-- dump date 20140619_004238 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1239934000001 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1239934000002 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1239934000003 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 1239934000004 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1239934000005 Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I; Region: PGM_PMM_I; pfam02878 1239934000006 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 1239934000007 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1239934000008 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1239934000009 active site 1239934000010 HIGH motif; other site 1239934000011 dimer interface [polypeptide binding]; other site 1239934000012 KMSKS motif; other site 1239934000013 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1239934000014 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1239934000015 TIGR00159 family protein; Region: TIGR00159 1239934000016 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1239934000017 phosphopantetheine--protein transferase domain; Region: pantethn_trn; TIGR00556 1239934000018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 1239934000019 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 1239934000020 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1239934000021 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1239934000022 active site 1239934000023 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1239934000024 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 1239934000025 ATP binding site [chemical binding]; other site 1239934000026 putative Mg++ binding site [ion binding]; other site 1239934000027 primosomal protein N' Region: priA; TIGR00595 1239934000028 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1239934000029 nucleotide binding region [chemical binding]; other site 1239934000030 ATP-binding site [chemical binding]; other site 1239934000031 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1239934000032 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1239934000033 ATP-binding site [chemical binding]; other site 1239934000034 Sugar specificity; other site 1239934000035 Pyrimidine base specificity; other site 1239934000036 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 1239934000037 active site residue [active] 1239934000038 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1239934000039 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1239934000040 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1239934000041 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1239934000042 active site 1239934000043 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 1239934000044 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 1239934000045 active site 1239934000046 ADP/pyrophosphate binding site [chemical binding]; other site 1239934000047 dimerization interface [polypeptide binding]; other site 1239934000048 allosteric effector site; other site 1239934000049 fructose-1,6-bisphosphate binding site; other site 1239934000050 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 1239934000051 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1239934000052 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1239934000053 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 1239934000054 Walker A motif; other site 1239934000055 ATP binding site [chemical binding]; other site 1239934000056 Walker B motif; other site 1239934000057 arginine finger; other site 1239934000058 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1239934000059 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK13901 1239934000060 RuvA N terminal domain; Region: RuvA_N; pfam01330 1239934000061 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1239934000062 hypothetical protein; Validated; Region: PRK00110 1239934000063 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 1239934000064 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1239934000065 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1239934000066 homodimer interface [polypeptide binding]; other site 1239934000067 NADP binding site [chemical binding]; other site 1239934000068 substrate binding site [chemical binding]; other site 1239934000069 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 1239934000070 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1239934000071 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 1239934000072 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 1239934000073 Catalytic site [active] 1239934000074 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1239934000075 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 1239934000076 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1239934000077 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 1239934000078 SmpB-tmRNA interface; other site 1239934000079 Borrelia membrane protein P13; Region: Borrelia_P13; pfam05628 1239934000080 DNA topoisomerase IV subunit A; Provisional; Region: PRK09631 1239934000081 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; cl00148 1239934000082 CAP-like domain; other site 1239934000083 active site 1239934000084 primary dimer interface [polypeptide binding]; other site 1239934000085 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1239934000086 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1239934000087 ATP binding site [chemical binding]; other site 1239934000088 Mg2+ binding site [ion binding]; other site 1239934000089 G-X-G motif; other site 1239934000090 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 1239934000091 anchoring element; other site 1239934000092 dimer interface [polypeptide binding]; other site 1239934000093 ATP binding site [chemical binding]; other site 1239934000094 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 1239934000095 active site 1239934000096 putative metal-binding site [ion binding]; other site 1239934000097 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1239934000098 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1239934000099 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1239934000100 putative acyl-acceptor binding pocket; other site 1239934000101 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1239934000102 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1239934000103 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1239934000104 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1239934000105 Phosphate uptake regulator [Inorganic ion transport and metabolism]; Region: PhoU; COG0704 1239934000106 PhoU domain; Region: PhoU; pfam01895 1239934000107 PhoU domain; Region: PhoU; pfam01895 1239934000108 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1239934000109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1239934000110 Walker A/P-loop; other site 1239934000111 ATP binding site [chemical binding]; other site 1239934000112 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1239934000113 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1239934000114 ABC transporter signature motif; other site 1239934000115 Walker B; other site 1239934000116 D-loop; other site 1239934000117 H-loop/switch region; other site 1239934000118 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1239934000119 RNA/DNA hybrid binding site [nucleotide binding]; other site 1239934000120 active site 1239934000121 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 1239934000122 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 1239934000123 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1239934000124 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1239934000125 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1239934000126 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1239934000127 ligand binding site [chemical binding]; other site 1239934000128 active site 1239934000129 UGI interface [polypeptide binding]; other site 1239934000130 catalytic site [active] 1239934000131 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 1239934000132 triosephosphate isomerase; Provisional; Region: PRK14565 1239934000133 substrate binding site [chemical binding]; other site 1239934000134 dimer interface [polypeptide binding]; other site 1239934000135 catalytic triad [active] 1239934000136 Phosphoglycerate kinase; Region: PGK; pfam00162 1239934000137 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 1239934000138 substrate binding site [chemical binding]; other site 1239934000139 hinge regions; other site 1239934000140 ADP binding site [chemical binding]; other site 1239934000141 catalytic site [active] 1239934000142 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1239934000143 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1239934000144 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1239934000145 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 1239934000146 binding surface 1239934000147 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1239934000148 TPR motif; other site 1239934000149 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 1239934000150 TPR motif; other site 1239934000151 binding surface 1239934000152 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 1239934000153 binding surface 1239934000154 TPR motif; other site 1239934000155 TPR repeat; Region: TPR_11; pfam13414 1239934000156 FOG: CBS domain [General function prediction only]; Region: COG0517 1239934000157 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 1239934000158 Transporter associated domain; Region: CorC_HlyC; smart01091 1239934000159 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 1239934000160 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 1239934000161 catalytic residues [active] 1239934000162 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 1239934000163 RNA methyltransferase, RsmE family; Region: TIGR00046 1239934000164 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 1239934000165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1239934000166 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1239934000167 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1239934000168 methionyl-tRNA formyltransferase; Region: fmt; TIGR00460 1239934000169 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1239934000170 putative active site [active] 1239934000171 substrate binding site [chemical binding]; other site 1239934000172 putative cosubstrate binding site; other site 1239934000173 catalytic site [active] 1239934000174 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1239934000175 substrate binding site [chemical binding]; other site 1239934000176 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 1239934000177 active site 1239934000178 catalytic residues [active] 1239934000179 metal binding site [ion binding]; metal-binding site 1239934000180 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1239934000181 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1239934000182 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 1239934000183 active site 1239934000184 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 1239934000185 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1239934000186 active site 1239934000187 motif I; other site 1239934000188 motif II; other site 1239934000189 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; cl17915 1239934000190 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1239934000191 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1239934000192 Divergent PAP2 family; Region: DUF212; cl00855 1239934000193 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 1239934000194 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1239934000195 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1239934000196 RF-1 domain; Region: RF-1; pfam00472 1239934000197 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 1239934000198 SRP54-type protein, GTPase domain; Region: SRP54; pfam00448 1239934000199 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1239934000200 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1239934000201 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1239934000202 Walker A/P-loop; other site 1239934000203 ATP binding site [chemical binding]; other site 1239934000204 Q-loop/lid; other site 1239934000205 ABC transporter signature motif; other site 1239934000206 Walker B; other site 1239934000207 D-loop; other site 1239934000208 H-loop/switch region; other site 1239934000209 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1239934000210 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1239934000211 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1239934000212 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1239934000213 catalytic residue [active] 1239934000214 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1239934000215 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 1239934000216 active site 1239934000217 trimerization site [polypeptide binding]; other site 1239934000218 Mg chelatase-related protein; Region: TIGR00368 1239934000219 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1239934000220 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1239934000221 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1239934000222 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1239934000223 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1239934000224 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1239934000225 NAD binding site [chemical binding]; other site 1239934000226 dimer interface [polypeptide binding]; other site 1239934000227 substrate binding site [chemical binding]; other site 1239934000228 GTP-binding protein LepA; Provisional; Region: PRK05433 1239934000229 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1239934000230 G1 box; other site 1239934000231 putative GEF interaction site [polypeptide binding]; other site 1239934000232 GTP/Mg2+ binding site [chemical binding]; other site 1239934000233 Switch I region; other site 1239934000234 G2 box; other site 1239934000235 G3 box; other site 1239934000236 Switch II region; other site 1239934000237 G4 box; other site 1239934000238 G5 box; other site 1239934000239 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 1239934000240 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 1239934000241 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1239934000242 V-type ATP synthase subunit K; Validated; Region: PRK06649 1239934000243 V-type ATP synthase subunit I; Validated; Region: PRK05771 1239934000244 V-type ATP synthase subunit D; Provisional; Region: PRK02195 1239934000245 V-type ATP synthase subunit B; Provisional; Region: PRK02118 1239934000246 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1239934000247 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 1239934000248 Walker A motif homologous position; other site 1239934000249 Walker B motif; other site 1239934000250 V-type ATP synthase subunit A; Provisional; Region: PRK04192 1239934000251 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1239934000252 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 1239934000253 Walker A motif/ATP binding site; other site 1239934000254 Walker B motif; other site 1239934000255 V-type ATP synthase subunit E; Provisional; Region: PRK01558 1239934000256 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 1239934000257 MutS2 family protein; Region: mutS2; TIGR01069 1239934000258 MutS domain III; Region: MutS_III; pfam05192 1239934000259 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1239934000260 Walker A/P-loop; other site 1239934000261 ATP binding site [chemical binding]; other site 1239934000262 Q-loop/lid; other site 1239934000263 ABC transporter signature motif; other site 1239934000264 Walker B; other site 1239934000265 D-loop; other site 1239934000266 H-loop/switch region; other site 1239934000267 Smr domain; Region: Smr; pfam01713 1239934000268 ribosome small subunit-dependent GTPase A; Region: TIGR00157 1239934000269 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1239934000270 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1239934000271 GTP/Mg2+ binding site [chemical binding]; other site 1239934000272 G4 box; other site 1239934000273 G5 box; other site 1239934000274 G1 box; other site 1239934000275 Switch I region; other site 1239934000276 G2 box; other site 1239934000277 G3 box; other site 1239934000278 Switch II region; other site 1239934000279 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1239934000280 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1239934000281 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1239934000282 putative dimer interface [polypeptide binding]; other site 1239934000283 putative anticodon binding site; other site 1239934000284 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1239934000285 homodimer interface [polypeptide binding]; other site 1239934000286 motif 1; other site 1239934000287 motif 2; other site 1239934000288 active site 1239934000289 motif 3; other site 1239934000290 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1239934000291 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 1239934000292 