide binding]; other site 645464006748 HMMPfam hit to PF00467; KOW motif 645464006749 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 645464006750 HMMPfam hit to PF00238; Ribosomal protein L14p/L23e 645464006751 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 645464006752 HMMPfam hit to PF00366; Ribosomal protein S17 645464006753 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 645464006754 putative translocon interaction site; other site 645464006755 23S rRNA interface [nucleotide binding]; other site 645464006756 signal recognition particle (SRP54) interaction site; other site 645464006757 L23 interface [polypeptide binding]; other site 645464006758 trigger factor interaction site; other site 645464006759 HMMPfam hit to PF00831; Ribosomal L29 protein 645464006760 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 645464006761 23S rRNA interface [nucleotide binding]; other site 645464006762 5S rRNA interface [nucleotide binding]; other site 645464006763 putative antibiotic binding site [chemical binding]; other site 645464006764 L25 interface [polypeptide binding]; other site 645464006765 L27 interface [polypeptide binding]; other site 645464006766 HMMPfam hit to PF00252; Ribosomal protein L16p/L10e 645464006767 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 645464006768 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 645464006769 G-X-X-G motif; other site 645464006770 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 645464006771 HMMPfam hit to PF00189; Ribosomal protein S3, C-terminal domain 645464006772 HMMPfam hit to PF07650; KH domain 645464006773 HMMPfam hit to PF00417; Ribosomal protein S3, N-terminal domain 645464006774 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 645464006775 putative translocon binding site; other site 645464006776 protein-rRNA interface [nucleotide binding]; other site 645464006777 HMMPfam hit to PF00237; Ribosomal protein L22p/L17e 645464006778 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 645464006779 HMMPfam hit to PF00203; Ribosomal protein S19 645464006780 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 645464006781 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 645464006782 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 645464006783 HMMPfam hit to PF03947; Ribosomal Proteins L2, C-terminal domain 645464006784 HMMPfam hit to PF00181; Ribosomal Proteins L2, RNA binding domain 645464006785 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 645464006786 HMMPfam hit to PF00276; Ribosomal protein L23 645464006787 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 645464006788 HMMPfam hit to PF00573; Ribosomal protein L4/L1 family 645464006789 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 645464006790 HMMPfam hit to PF00297; Ribosomal protein L3 645464006791 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 645464006792 HMMPfam hit to PF00338; Ribosomal protein S10p/S20e 645464006793 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 645464006794 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 645464006795 RNA binding surface [nucleotide binding]; other site 645464006796 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 645464006797 active site 645464006798 HMMPfam hit to PF00849; RNA pseudouridylate synthase 645464006799 HMMPfam hit to PF01479; S4 domain 645464006800 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 645464006801 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 645464006802 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 645464006803 HMMPfam hit to PF07521; RNA-metabolising metallo-beta-lactamase 645464006804 HMMPfam hit to PF00753; Metallo-beta-lactamase superfamily 645464006805 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 645464006806 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 645464006807 S-adenosylmethionine binding site [chemical binding]; other site 645464006808 HMMPfam hit to PF00398; Ribosomal RNA adenine dimethylase 645464006809 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 645464006810 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 645464006811 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 645464006812 FeS/SAM binding site; other site 645464006813 HMMPfam hit to PF04055; Radical SAM superfamily 645464006814 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 645464006815 FeS/SAM binding site; other site 645464006816 HMMPfam hit to PF04055; Radical SAM superfamily 645464006817 Putative lipopolysaccharide-modifying enzyme; Region: CAP10; smart00672 645464006818 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 645464006819 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645464006820 Coenzyme A binding pocket [chemical binding]; other site 645464006821 HMMPfam hit to PF00583; Acetyltransferase (GNAT) family 645464006822 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 645464006823 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 645464006824 substrate binding site [chemical binding]; other site 645464006825 HMMPfam hit to PF00694; Aconitase C-terminal domain 645464006826 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 645464006827 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 645464006828 substrate binding site [chemical binding]; other site 645464006829 ligand binding site [chemical binding]; other site 645464006830 HMMPfam hit to PF00330; Aconitase family (aconitate hydratase) 645464006831 tartrate dehydrogenase; Region: TTC; TIGR02089 645464006832 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 645464006833 HMMPfam hit to PF00180; Isocitrate/isopropylmalate dehydrogenase 645464006834 2-isopropylmalate synthase; Validated; Region: PRK00915 645464006835 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 645464006836 active site 645464006837 catalytic residues [active] 645464006838 metal binding site [ion binding]; metal-binding site 645464006839 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 645464006840 HMMPfam hit to PF08502; LeuA allosteric (dimerisation) domain 645464006841 HMMPfam hit to PF00682; HMGL-like 645464006842 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 645464006843 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 645464006844 HMMPfam hit to PF01227; GTP cyclohydrolase I 645464006845 potential frameshift: common BLAST hit: gi|218563315|ref|YP_002345095.1| flagellar hook protein FlgE 645464006846 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 645464006847 HMMPfam hit to PF06429; Domain of unknown function (DUF1078) 645464006848 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 645464006849 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 645464006850 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 645464006851 HMMPfam hit to PF07196; Flagellin hook IN motif 645464006852 HMMPfam hit to PF00460; Flagella basal body rod protein 645464006853 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 645464006854 active site 645464006855 putative DNA-binding cleft [nucleotide binding]; other site 645464006856 dimer interface [polypeptide binding]; other site