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1239934000293 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1239934000294 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 1239934000295 protein binding site [polypeptide binding]; other site 1239934000296 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 1239934000297 protein binding site [polypeptide binding]; other site 1239934000298 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 1239934000299 active site 1239934000300 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 1239934000301 TPR motif; other site 1239934000302 binding surface 1239934000303 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1239934000304 putative RNA binding site [nucleotide binding]; other site 1239934000305 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1239934000306 SurA N-terminal domain; Region: SurA_N; pfam09312 1239934000307 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1239934000308 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1239934000309 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1239934000310 dimer interface [polypeptide binding]; other site 1239934000311 active site 1239934000312 replicative DNA helicase; Region: DnaB; TIGR00665 1239934000313 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1239934000314 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 1239934000315 Walker A motif; other site 1239934000316 ATP binding site [chemical binding]; other site 1239934000317 Walker B motif; other site 1239934000318 DNA binding loops [nucleotide binding] 1239934000319 ribosomal protein L9; Region: L9; TIGR00158 1239934000320 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1239934000321 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1239934000322 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1239934000323 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1239934000324 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 1239934000325 dimer interface [polypeptide binding]; other site 1239934000326 ssDNA binding site [nucleotide binding]; other site 1239934000327 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1239934000328 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 1239934000329 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1239934000330 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1239934000331 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1239934000332 active site turn [active] 1239934000333 phosphorylation site [posttranslational modification] 1239934000334 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1239934000335 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1239934000336 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 1239934000337 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 1239934000338 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 1239934000339 protein binding site [polypeptide binding]; other site 1239934000340 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 1239934000341 putative substrate binding region [chemical binding]; other site 1239934000342 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1239934000343 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1239934000344 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14837 1239934000345 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1239934000346 catalytic residue [active] 1239934000347 putative FPP diphosphate binding site; other site 1239934000348 putative FPP binding hydrophobic cleft; other site 1239934000349 dimer interface [polypeptide binding]; other site 1239934000350 putative IPP diphosphate binding site; other site 1239934000351 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1239934000352 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 1239934000353 hinge region; other site 1239934000354 translation elongation factor Ts; Region: tsf; TIGR00116 1239934000355 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 1239934000356 Elongation factor TS; Region: EF_TS; pfam00889 1239934000357 Elongation factor TS; Region: EF_TS; pfam00889 1239934000358 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 1239934000359 rRNA interaction site [nucleotide binding]; other site 1239934000360 S8 interaction site; other site 1239934000361 putative laminin-1 binding site; other site 1239934000362 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1239934000363 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 1239934000364 RNA binding site [nucleotide binding]; other site 1239934000365 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 1239934000366 RNA binding site [nucleotide binding]; other site 1239934000367 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1239934000368 RNA binding site [nucleotide binding]; other site 1239934000369 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; cd00164 1239934000370 RNA binding site [nucleotide binding]; other site 1239934000371 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1239934000372 RNA binding site [nucleotide binding]; other site 1239934000373 cytidylate kinase; Region: cmk; TIGR00017 1239934000374 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 1239934000375 CMP-binding site; other site 1239934000376 The sites determining sugar specificity; other site 1239934000377 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1239934000378 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 1239934000379 RNA binding surface [nucleotide binding]; other site 1239934000380 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1239934000381 active site 1239934000382 recombinase A; Provisional; Region: recA; PRK09354 1239934000383 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 1239934000384 hexamer interface [polypeptide binding]; other site 1239934000385 Walker A motif; other site 1239934000386 ATP binding site [chemical binding]; other site 1239934000387 Walker B motif; other site 1239934000388 transcript cleavage factor/unknown domain fusion protein; Provisional; Region: PRK14720 1239934000389 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1239934000390 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1239934000391 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 1239934000392 binding surface 1239934000393 TPR motif; other site 1239934000394 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1239934000395 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 1239934000396 binding surface 1239934000397 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1239934000398 TPR motif; other site 1239934000399 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 1239934000400 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 1239934000401 dimer interface [polypeptide binding]; other site 1239934000402 motif 1; other site 1239934000403 active site 1239934000404 motif 2; other site 1239934000405 motif 3; other site 1239934000406 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 1239934000407 anticodon binding site; other site 1239934000408 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 1239934000409 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1239934000410 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1239934000411 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 1239934000412 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1239934000413 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1239934000414 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1239934000415 acyl-activating enzyme (AAE) consensus motif; other site 1239934000416 CoA binding site [chemical binding]; other site 1239934000417 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1239934000418 AMP binding site [chemical binding]; other site 1239934000419 active site 1239934000420 CoA binding site [chemical binding]; other site 1239934000421 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1239934000422 Protein export membrane protein; Region: SecD_SecF; cl14618 1239934000423 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 1239934000424 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1239934000425 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1239934000426 HlyD family secretion protein; Region: HlyD_3; pfam13437 1239934000427 Outer membrane efflux protein; Region: OEP; pfam02321 1239934000428 Outer membrane efflux protein; Region: OEP; pfam02321 1239934000429 Haemolytic domain; Region: Haemolytic; cl00506 1239934000430 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1239934000431 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1239934000432 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 1239934000433 dimer interface [polypeptide binding]; other site 1239934000434 conserved gate region; other site 1239934000435 ABC-ATPase subunit interface; other site 1239934000436 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1239934000437 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1239934000438 Walker A/P-loop; other site 1239934000439 ATP binding site [chemical binding]; other site 1239934000440 Q-loop/lid; other site 1239934000441 ABC transporter signature motif; other site 1239934000442 Walker B; other site 1239934000443 D-loop; other site 1239934000444 H-loop/switch region; other site 1239934000445 flagellin; Provisional; Region: PRK12803 1239934000446 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1239934000447 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1239934000448 flagellar hook-associated protein FliD; Validated; Region: fliD; PRK06664 1239934000449 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1239934000450 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1239934000451 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 1239934000452 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1239934000453 active site 1239934000454 dimer interface [polypeptide binding]; other site 1239934000455 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1239934000456 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1239934000457 active site 1239934000458 trimer interface [polypeptide binding]; other site 1239934000459 allosteric site; other site 1239934000460 active site lid [active] 1239934000461 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1239934000462 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1239934000463 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1239934000464 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1239934000465 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1239934000466 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1239934000467 SEC-C motif; Region: SEC-C; pfam02810 1239934000468 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1239934000469 alanine racemase; Region: alr; TIGR00492 1239934000470 active site 1239934000471 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1239934000472 dimer interface [polypeptide binding]; other site 1239934000473 substrate binding site [chemical binding]; other site 1239934000474 catalytic residues [active] 1239934000475 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 1239934000476 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1239934000477 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1239934000478 Uncharacterized conserved protein [Function unknown]; Region: COG1306 1239934000479 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 1239934000480 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1239934000481 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1239934000482 ligand binding site [chemical binding]; other site 1239934000483 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1239934000484 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 1239934000485 rRNA binding site [nucleotide binding]; other site 1239934000486 predicted 30S ribosome binding site; other site 1239934000487 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1239934000488 Oxygen tolerance; Region: BatD; pfam13584 1239934000489 TPR repeat; Region: TPR_11; pfam13414 1239934000490 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 1239934000491 TPR repeat; Region: TPR_11; pfam13414 1239934000492 binding surface 1239934000493 TPR motif; other site 1239934000494 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1239934000495 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1239934000496 metal ion-dependent adhesion site (MIDAS); other site 1239934000497 Aerotolerance regulator N-terminal; Region: BatA; cl06567 1239934000498 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1239934000499 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 1239934000500 metal ion-dependent adhesion site (MIDAS); other site 1239934000501 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1239934000502 Protein of unknown function DUF58; Region: DUF58; pfam01882 1239934000503 MoxR-like ATPases [General function prediction only]; Region: COG0714 1239934000504 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 1239934000505 Walker A motif; other site 1239934000506 ATP binding site [chemical binding]; other site 1239934000507 Walker B motif; other site 1239934000508 arginine finger; other site 1239934000509 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1239934000510 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 1239934000511 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1239934000512 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1239934000513 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1239934000514 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1239934000515 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1239934000516 tRNA modification GTPase TrmE; Region: mnmE_trmE_thdF; TIGR00450 1239934000517 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1239934000518 G1 box; other site 1239934000519 GTP/Mg2+ binding site [chemical binding]; other site 1239934000520 Switch I region; other site 1239934000521 G2 box; other site 1239934000522 Switch II region; other site 1239934000523 G3 box; other site 1239934000524 G4 box; other site 1239934000525 G5 box; other site 1239934000526 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1239934000527 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06665 1239934000528 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1239934000529 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1239934000530 flagellar hook-associated protein FlgL; Validated; Region: PRK06663 1239934000531 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1239934000532 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1239934000533 flagellar assembly protein FliW; Provisional; Region: PRK13285 1239934000534 carbon storage regulator (csrA); Region: csrA; TIGR00202 1239934000535 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1239934000536 Glycoprotease family; Region: Peptidase_M22; pfam00814 1239934000537 tRNA threonylcarbamoyl adenosine modification protein YjeE; Region: T6A_YjeE; TIGR00150 1239934000538 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1239934000539 23S rRNA binding site [nucleotide binding]; other site 1239934000540 L21 binding site [polypeptide binding]; other site 1239934000541 L13 binding site [polypeptide binding]; other site 1239934000542 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1239934000543 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1239934000544 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1239934000545 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1239934000546 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1239934000547 active site 1239934000548 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 1239934000549 binding surface 1239934000550 TPR motif; other site 1239934000551 TPR repeat; Region: TPR_11; pfam13414 1239934000552 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 1239934000553 binding surface 1239934000554 TPR repeat; Region: TPR_11; pfam13414 1239934000555 TPR motif; other site 1239934000556 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1239934000557 TPR repeat; Region: TPR_11; pfam13414 1239934000558 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 1239934000559 binding surface 1239934000560 TPR motif; other site 1239934000561 TPR repeat; Region: TPR_11; pfam13414 1239934000562 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 1239934000563 binding surface 1239934000564 TPR motif; other site 1239934000565 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1239934000566 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1239934000567 RF-1 domain; Region: RF-1; pfam00472 1239934000568 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1239934000569 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 1239934000570 S-adenosylmethionine binding site [chemical binding]; other site 1239934000571 HD domain; Region: HD_4; pfam13328 1239934000572 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 1239934000573 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1239934000574 synthetase active site [active] 1239934000575 metal binding site [ion binding]; metal-binding site 1239934000576 NTP binding site [chemical binding]; other site 1239934000577 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 1239934000578 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1239934000579 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1239934000580 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1239934000581 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 1239934000582 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1239934000583 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1239934000584 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1239934000585 FOG: CBS domain [General function prediction only]; Region: COG0517 1239934000586 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 1239934000587 Transporter associated domain; Region: CorC_HlyC; smart01091 1239934000588 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 1239934000589 HflK protein; Region: hflK; TIGR01933 1239934000590 HflC protein; Region: hflC; TIGR01932 1239934000591 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 1239934000592 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1239934000593 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1239934000594 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 1239934000595 S-adenosylmethionine binding site [chemical binding]; other site 1239934000596 UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: GalU; COG1210 1239934000597 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 1239934000598 active site 1239934000599 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 1239934000600 binding surface 1239934000601 TPR motif; other site 1239934000602 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1239934000603 TPR repeat; Region: TPR_11; pfam13414 1239934000604 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 1239934000605 binding surface 1239934000606 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1239934000607 TPR motif; other site 1239934000608 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 1239934000609 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 1239934000610 TPR motif; other site 1239934000611 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1239934000612 binding surface 1239934000613 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 1239934000614 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 1239934000615 Mg2+ binding site [ion binding]; other site 1239934000616 G-X-G motif; other site 1239934000617 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1239934000618 ATP binding site [chemical binding]; other site 1239934000619 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1239934000620 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1239934000621 translation elongation factor P; Region: efp; TIGR00038 1239934000622 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 1239934000623 RNA binding site [nucleotide binding]; other site 1239934000624 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 1239934000625 RNA binding site [nucleotide binding]; other site 1239934000626 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1239934000627 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1239934000628 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 1239934000629 dimer interface [polypeptide binding]; other site 1239934000630 conserved gate region; other site 1239934000631 putative PBP binding loops; other site 1239934000632 ABC-ATPase subunit interface; other site 1239934000633 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 1239934000634 PBP superfamily domain; Region: PBP_like_2; cl17296 1239934000635 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1239934000636 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 1239934000637 dimer interface [polypeptide binding]; other site 1239934000638 conserved gate region; other site 1239934000639 putative PBP binding loops; other site 1239934000640 ABC-ATPase subunit interface; other site 1239934000641 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1239934000642 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1239934000643 Walker A/P-loop; other site 1239934000644 ATP binding site [chemical binding]; other site 1239934000645 Q-loop/lid; other site 1239934000646 ABC transporter signature motif; other site 1239934000647 Walker B; other site 1239934000648 D-loop; other site 1239934000649 H-loop/switch region; other site 1239934000650 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1239934000651 alanyl-tRNA synthetase; Provisional; Region: PRK01584 1239934000652 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 1239934000653 motif 1; other site 1239934000654 active site 1239934000655 motif 2; other site 1239934000656 motif 3; other site 1239934000657 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1239934000658 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 1239934000659 FliG C-terminal domain; Region: FliG_C; pfam01706 1239934000660 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1239934000661 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1239934000662 putative active site [active] 1239934000663 tRNA dihydrouridine synthase A; Region: yjbN; TIGR00742 1239934000664 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 1239934000665 FMN binding site [chemical binding]; other site 1239934000666 active site 1239934000667 catalytic residues [active] 1239934000668 substrate binding site [chemical binding]; other site 1239934000669 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 1239934000670 motif 3; other site 1239934000671 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1239934000672 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 1239934000673 motif 1; other site 1239934000674 dimer interface [polypeptide binding]; other site 1239934000675 active site 1239934000676 motif 2; other site 1239934000677 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1239934000678 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1239934000679 Peptidase M16C associated; Region: M16C_assoc; pfam08367 1239934000680 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1239934000681 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1239934000682 transcription termination factor Rho; Region: rho; TIGR00767 1239934000683 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1239934000684 RNA binding site [nucleotide binding]; other site 1239934000685 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 1239934000686 multimer interface [polypeptide binding]; other site 1239934000687 Walker A motif; other site 1239934000688 ATP binding site [chemical binding]; other site 1239934000689 Walker B motif; other site 1239934000690 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1239934000691 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1239934000692 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 1239934000693 IHF dimer interface [polypeptide binding]; other site 1239934000694 IHF - DNA interface [nucleotide binding]; other site 1239934000695 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1239934000696 GTP-binding protein YchF; Reviewed; Region: PRK09601 1239934000697 YchF GTPase; Region: YchF; cd01900 1239934000698 G1 box; other site 1239934000699 GTP/Mg2+ binding site [chemical binding]; other site 1239934000700 Switch I region; other site 1239934000701 G2 box; other site 1239934000702 Switch II region; other site 1239934000703 G3 box; other site 1239934000704 G4 box; other site 1239934000705 G5 box; other site 1239934000706 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 1239934000707 TPR repeat; Region: TPR_11; pfam13414 1239934000708 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 1239934000709 TPR motif; other site 1239934000710 binding surface 1239934000711 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1239934000712 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1239934000713 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1239934000714 metal ion-dependent adhesion site (MIDAS); other site 1239934000715 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1239934000716 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1239934000717 putative active site [active] 1239934000718 catalytic triad [active] 1239934000719 putative dimer interface [polypeptide binding]; other site 1239934000720 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1239934000721 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1239934000722 Substrate-binding site [chemical binding]; other site 1239934000723 Substrate specificity [chemical binding]; other site 1239934000724 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1239934000725 amphipathic channel; other site 1239934000726 Asn-Pro-Ala signature motifs; other site 1239934000727 glycerol kinase; Provisional; Region: glpK; PRK00047 1239934000728 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1239934000729 N- and C-terminal domain interface [polypeptide binding]; other site 1239934000730 active site 1239934000731 MgATP binding site [chemical binding]; other site 1239934000732 catalytic site [active] 1239934000733 metal binding site [ion binding]; metal-binding site 1239934000734 glycerol binding site [chemical binding]; other site 1239934000735 homotetramer interface [polypeptide binding]; other site 1239934000736 homodimer interface [polypeptide binding]; other site 1239934000737 FBP binding site [chemical binding]; other site 1239934000738 protein IIAGlc interface [polypeptide binding]; other site 1239934000739 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1239934000740 Protein of unknown function (DUF327); Region: DUF327; cl00753 1239934000741 Protein of unknown function (DUF327); Region: DUF327; cl00753 1239934000742 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1239934000743 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1239934000744 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1239934000745 Peptidase family M23; Region: Peptidase_M23; pfam01551 1239934000746 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 1239934000747 active site 1239934000748 dimerization interface [polypeptide binding]; other site 1239934000749 oligoendopeptidase F; Region: pepF; TIGR00181 1239934000750 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1239934000751 active site 1239934000752 Zn binding site [ion binding]; other site 1239934000753 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1239934000754 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1239934000755 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1239934000756 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1239934000757 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1239934000758 HIGH motif; other site 1239934000759 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1239934000760 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1239934000761 active site 1239934000762 KMSKS motif; other site 1239934000763 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1239934000764 tRNA binding surface [nucleotide binding]; other site 1239934000765 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1239934000766 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1239934000767 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1239934000768 ATP-dependent protease La; Region: lon; TIGR00763 1239934000769 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 1239934000770 Walker A motif; other site 1239934000771 ATP binding site [chemical binding]; other site 1239934000772 Walker B motif; other site 1239934000773 arginine finger; other site 1239934000774 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1239934000775 DHH family; Region: DHH; pfam01368 1239934000776 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1239934000777 DHHA1 domain; Region: DHHA1; pfam02272 1239934000778 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1239934000779 Peptidase family M23; Region: Peptidase_M23; pfam01551 1239934000780 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1239934000781 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1239934000782 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1239934000783 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1239934000784 Bacitracin resistance protein BacA; Region: BacA; cl00858 1239934000785 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1239934000786 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 1239934000787 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1239934000788 catalytic residue [active] 1239934000789 TPR repeat; Region: TPR_11; pfam13414 1239934000790 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 1239934000791 TPR motif; other site 1239934000792 binding surface 1239934000793 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1239934000794 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1239934000795 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1239934000796 Peptidase family M23; Region: Peptidase_M23; pfam01551 1239934000797 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1239934000798 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 1239934000799 Catalytic site [active] 1239934000800 rod shape-determining protein MreB; Provisional; Region: PRK13930 1239934000801 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 1239934000802 nucleotide binding site [chemical binding]; other site 1239934000803 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1239934000804 SBD interface [polypeptide binding]; other site 1239934000805 Uncharacterized conserved protein [Function unknown]; Region: COG1315 1239934000806 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1239934000807 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 1239934000808 P-loop; other site 1239934000809 flagellar biosynthesis regulator FlhF; Provisional; Region: PRK12723 1239934000810 Protein of unknown function, DUF258; Region: DUF258; pfam03193 1239934000811 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 1239934000812 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1239934000813 FHIPEP family; Region: FHIPEP; pfam00771 1239934000814 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 1239934000815 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1239934000816 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1239934000817 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1239934000818 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 1239934000819 Flagellar biosynthesis pathway, component FliP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliP; COG1338 1239934000820 flagellar biosynthesis protein FliZ; Provisional; Region: PRK13414 1239934000821 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 1239934000822 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 1239934000823 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1239934000824 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK06654 1239934000825 flagellar motor protein MotB; Validated; Region: motB; PRK06667 1239934000826 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1239934000827 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1239934000828 ligand binding site [chemical binding]; other site 1239934000829 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1239934000830 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1239934000831 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1239934000832 Flagellar protein (FlbD); Region: FlbD; cl00683 1239934000833 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1239934000834 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1239934000835 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1239934000836 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1239934000837 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 1239934000838 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1239934000839 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1239934000840 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 1239934000841 Walker B motif; other site 1239934000842 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1239934000843 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 1239934000844 Walker A motif; other site 1239934000845 ATP binding site [chemical binding]; other site 1239934000846 flagellar assembly protein H; Validated; Region: fliH; PRK06669 1239934000847 Flagellar assembly protein FliH; Region: FliH; pfam02108 1239934000848 flagellar motor switch protein FliG; Region: fliG; TIGR00207 1239934000849 FliG C-terminal domain; Region: FliG_C; pfam01706 1239934000850 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 1239934000851 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1239934000852 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1239934000853 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK01482 1239934000854 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1239934000855 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1239934000856 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1239934000857 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12622 1239934000858 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1239934000859 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1239934000860 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 1239934000861 Walker A motif; other site 1239934000862 ATP binding site [chemical binding]; other site 1239934000863 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1239934000864 Walker B motif; other site 1239934000865 arginine finger; other site 1239934000866 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1239934000867 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 1239934000868 active site 1239934000869 HslU subunit interaction site [polypeptide binding]; other site 1239934000870 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1239934000871 DNA protecting protein DprA; Region: dprA; TIGR00732 1239934000872 TPR repeat; Region: TPR_11; pfam13414 1239934000873 Tetratricopeptide repeat; Region: TPR_1; pfam00515 1239934000874 binding surface 1239934000875 TPR motif; other site 1239934000876 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 1239934000877 binding surface 1239934000878 TPR motif; other site 1239934000879 cell division protein FtsZ; Validated; Region: PRK09330 1239934000880 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 1239934000881 nucleotide binding site [chemical binding]; other site 1239934000882 SulA interaction site; other site 1239934000883 cell division protein FtsA; Region: ftsA; TIGR01174 1239934000884 Cell division protein FtsA; Region: FtsA; smart00842 1239934000885 Cell division protein FtsA; Region: FtsA; pfam14450 1239934000886 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1239934000887 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1239934000888 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 1239934000889 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 1239934000890 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 1239934000891 Mg++ binding site [ion binding]; other site 1239934000892 putative catalytic motif [active] 1239934000893 putative substrate binding site [chemical binding]; other site 1239934000894 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1239934000895 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1239934000896 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1239934000897 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1239934000898 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1239934000899 MraW methylase family; Region: Methyltransf_5; cl17771 1239934000900 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 1239934000901 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1239934000902 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 1239934000903 putative CheA interaction surface; other site 1239934000904 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1239934000905 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1239934000906 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1239934000907 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1239934000908 substrate binding pocket [chemical binding]; other site 1239934000909 chain length determination region; other site 1239934000910 substrate-Mg2+ binding site; other site 1239934000911 catalytic residues [active] 1239934000912 aspartate-rich region 1; other site 1239934000913 active site lid residues [active] 1239934000914 aspartate-rich region 2; other site 1239934000915 Uncharacterized ABC-type transport system, permease component [General function prediction only]; Region: COG1079 1239934000916 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1239934000917 TM-ABC transporter signature motif; other site 1239934000918 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1239934000919 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1239934000920 Walker A/P-loop; other site 1239934000921 ATP binding site [chemical binding]; other site 1239934000922 Q-loop/lid; other site 1239934000923 ABC transporter signature motif; other site 1239934000924 Walker B; other site 1239934000925 D-loop; other site 1239934000926 H-loop/switch region; other site 1239934000927 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1239934000928 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1239934000929 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1239934000930 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1239934000931 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1239934000932 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1239934000933 metal ion-dependent adhesion site (MIDAS); other site 1239934000934 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1239934000935 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 1239934000936 binding surface 1239934000937 TPR motif; other site 1239934000938 Phosphate acyltransferases; Region: PlsC; smart00563 1239934000939 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1239934000940 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1239934000941 peptide binding site [polypeptide binding]; other site 1239934000942 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1239934000943 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1239934000944 peptide binding site [polypeptide binding]; other site 1239934000945 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1239934000946 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1239934000947 peptide binding site [polypeptide binding]; other site 1239934000948 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 1239934000949 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 1239934000950 ABC-ATPase subunit interface; other site 1239934000951 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1239934000952 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1239934000953 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 1239934000954 dimer interface [polypeptide binding]; other site 1239934000955 conserved gate region; other site 1239934000956 putative PBP binding loops; other site 1239934000957 ABC-ATPase subunit interface; other site 1239934000958 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1239934000959 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1239934000960 Walker A/P-loop; other site 1239934000961 ATP binding site [chemical binding]; other site 1239934000962 Q-loop/lid; other site 1239934000963 ABC transporter signature motif; other site 1239934000964 Walker B; other site 1239934000965 D-loop; other site 1239934000966 H-loop/switch region; other site 1239934000967 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1239934000968 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1239934000969 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1239934000970 Walker A/P-loop; other site 1239934000971 ATP binding site [chemical binding]; other site 1239934000972 Q-loop/lid; other site 1239934000973 ABC transporter signature motif; other site 1239934000974 Walker B; other site 1239934000975 D-loop; other site 1239934000976 H-loop/switch region; other site 1239934000977 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1239934000978 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1239934000979 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1239934000980 enolase; Provisional; Region: eno; PRK00077 1239934000981 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 1239934000982 dimer interface [polypeptide binding]; other site 1239934000983 metal binding site [ion binding]; metal-binding site 1239934000984 substrate binding pocket [chemical binding]; other site 1239934000985 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1239934000986 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 1239934000987 23S rRNA interface [nucleotide binding]; other site 1239934000988 L3 interface [polypeptide binding]; other site 1239934000989 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 1239934000990 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1239934000991 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1239934000992 GatB domain; Region: GatB_Yqey; smart00845 1239934000993 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1239934000994 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1239934000995 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit; Region: gatA; TIGR00132 1239934000996 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 1239934000997 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1239934000998 Part of AAA domain; Region: AAA_19; pfam13245 1239934000999 Family description; Region: UvrD_C_2; pfam13538 1239934001000 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1239934001001 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1239934001002 Helix-turn-helix domain; Region: HTH_25; pfam13413 1239934001003 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1239934001004 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1239934001005 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 1239934001006 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1239934001007 pyruvate kinase; Provisional; Region: PRK05826 1239934001008 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 1239934001009 domain interfaces; other site 1239934001010 active site 1239934001011 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1239934001012 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1239934001013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1239934001014 RNA methyltransferase, RsmE family; Region: TIGR00046 1239934001015 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1239934001016 C-terminal peptidase (prc); Region: prc; TIGR00225 1239934001017 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 1239934001018 protein binding site [polypeptide binding]; other site 1239934001019 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1239934001020 Catalytic dyad [active] 1239934001021 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 1239934001022 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1239934001023 P-loop; other site 1239934001024 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 1239934001025 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 1239934001026 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1239934001027 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1239934001028 active site 1239934001029 dimer interfaces [polypeptide binding]; other site 1239934001030 catalytic residues [active] 1239934001031 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 1239934001032 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1239934001033 oligomer interface [polypeptide binding]; other site 1239934001034 putative active site [active] 1239934001035 metal binding site [ion binding]; metal-binding site 1239934001036 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 1239934001037 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1239934001038 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1239934001039 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1239934001040 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1239934001041 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 1239934001042 Walker A motif; other site 1239934001043 ATP binding site [chemical binding]; other site 1239934001044 Walker B motif; other site 1239934001045 arginine finger; other site 1239934001046 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 1239934001047 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1239934001048 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1239934001049 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1239934001050 active site 1239934001051 HIGH motif; other site 1239934001052 dimer interface [polypeptide binding]; other site 1239934001053 KMSKS motif; other site 1239934001054 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 1239934001055 RNA binding surface [nucleotide binding]; other site 1239934001056 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1239934001057 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 1239934001058 dimer interface [polypeptide binding]; other site 1239934001059 motif 1; other site 1239934001060 active site 1239934001061 motif 2; other site 1239934001062 motif 3; other site 1239934001063 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 1239934001064 anticodon binding site; other site 1239934001065 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1239934001066 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1239934001067 active site 1239934001068 HIGH motif; other site 1239934001069 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1239934001070 active site 1239934001071 KMSKS motif; other site 1239934001072 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1239934001073 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1239934001074 Zn2+ binding site [ion binding]; other site 1239934001075 Mg2+ binding site [ion binding]; other site 1239934001076 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1239934001077 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1239934001078 S-adenosylmethionine synthetase; Region: metK; TIGR01034 1239934001079 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1239934001080 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1239934001081 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1239934001082 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 1239934001083 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 1239934001084 HIT family signature motif; other site 1239934001085 catalytic residue [active] 1239934001086 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 1239934001087 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1239934001088 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1239934001089 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1239934001090 Divalent cation transporter; Region: MgtE; pfam01769 1239934001091 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 1239934001092 Trehalase; Region: Trehalase; cl17346 1239934001093 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1239934001094 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1239934001095 ligand binding site [chemical binding]; other site 1239934001096 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1239934001097 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1239934001098 ligand binding site [chemical binding]; other site 1239934001099 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1239934001100 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1239934001101 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1239934001102 ligand binding site [chemical binding]; other site 1239934001103 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1239934001104 Basic membrane protein; Region: Bmp; pfam02608 1239934001105 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1239934001106 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1239934001107 ligand binding site [chemical binding]; other site 1239934001108 30S ribosomal protein S7; Validated; Region: PRK05302 1239934001109 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 1239934001110 S17 interaction site [polypeptide binding]; other site 1239934001111 S8 interaction site; other site 1239934001112 16S rRNA interaction site [nucleotide binding]; other site 1239934001113 streptomycin interaction site [chemical binding]; other site 1239934001114 23S rRNA interaction site [nucleotide binding]; other site 1239934001115 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1239934001116 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1239934001117 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1239934001118 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1239934001119 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1239934001120 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1239934001121 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1239934001122 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1239934001123 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1239934001124 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1239934001125 cleft; other site 1239934001126 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1239934001127 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 1239934001128 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 1239934001129 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1239934001130 DNA binding site [nucleotide binding] 1239934001131 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1239934001132 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1239934001133 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 1239934001134 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 1239934001135 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 1239934001136 RPB10 interaction site [polypeptide binding]; other site 1239934001137 RPB1 interaction site [polypeptide binding]; other site 1239934001138 RPB11 interaction site [polypeptide binding]; other site 1239934001139 RPB3 interaction site [polypeptide binding]; other site 1239934001140 RPB12 interaction site [polypeptide binding]; other site 1239934001141 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 1239934001142 core dimer interface [polypeptide binding]; other site 1239934001143 peripheral dimer interface [polypeptide binding]; other site 1239934001144 L10 interface [polypeptide binding]; other site 1239934001145 L11 interface [polypeptide binding]; other site 1239934001146 putative EF-Tu interaction site [polypeptide binding]; other site 1239934001147 putative EF-G interaction site [polypeptide binding]; other site 1239934001148 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 1239934001149 23S rRNA interface [nucleotide binding]; other site 1239934001150 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1239934001151 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 1239934001152 mRNA/rRNA interface [nucleotide binding]; other site 1239934001153 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; cl08257 1239934001154 23S rRNA interface [nucleotide binding]; other site 1239934001155 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; cl08257 1239934001156 L7/L12 interface [polypeptide binding]; other site 1239934001157 putative thiostrepton binding site; other site 1239934001158 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 1239934001159 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1239934001160 putative homodimer interface [polypeptide binding]; other site 1239934001161 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1239934001162 heterodimer interface [polypeptide binding]; other site 1239934001163 homodimer interface [polypeptide binding]; other site 1239934001164 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 1239934001165 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1239934001166 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1239934001167 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1239934001168 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1239934001169 prolyl-tRNA synthetase; Provisional; Region: PRK08661 1239934001170 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_arch_euk; cd00778 1239934001171 dimer interface [polypeptide binding]; other site 1239934001172 motif 1; other site 1239934001173 active site 1239934001174 motif 2; other site 1239934001175 motif 3; other site 1239934001176 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 1239934001177 anticodon binding site; other site 1239934001178 zinc-binding site [ion binding]; other site 1239934001179 Predicted secreted protein [Function unknown]; Region: COG5497 1239934001180 Protein of unknown function (DUF3996); Region: DUF3996; pfam13161 1239934001181 Protein of unknown function (DUF3996); Region: DUF3996; pfam13161 1239934001182 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1239934001183 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1239934001184 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1239934001185 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1239934001186 active site 1239934001187 phosphorylation site [posttranslational modification] 1239934001188 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1239934001189 active site 1239934001190 P-loop; other site 1239934001191 phosphorylation site [posttranslational modification] 1239934001192 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 1239934001193 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1239934001194 active site 1239934001195 substrate binding site [chemical binding]; other site 1239934001196 Mg2+ binding site [ion binding]; other site 1239934001197 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 1239934001198 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 1239934001199 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1239934001200 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1239934001201 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1239934001202 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1239934001203 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 1239934001204 active site 1239934001205 phosphorylation site [posttranslational modification] 1239934001206 intermolecular recognition site; other site 1239934001207 CheB methylesterase; Region: CheB_methylest; pfam01339 1239934001208 TraB family; Region: TraB; cl12050 1239934001209 adenylate kinase; Provisional; Region: PRK14526 1239934001210 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 1239934001211 AMP-binding site [chemical binding]; other site 1239934001212 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1239934001213 Response regulator receiver domain; Region: Response_reg; pfam00072 1239934001214 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 1239934001215 active site 1239934001216 phosphorylation site [posttranslational modification] 1239934001217 intermolecular recognition site; other site 1239934001218 dimerization interface [polypeptide binding]; other site 1239934001219 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1239934001220 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1239934001221 metal binding site [ion binding]; metal-binding site 1239934001222 active site 1239934001223 I-site; other site 1239934001224 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 1239934001225 substrate binding pocket [chemical binding]; other site 1239934001226 membrane-bound complex binding site; other site 1239934001227 hinge residues; other site 1239934001228 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 1239934001229 dimer interface [polypeptide binding]; other site 1239934001230 phosphorylation site [posttranslational modification] 1239934001231 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 1239934001232 ATP binding site [chemical binding]; other site 1239934001233 Mg2+ binding site [ion binding]; other site 1239934001234 G-X-G motif; other site 1239934001235 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1239934001236 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 1239934001237 active site 1239934001238 phosphorylation site [posttranslational modification] 1239934001239 intermolecular recognition site; other site 1239934001240 dimerization interface [polypeptide binding]; other site 1239934001241 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 1239934001242 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1239934001243 active site 1239934001244 motif I; other site 1239934001245 motif II; other site 1239934001246 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1239934001247 active site 1239934001248 DNA binding site [nucleotide binding] 1239934001249 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1239934001250 Predicted methyltransferases [General function prediction only]; Region: COG0313 1239934001251 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1239934001252 putative SAM binding site [chemical binding]; other site 1239934001253 putative homodimer interface [polypeptide binding]; other site 1239934001254 Domain of unknown function (DUF1893); Region: TM1506; pfam08973 1239934001255 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 1239934001256 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1239934001257 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1239934001258 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 1239934001259 P-loop; other site 1239934001260 Magnesium ion binding site [ion binding]; other site 1239934001261 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1239934001262 ParB-like nuclease domain; Region: ParB; smart00470 1239934001263 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1239934001264 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; cl00148 1239934001265 primary dimer interface [polypeptide binding]; other site 1239934001266 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1239934001267 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1239934001268 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1239934001269 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1239934001270 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1239934001271 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; cl00148 1239934001272 CAP-like domain; other site 1239934001273 active site 1239934001274 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1239934001275 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 1239934001276 ATP binding site [chemical binding]; other site 1239934001277 Mg2+ binding site [ion binding]; other site 1239934001278 G-X-G motif; other site 1239934001279 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 1239934001280 anchoring element; other site 1239934001281 dimer interface [polypeptide binding]; other site 1239934001282 ATP binding site [chemical binding]; other site 1239934001283 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 1239934001284 active site 1239934001285 putative metal-binding site [ion binding]; other site 1239934001286 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1239934001287 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1239934001288 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 1239934001289 Walker A motif; other site 1239934001290 ATP binding site [chemical binding]; other site 1239934001291 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 1239934001292 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 1239934001293 DnaA box-binding interface [nucleotide binding]; other site 1239934001294 DNA polymerase III beta subunit, N-terminal domain; Region: DNA_pol3_beta; pfam00712 1239934001295 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 1239934001296 beta-clamp/clamp loader binding surface; other site 1239934001297 beta-clamp/translesion DNA polymerase binding surface; other site 1239934001298 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1239934001299 Ribonuclease P; Region: Ribonuclease_P; cl00457 1239934001300 membrane protein insertase; Provisional; Region: PRK01318 1239934001301 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1239934001302 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1239934001303 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 1239934001304 G-X-X-G motif; other site 1239934001305 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 1239934001306 RxxxH motif; other site 1239934001307 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1239934001308 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1239934001309 putative NAD(P) binding site [chemical binding]; other site 1239934001310 active site 1239934001311 putative substrate binding site [chemical binding]; other site 1239934001312 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1239934001313 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 1239934001314 active site 1239934001315 intersubunit interface [polypeptide binding]; other site 1239934001316 zinc binding site [ion binding]; other site 1239934001317 Na+ binding site [ion binding]; other site 1239934001318 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1239934001319 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 1239934001320 dimer interface [polypeptide binding]; other site 1239934001321 anticodon binding site; other site 1239934001322 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 1239934001323 homodimer interface [polypeptide binding]; other site 1239934001324 motif 1; other site 1239934001325 active site 1239934001326 motif 2; other site 1239934001327 GAD domain; Region: GAD; pfam02938 1239934001328 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 1239934001329 active site 1239934001330 motif 3; other site 1239934001331 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1239934001332 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1239934001333 Sexual stage antigen s48/45 domain; Region: s48_45; smart00970 1239934001334 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1239934001335 active site 1239934001336 phosphorylation site [posttranslational modification] 1239934001337 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1239934001338 dimerization domain swap beta strand [polypeptide binding]; other site 1239934001339 regulatory protein interface [polypeptide binding]; other site 1239934001340 active site 1239934001341 regulatory phosphorylation site [posttranslational modification]; other site 1239934001342 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 1239934001343 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 1239934001344 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1239934001345 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1239934001346 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1239934001347 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1239934001348 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1239934001349 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1239934001350 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 1239934001351 putative ADP-binding pocket [chemical binding]; other site 1239934001352 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 1239934001353 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1239934001354 GIY-YIG motif/motif A; other site 1239934001355 active site 1239934001356 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14670 1239934001357 catalytic site [active] 1239934001358 putative DNA binding site [nucleotide binding]; other site 1239934001359 metal binding site [ion binding]; metal-binding site 1239934001360 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1239934001361 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1239934001362 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 1239934001363 Interdomain contacts; other site 1239934001364 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 1239934001365 binding surface 1239934001366 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1239934001367 TPR motif; other site 1239934001368 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06647 1239934001369 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 1239934001370 Walker A motif; other site 1239934001371 ATP binding site [chemical binding]; other site 1239934001372 Walker B motif; other site 1239934001373 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1239934001374 arginine finger; other site 1239934001375 hypothetical protein; Provisional; Region: PRK14629 1239934001376 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 1239934001377 active site 1239934001378 multimer interface [polypeptide binding]; other site 1239934001379 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1239934001380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 1239934001381 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1239934001382 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1239934001383 Walker A/P-loop; other site 1239934001384 ATP binding site [chemical binding]; other site 1239934001385 Q-loop/lid; other site 1239934001386 ABC transporter signature motif; other site 1239934001387 Walker B; other site 1239934001388 D-loop; other site 1239934001389 H-loop/switch region; other site 1239934001390 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1239934001391 uncharacterized protein, YfiH family; Region: TIGR00726 1239934001392 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1239934001393 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 1239934001394 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1239934001395 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1239934001396 active site 1239934001397 metal binding site [ion binding]; metal-binding site 1239934001398 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1239934001399 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1239934001400 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 1239934001401 hinge; other site 1239934001402 active site 1239934001403 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1239934001404 putative efflux protein, MATE family; Region: matE; TIGR00797 1239934001405 elongation factor Tu; Reviewed; Region: PRK00049 1239934001406 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1239934001407 G1 box; other site 1239934001408 GEF interaction site [polypeptide binding]; other site 1239934001409 GTP/Mg2+ binding site [chemical binding]; other site 1239934001410 Switch I region; other site 1239934001411 G2 box; other site 1239934001412 G3 box; other site 1239934001413 Switch II region; other site 1239934001414 G4 box; other site 1239934001415 G5 box; other site 1239934001416 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 1239934001417 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 1239934001418 Antibiotic Binding Site [chemical binding]; other site 1239934001419 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1239934001420 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1239934001421 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1239934001422 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1239934001423 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1239934001424 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1239934001425 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1239934001426 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1239934001427 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 1239934001428 putative translocon binding site; other site 1239934001429 protein-rRNA interface [nucleotide binding]; other site 1239934001430 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1239934001431 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 1239934001432 G-X-X-G motif; other site 1239934001433 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1239934001434 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 1239934001435 23S rRNA interface [nucleotide binding]; other site 1239934001436 5S rRNA interface [nucleotide binding]; other site 1239934001437 putative antibiotic binding site [chemical binding]; other site 1239934001438 L25 interface [polypeptide binding]; other site 1239934001439 L27 interface [polypeptide binding]; other site 1239934001440 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 1239934001441 23S rRNA interface [nucleotide binding]; other site 1239934001442 putative translocon interaction site; other site 1239934001443 signal recognition particle (SRP54) interaction site; other site 1239934001444 L23 interface [polypeptide binding]; other site 1239934001445 trigger factor interaction site; other site 1239934001446 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1239934001447 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1239934001448 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1239934001449 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1239934001450 RNA binding site [nucleotide binding]; other site 1239934001451 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1239934001452 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1239934001453 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1239934001454 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1239934001455 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1239934001456 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1239934001457 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1239934001458 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 1239934001459 5S rRNA interface [nucleotide binding]; other site 1239934001460 23S rRNA interface [nucleotide binding]; other site 1239934001461 L5 interface [polypeptide binding]; other site 1239934001462 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1239934001463 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1239934001464 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1239934001465 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30_like; cl00203 1239934001466 ribosomal protein L15, bacterial/organelle; Region: rplO_bact; TIGR01071 1239934001467 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1239934001468 SecY translocase; Region: SecY; pfam00344 1239934001469 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1239934001470 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1239934001471 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1239934001472 30S ribosomal protein S11; Validated; Region: PRK05309 1239934001473 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1239934001474 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1239934001475 alphaNTD homodimer interface [polypeptide binding]; other site 1239934001476 alphaNTD - beta interaction site [polypeptide binding]; other site 1239934001477 alphaNTD - beta' interaction site [polypeptide binding]; other site 1239934001478 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1239934001479 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1239934001480 phosphodiesterase; Provisional; Region: PRK12704 1239934001481 KH domain; Region: KH_1; pfam00013 1239934001482 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1239934001483 Zn2+ binding site [ion binding]; other site 1239934001484 Mg2+ binding site [ion binding]; other site 1239934001485 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1239934001486 active site 1239934001487 metal binding site [ion binding]; metal-binding site 1239934001488 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1239934001489 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1239934001490 Spore germination protein [General function prediction only]; Region: COG5401 1239934001491 Sporulation and spore germination; Region: Germane; smart00909 1239934001492 GTP-binding protein Der; Reviewed; Region: PRK00093 1239934001493 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1239934001494 G1 box; other site 1239934001495 GTP/Mg2+ binding site [chemical binding]; other site 1239934001496 Switch I region; other site 1239934001497 G2 box; other site 1239934001498 Switch II region; other site 1239934001499 G3 box; other site 1239934001500 G4 box; other site 1239934001501 G5 box; other site 1239934001502 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1239934001503 G1 box; other site 1239934001504 GTP/Mg2+ binding site [chemical binding]; other site 1239934001505 Switch I region; other site 1239934001506 G2 box; other site 1239934001507 G3 box; other site 1239934001508 Switch II region; other site 1239934001509 G4 box; other site 1239934001510 GTP-binding protein Der; Reviewed; Region: PRK00093 1239934001511 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1239934001512 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 1239934001513 motif II; other site 1239934001514 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1239934001515 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 1239934001516 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 1239934001517 dimer interface [polypeptide binding]; other site 1239934001518 motif 1; other site 1239934001519 active site 1239934001520 motif 2; other site 1239934001521 motif 3; other site 1239934001522 phenylalanyl-tRNA synthetase, beta subunit; Region: pheT_arch; TIGR00471 1239934001523 tRNA synthetase B5 domain; Region: B5; pfam03484 1239934001524 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 1239934001525 dimer interface [polypeptide binding]; other site 1239934001526 motif 1; other site 1239934001527 motif 3; other site 1239934001528 motif 2; other site 1239934001529 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1239934001530 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1239934001531 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1239934001532 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1239934001533 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1239934001534 chaperone protein DnaJ; Provisional; Region: PRK14285 1239934001535 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 1239934001536 HSP70 interaction site [polypeptide binding]; other site 1239934001537 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1239934001538 Zn binding sites [ion binding]; other site 1239934001539 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1239934001540 dimer interface [polypeptide binding]; other site 1239934001541 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1239934001542 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1239934001543 nucleotide binding site [chemical binding]; other site 1239934001544 NEF interaction site [polypeptide binding]; other site 1239934001545 SBD interface [polypeptide binding]; other site 1239934001546 GrpE; Region: GrpE; pfam01025 1239934001547 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 1239934001548 dimer interface [polypeptide binding]; other site 1239934001549 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1239934001550 NAD synthetase; Provisional; Region: PRK13981 1239934001551 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1239934001552 active site 1239934001553 catalytic triad [active] 1239934001554 dimer interface [polypeptide binding]; other site 1239934001555 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 1239934001556 homodimer interface [polypeptide binding]; other site 1239934001557 NAD binding pocket [chemical binding]; other site 1239934001558 ATP binding pocket [chemical binding]; other site 1239934001559 Mg binding site [ion binding]; other site 1239934001560 active-site loop [active] 1239934001561 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1239934001562 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1239934001563 active site 1239934001564 pantothenate kinase; Reviewed; Region: PRK13326 1239934001565 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1239934001566 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1239934001567 active site 1239934001568 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1239934001569 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1239934001570 catalytic tetrad [active] 1239934001571 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 1239934001572 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1239934001573 putative hydrolase; Provisional; Region: PRK02113 1239934001574 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1239934001575 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 1239934001576 active site 1239934001577 putative catalytic site [active] 1239934001578 phosphate binding site A [ion binding]; other site 1239934001579 DNA binding site [nucleotide binding] 1239934001580 metal binding site A [ion binding]; metal-binding site 1239934001581 putative AP binding site [nucleotide binding]; other site 1239934001582 putative metal binding site B [ion binding]; other site 1239934001583 phosphate binding site B [ion binding]; other site 1239934001584 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1239934001585 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1239934001586 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1239934001587 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1239934001588 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 1239934001589 binding surface 1239934001590 TPR motif; other site 1239934001591 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 1239934001592 binding surface 1239934001593 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1239934001594 TPR motif; other site 1239934001595 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1239934001596 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1239934001597 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1239934001598 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1239934001599 translation elongation factor EF-G; Region: EF-G; TIGR00484 1239934001600 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1239934001601 G1 box; other site 1239934001602 putative GEF interaction site [polypeptide binding]; other site 1239934001603 GTP/Mg2+ binding site [chemical binding]; other site 1239934001604 Switch I region; other site 1239934001605 G2 box; other site 1239934001606 G3 box; other site 1239934001607 Switch II region; other site 1239934001608 G4 box; other site 1239934001609 G5 box; other site 1239934001610 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 1239934001611 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 1239934001612 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_C; cd04097 1239934001613 KTSC domain; Region: KTSC; pfam13619 1239934001614 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 1239934001615 binding surface 1239934001616 TPR motif; other site 1239934001617 TPR repeat; Region: TPR_11; pfam13414 1239934001618 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 1239934001619 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1239934001620 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1239934001621 active site 1239934001622 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1239934001623 nucleotide binding site [chemical binding]; other site 1239934001624 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1239934001625 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1239934001626 nucleotide binding site [chemical binding]; other site 1239934001627 Sporulation related domain; Region: SPOR; pfam05036 1239934001628 dephospho-CoA kinase; Region: TIGR00152 1239934001629 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 1239934001630 CoA-binding site [chemical binding]; other site 1239934001631 ATP-binding [chemical binding]; other site 1239934001632 DNA polymerase I; Region: pola; TIGR00593 1239934001633 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1239934001634 active site 1239934001635 putative 5' ssDNA interaction site; other site 1239934001636 metal binding site 3; metal-binding site 1239934001637 metal binding site 1 [ion binding]; metal-binding site 1239934001638 metal binding site 2 [ion binding]; metal-binding site 1239934001639 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1239934001640 putative DNA binding site [nucleotide binding]; other site 1239934001641 putative metal binding site [ion binding]; other site 1239934001642 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 1239934001643 active site 1239934001644 catalytic site [active] 1239934001645 substrate binding site [chemical binding]; other site 1239934001646 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1239934001647 active site 1239934001648 DNA binding site [nucleotide binding] 1239934001649 catalytic site [active] 1239934001650 Flagellar protein FliS; Region: FliS; cl00654 1239934001651 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1239934001652 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 1239934001653 active site 1239934001654 phosphorylation site [posttranslational modification] 1239934001655 intermolecular recognition site; other site 1239934001656 dimerization interface [polypeptide binding]; other site 1239934001657 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; cl03295 1239934001658 nucleotide binding pocket [chemical binding]; other site 1239934001659 K-X-D-G motif; other site 1239934001660 catalytic site [active] 1239934001661 NAD-dependent DNA ligase LigA; Provisional; Region: ligA; PRK14350 1239934001662 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1239934001663 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1239934001664 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 1239934001665 Dimer interface [polypeptide binding]; other site 1239934001666 BRCT sequence motif; other site 1239934001667 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1239934001668 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1239934001669 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1239934001670 dimerization domain swap beta strand [polypeptide binding]; other site 1239934001671 regulatory protein interface [polypeptide binding]; other site 1239934001672 active site 1239934001673 regulatory phosphorylation site [posttranslational modification]; other site 1239934001674 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1239934001675 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1239934001676 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1239934001677 phosphoenolpyruvate-protein phosphotransferase; Region: PTS_I_fam; TIGR01417 1239934001678 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 1239934001679 HPr interaction site; other site 1239934001680 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1239934001681 active site 1239934001682 phosphorylation site [posttranslational modification] 1239934001683 heat shock protein 90; Provisional; Region: PRK05218 1239934001684 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 1239934001685 ATP binding site [chemical binding]; other site 1239934001686 Mg2+ binding site [ion binding]; other site 1239934001687 G-X-G motif; other site 1239934001688 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1239934001689 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 1239934001690 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1239934001691 Protein of unknown function (DUF3996); Region: DUF3996; pfam13161 1239934001692 Protein of unknown function (DUF3996); Region: DUF3996; pfam13161 1239934001693 Protein of unknown function (DUF3996); Region: DUF3996; pfam13161 1239934001694 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 1239934001695 putative CheA interaction surface; other site 1239934001696 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 1239934001697 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1239934001698 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 1239934001699 putative binding surface; other site 1239934001700 active site 1239934001701 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1239934001702 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 1239934001703 ATP binding site [chemical binding]; other site 1239934001704 Mg2+ binding site [ion binding]; other site 1239934001705 G-X-G motif; other site 1239934001706 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 1239934001707 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1239934001708 CheB methylesterase; Region: CheB_methylest; pfam01339 1239934001709 Response regulator receiver domain; Region: Response_reg; pfam00072 1239934001710 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 1239934001711 active site 1239934001712 phosphorylation site [posttranslational modification] 1239934001713 intermolecular recognition site; other site 1239934001714 dimerization interface [polypeptide binding]; other site 1239934001715 AAK_UMPK-PyrH-Pf: UMP kinase (UMPK)-Pf, the mostly archaeal uridine monophosphate kinase (uridylate kinase) enzymes that catalyze UMP phosphorylation and play a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back...; Region: AAK_UMPK-PyrH-Pf; cd04253 1239934001716 nucleotide binding site [chemical binding]; other site 1239934001717 homodimeric interface [polypeptide binding]; other site 1239934001718 uridine monophosphate binding site [chemical binding]; other site 1239934001719 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1239934001720 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 1239934001721 active site 1239934001722 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1239934001723 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1239934001724 Walker A/P-loop; other site 1239934001725 ATP binding site [chemical binding]; other site 1239934001726 Q-loop/lid; other site 1239934001727 ABC transporter signature motif; other site 1239934001728 Walker B; other site 1239934001729 D-loop; other site 1239934001730 H-loop/switch region; other site 1239934001731 CTP synthase; Region: PyrG; TIGR00337 1239934001732 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 1239934001733 Catalytic site [active] 1239934001734 active site 1239934001735 UTP binding site [chemical binding]; other site 1239934001736 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1239934001737 active site 1239934001738 putative oxyanion hole; other site 1239934001739 catalytic triad [active] 1239934001740 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1239934001741 putative CheW interface [polypeptide binding]; other site 1239934001742 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1239934001743 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1239934001744 active site 1239934001745 PHP Thumb interface [polypeptide binding]; other site 1239934001746 metal binding site [ion binding]; metal-binding site 1239934001747 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 1239934001748 generic binding surface I; other site 1239934001749 generic binding surface II; other site 1239934001750 YGGT family; Region: YGGT; pfam02325 1239934001751 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 1239934001752 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 1239934001753 ATP binding site [chemical binding]; other site 1239934001754 putative Mg++ binding site [ion binding]; other site 1239934001755 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 1239934001756 nucleotide binding region [chemical binding]; other site 1239934001757 ATP-binding site [chemical binding]; other site 1239934001758 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1239934001759 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1239934001760 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1239934001761 putative efflux protein, MATE family; Region: matE; TIGR00797 1239934001762 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1239934001763 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1239934001764 UDP-N-acetylmuramoylalanine--D-glutamate ligase; Region: murD; TIGR01087 1239934001765 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1239934001766 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 1239934001767 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1239934001768 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1239934001769 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1239934001770 active site 1239934001771 HIGH motif; other site 1239934001772 KMSKS motif; other site 1239934001773 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1239934001774 tRNA binding surface [nucleotide binding]; other site 1239934001775 anticodon binding site; other site 1239934001776 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cd02153 1239934001777 putative tRNA-binding site [nucleotide binding]; other site 1239934001778 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1239934001779 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1239934001780 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1239934001781 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1239934001782 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 1239934001783 S-adenosylmethionine binding site [chemical binding]; other site 1239934001784 Competence protein; Region: Competence; cl00471 1239934001785 CAAX protease self-immunity; Region: Abi; pfam02517 1239934001786 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1239934001787 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1239934001788 acyl-activating enzyme (AAE) consensus motif; other site 1239934001789 AMP binding site [chemical binding]; other site 1239934001790 active site 1239934001791 CoA binding site [chemical binding]; other site 1239934001792 arginyl-tRNA synthetase; Region: argS; TIGR00456 1239934001793 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1239934001794 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1239934001795 active site 1239934001796 HIGH motif; other site 1239934001797 KMSK motif region; other site 1239934001798 tRNA binding surface [nucleotide binding]; other site 1239934001799 DALR anticodon binding domain; Region: DALR_1; smart00836 1239934001800 anticodon binding site; other site 1239934001801 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1239934001802 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1239934001803 dimer interface [polypeptide binding]; other site 1239934001804 putative CheW interface [polypeptide binding]; other site 1239934001805 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1239934001806 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1239934001807 putative CheW interface [polypeptide binding]; other site 1239934001808 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1239934001809 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14534 1239934001810 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1239934001811 active site 1239934001812 HIGH motif; other site 1239934001813 nucleotide binding site [chemical binding]; other site 1239934001814 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1239934001815 KMSKS motif; other site 1239934001816 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1239934001817 tRNA binding surface [nucleotide binding]; other site 1239934001818 anticodon binding site; other site 1239934001819 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 1239934001820 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1239934001821 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 1239934001822 dimer interface [polypeptide binding]; other site 1239934001823 active site 1239934001824 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1239934001825 folate binding site [chemical binding]; other site 1239934001826 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 1239934001827 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 1239934001828 HSP70 interaction site [polypeptide binding]; other site 1239934001829 Borrelia burgdorferi attachment protein P66; Region: Attachment_P66; pfam11263 1239934001830 L-lactate permease; Region: Lactate_perm; cl00701 1239934001831 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1239934001832 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1239934001833 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1239934001834 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1239934001835 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13494 1239934001836 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1239934001837 Part of AAA domain; Region: AAA_19; pfam13245 1239934001838 Family description; Region: UvrD_C_2; pfam13538 1239934001839 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1239934001840 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1239934001841 metal binding site [ion binding]; metal-binding site 1239934001842 dimer interface [polypeptide binding]; other site 1239934001843 trigger factor; Provisional; Region: tig; PRK01490 1239934001844 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1239934001845 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1239934001846 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1239934001847 oligomer interface [polypeptide binding]; other site 1239934001848 active site residues [active] 1239934001849 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1239934001850 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1239934001851 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 1239934001852 Walker A motif; other site 1239934001853 ATP binding site [chemical binding]; other site 1239934001854 Walker B motif; other site 1239934001855 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1239934001856 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1239934001857 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 1239934001858 Walker A motif; other site 1239934001859 ATP binding site [chemical binding]; other site 1239934001860 Walker B motif; other site 1239934001861 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1239934001862 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1239934001863 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1239934001864 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 1239934001865 RNA binding surface [nucleotide binding]; other site 1239934001866 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1239934001867 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1239934001868 Cation efflux family; Region: Cation_efflux; pfam01545 1239934001869 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1239934001870 active site 1239934001871 catalytic motif [active] 1239934001872 Zn binding site [ion binding]; other site 1239934001873 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1239934001874 DHH family; Region: DHH; pfam01368 1239934001875 DHHA1 domain; Region: DHHA1; pfam02272 1239934001876 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1239934001877 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1239934001878 DJ-1 family protein; Region: not_thiJ; TIGR01383 1239934001879 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1239934001880 conserved cys residue [active] 1239934001881 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1239934001882 propionate/acetate kinase; Provisional; Region: PRK12379 1239934001883 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 1239934001884 putative Mg++ binding site [ion binding]; other site 1239934001885 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 1239934001886 nucleotide binding region [chemical binding]; other site 1239934001887 ATP-binding site [chemical binding]; other site 1239934001888 TRCF domain; Region: TRCF; pfam03461 1239934001889 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 1239934001890 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1239934001891 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1239934001892 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1239934001893 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1239934001894 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1239934001895 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1239934001896 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 1239934001897 active site 1239934001898 metal binding site [ion binding]; metal-binding site 1239934001899 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1239934001900 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 1239934001901 putative active site [active] 1239934001902 putative metal binding site [ion binding]; other site 1239934001903 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1239934001904 M18 Peptidase aminopeptidase family; Region: M18; cd05639 1239934001905 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1239934001906 active site 1239934001907 metal binding site [ion binding]; metal-binding site 1239934001908 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1239934001909 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1239934001910 active site 1239934001911 phosphorylation site [posttranslational modification] 1239934001912 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1239934001913 active site 1239934001914 P-loop; other site 1239934001915 phosphorylation site [posttranslational modification] 1239934001916 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 1239934001917 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1239934001918 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1239934001919 putative substrate binding site [chemical binding]; other site 1239934001920 putative ATP binding site [chemical binding]; other site 1239934001921 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1239934001922 AAA domain; Region: AAA_30; pfam13604 1239934001923 Family description; Region: UvrD_C_2; pfam13538 1239934001924 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1239934001925 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 1239934001926 Part of AAA domain; Region: AAA_19; pfam13245 1239934001927 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 1239934001928 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1239934001929 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 1239934001930 active site 1239934001931 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1239934001932 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1239934001933 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1239934001934 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1239934001935 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 1239934001936 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1239934001937 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1239934001938 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1239934001939 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1239934001940 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 1239934001941 dimer interface [polypeptide binding]; other site 1239934001942 conserved gate region; other site 1239934001943 putative PBP binding loops; other site 1239934001944 ABC-ATPase subunit interface; other site 1239934001945 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 1239934001946 dimer interface [polypeptide binding]; other site 1239934001947 conserved gate region; other site 1239934001948 putative PBP binding loops; other site 1239934001949 ABC-ATPase subunit interface; other site 1239934001950 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1239934001951 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1239934001952 Walker A/P-loop; other site 1239934001953 ATP binding site [chemical binding]; other site 1239934001954 Q-loop/lid; other site 1239934001955 ABC transporter signature motif; other site 1239934001956 Walker B; other site 1239934001957 D-loop; other site 1239934001958 H-loop/switch region; other site 1239934001959 TOBE domain; Region: TOBE_2; pfam08402 1239934001960 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1239934001961 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1239934001962 GTP/Mg2+ binding site [chemical binding]; other site 1239934001963 G4 box; other site 1239934001964 G5 box; other site 1239934001965 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 1239934001966 G1 box; other site 1239934001967 Switch I region; other site 1239934001968 G2 box; other site 1239934001969 G3 box; other site 1239934001970 Switch II region; other site 1239934001971 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1239934001972 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1239934001973 putative active site cavity [active] 1239934001974 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1239934001975 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1239934001976 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1239934001977 active site turn [active] 1239934001978 phosphorylation site [posttranslational modification] 1239934001979 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1239934001980 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1239934001981 metal binding site 2 [ion binding]; metal-binding site 1239934001982 putative DNA binding helix; other site 1239934001983 metal binding site 1 [ion binding]; metal-binding site 1239934001984 structural Zn2+ binding site [ion binding]; other site 1239934001985 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1239934001986 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 1239934001987 ring oligomerisation interface [polypeptide binding]; other site 1239934001988 ATP/Mg binding site [chemical binding]; other site 1239934001989 stacking interactions; other site 1239934001990 hinge regions; other site 1239934001991 Preprotein translocase subunit; Region: YajC; cl00806 1239934001992 protein-export membrane protein SecD; Region: secD; TIGR01129 1239934001993 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1239934001994 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1239934001995 Protein export membrane protein; Region: SecD_SecF; pfam02355 1239934001996 chaperone protein DnaJ; Provisional; Region: PRK14299 1239934001997 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 1239934001998 HSP70 interaction site [polypeptide binding]; other site 1239934001999 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1239934002000 substrate binding site [polypeptide binding]; other site 1239934002001 dimer interface [polypeptide binding]; other site 1239934002002 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 1239934002003 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 1239934002004 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1239934002005 active site 1239934002006 dimer interface [polypeptide binding]; other site 1239934002007 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 1239934002008 catalytic core [active] 1239934002009 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 1239934002010 lysyl-tRNA synthetase, archaeal and spirochete; Region: lysS_arch; TIGR00467 1239934002011 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1239934002012 active site 1239934002013 KMSKS motif; other site 1239934002014 GTPase Era; Reviewed; Region: era; PRK00089 1239934002015 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1239934002016 G1 box; other site 1239934002017 GTP/Mg2+ binding site [chemical binding]; other site 1239934002018 Switch I region; other site 1239934002019 G2 box; other site 1239934002020 Switch II region; other site 1239934002021 G3 box; other site 1239934002022 G4 box; other site 1239934002023 G5 box; other site 1239934002024 KH domain; Region: KH_2; pfam07650 1239934002025 Double zinc ribbon; Region: DZR; pfam12773 1239934002026 Uncharacterized conserved protein [Function unknown]; Region: COG1430 1239934002027 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 1239934002028 active site 1239934002029 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1239934002030 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 1239934002031 active site 1239934002032 metal binding site [ion binding]; metal-binding site 1239934002033 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 1239934002034 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1239934002035 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 1239934002036 putative binding surface; other site 1239934002037 active site 1239934002038 P2 response regulator binding domain; Region: P2; pfam07194 1239934002039 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1239934002040 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 1239934002041 ATP binding site [chemical binding]; other site 1239934002042 G-X-G motif; other site 1239934002043 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 1239934002044 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 1239934002045 putative CheA interaction surface; other site 1239934002046 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1239934002047 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1239934002048 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 1239934002049 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1239934002050 Response regulator receiver domain; Region: Response_reg; pfam00072 1239934002051 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 1239934002052 active site 1239934002053 phosphorylation site [posttranslational modification] 1239934002054 intermolecular recognition site; other site 1239934002055 dimerization interface [polypeptide binding]; other site 1239934002056 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1239934002057 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 1239934002058 motif II; other site 1239934002059 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1239934002060 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1239934002061 Walker A/P-loop; other site 1239934002062 ATP binding site [chemical binding]; other site 1239934002063 Q-loop/lid; other site 1239934002064 ABC transporter signature motif; other site 1239934002065 Walker B; other site 1239934002066 D-loop; other site 1239934002067 H-loop/switch region; other site 1239934002068 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1239934002069 Walker A/P-loop; other site 1239934002070 ATP binding site [chemical binding]; other site 1239934002071 Q-loop/lid; other site 1239934002072 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1239934002073 ABC transporter signature motif; other site 1239934002074 Walker B; other site 1239934002075 D-loop; other site 1239934002076 H-loop/switch region; other site 1239934002077 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1239934002078 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1239934002079 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1239934002080 TM-ABC transporter signature motif; other site 1239934002081 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1239934002082 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1239934002083 TM-ABC transporter signature motif; other site 1239934002084 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1239934002085 dimer interface [polypeptide binding]; other site 1239934002086 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1239934002087 putative CheW interface [polypeptide binding]; other site 1239934002088 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1239934002089 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1239934002090 dimer interface [polypeptide binding]; other site 1239934002091 putative CheW interface [polypeptide binding]; other site 1239934002092 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 1239934002093 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 1239934002094 Ligand Binding Site [chemical binding]; other site 1239934002095 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1239934002096 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1239934002097 active site 1239934002098 isopentenyl-diphosphate delta-isomerase, type 2; Region: IPP_isom_2; TIGR02151 1239934002099 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 1239934002100 homotetramer interface [polypeptide binding]; other site 1239934002101 FMN binding site [chemical binding]; other site 1239934002102 homodimer contacts [polypeptide binding]; other site 1239934002103 putative active site [active] 1239934002104 putative substrate binding site [chemical binding]; other site 1239934002105 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1239934002106 homodimer interface [polypeptide binding]; other site 1239934002107 catalytic residues [active] 1239934002108 NAD binding site [chemical binding]; other site 1239934002109 substrate binding pocket [chemical binding]; other site 1239934002110 flexible flap; other site 1239934002111 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 1239934002112 diphosphomevalonate decarboxylase; Region: PLN02407 1239934002113 Phosphomevalonate kinase [Lipid metabolism]; Region: ERG8; COG3890 1239934002114 mevalonate kinase; Region: mevalon_kin; TIGR00549 1239934002115 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1239934002116 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1239934002117 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1239934002118 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1239934002119 DPS ferroxidase diiron center [ion binding]; other site 1239934002120 dimerization interface [polypeptide binding]; other site 1239934002121 ion pore; other site 1239934002122 elongation factor G; Reviewed; Region: PRK13351 1239934002123 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1239934002124 G1 box; other site 1239934002125 putative GEF interaction site [polypeptide binding]; other site 1239934002126 GTP/Mg2+ binding site [chemical binding]; other site 1239934002127 Switch I region; other site 1239934002128 G2 box; other site 1239934002129 G3 box; other site 1239934002130 Switch II region; other site 1239934002131 G4 box; other site 1239934002132 G5 box; other site 1239934002133 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 1239934002134 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 1239934002135 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 1239934002136 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1239934002137 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1239934002138 signal recognition particle protein; Provisional; Region: PRK10867 1239934002139 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1239934002140 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 1239934002141 P loop; other site 1239934002142 GTP binding site [chemical binding]; other site 1239934002143 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1239934002144 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1239934002145 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1239934002146 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 1239934002147 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14594 1239934002148 RimM N-terminal domain; Region: RimM; pfam01782 1239934002149 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1239934002150 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1239934002151 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1239934002152 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1239934002153 active site 1239934002154 nucleotide binding site [chemical binding]; other site 1239934002155 HIGH motif; other site 1239934002156 KMSKS motif; other site 1239934002157 acyl carrier protein; Provisional; Region: acpP; PRK00982 1239934002158 ribonuclease III; Reviewed; Region: rnc; PRK00102 1239934002159 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 1239934002160 dimerization interface [polypeptide binding]; other site 1239934002161 active site 1239934002162 metal binding site [ion binding]; metal-binding site 1239934002163 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 1239934002164 dsRNA binding site [nucleotide binding]; other site 1239934002165 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1239934002166 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1239934002167 active site 1239934002168 NTP binding site [chemical binding]; other site 1239934002169 metal binding triad [ion binding]; metal-binding site 1239934002170 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1239934002171 conserved hypothetical protein, YceG family; Region: TIGR00247 1239934002172 YceG-like family; Region: YceG; pfam02618 1239934002173 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1239934002174 dimerization interface [polypeptide binding]; other site 1239934002175 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1239934002176 DNA primase, catalytic core; Region: dnaG; TIGR01391 1239934002177 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1239934002178 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 1239934002179 active site 1239934002180 metal binding site [ion binding]; metal-binding site 1239934002181 interdomain interaction site; other site 1239934002182 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1239934002183 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1239934002184 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1239934002185 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1239934002186 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1239934002187 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1239934002188 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 1239934002189 DNA binding residues [nucleotide binding] 1239934002190 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1239934002191 Putative zinc ribbon domain; Region: DUF164; pfam02591 1239934002192 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 1239934002193 binding surface 1239934002194 TPR repeat; Region: TPR_11; pfam13414 1239934002195 TPR motif; other site 1239934002196 cell shape determining protein, MreB/Mrl family; Region: mreB; TIGR00904 1239934002197 MreB and similar proteins; Region: MreB_like; cd10225 1239934002198 nucleotide binding site [chemical binding]; other site 1239934002199 Mg binding site [ion binding]; other site 1239934002200 putative protofilament interaction site [polypeptide binding]; other site 1239934002201 RodZ interaction site [polypeptide binding]; other site 1239934002202 rod shape-determining protein MreC; Region: mreC; TIGR00219 1239934002203 rod shape-determining protein MreC; Region: MreC; pfam04085 1239934002204 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1239934002205 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1239934002206 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1239934002207 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1239934002208 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1239934002209 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 1239934002210 dimer interface [polypeptide binding]; other site 1239934002211 motif 1; other site 1239934002212 active site 1239934002213 motif 2; other site 1239934002214 motif 3; other site 1239934002215 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 1239934002216 anticodon binding site; other site 1239934002217 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 1239934002218 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 1239934002219 putative active site [active] 1239934002220 putative metal binding residues [ion binding]; other site 1239934002221 signature motif; other site 1239934002222 putative triphosphate binding site [ion binding]; other site 1239934002223 dimer interface [polypeptide binding]; other site 1239934002224 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1239934002225 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1239934002226 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1239934002227 TrkA-N domain; Region: TrkA_N; pfam02254 1239934002228 TrkA-C domain; Region: TrkA_C; pfam02080 1239934002229 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1239934002230 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 1239934002231 P-loop; other site 1239934002232 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 1239934002233 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1239934002234 active site 1239934002235 ADP/pyrophosphate binding site [chemical binding]; other site 1239934002236 dimerization interface [polypeptide binding]; other site 1239934002237 allosteric effector site; other site 1239934002238 fructose-1,6-bisphosphate binding site; other site 1239934002239 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1239934002240 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1239934002241 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1239934002242 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1239934002243 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1239934002244 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 1239934002245 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 1239934002246 active site 1239934002247 dimer interface [polypeptide binding]; other site 1239934002248 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 1239934002249 dimer interface [polypeptide binding]; other site 1239934002250 active site 1239934002251 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1239934002252 ParB-like nuclease domain; Region: ParB; smart00470 1239934002253 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1239934002254 Transglycosylase; Region: Transgly; pfam00912 1239934002255 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1239934002256 tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family; Region: TIGR00057 1239934002257 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1239934002258 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1239934002259 rare lipoprotein A; Region: rlpA; TIGR00413 1239934002260 Sporulation related domain; Region: SPOR; pfam05036 1239934002261 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1239934002262 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 1239934002263 FMN binding site [chemical binding]; other site 1239934002264 active site 1239934002265 catalytic residues [active] 1239934002266 substrate binding site [chemical binding]; other site 1239934002267 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1239934002268 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1239934002269 active site 1239934002270 HIGH motif; other site 1239934002271 nucleotide binding site [chemical binding]; other site 1239934002272 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1239934002273 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1239934002274 active site 1239934002275 KMSKS motif; other site 1239934002276 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1239934002277 tRNA binding surface [nucleotide binding]; other site 1239934002278 anticodon binding site; other site 1239934002279 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1239934002280 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1239934002281 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 1239934002282 oligomerisation interface [polypeptide binding]; other site 1239934002283 mobile loop; other site 1239934002284 roof hairpin; other site 1239934002285 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1239934002286 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1239934002287 Walker A/P-loop; other site 1239934002288 ATP binding site [chemical binding]; other site 1239934002289 Q-loop/lid; other site 1239934002290 ABC transporter signature motif; other site 1239934002291 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1239934002292 Walker B; other site 1239934002293 D-loop; other site 1239934002294 H-loop/switch region; other site 1239934002295 ABC transporter; Region: ABC_tran_2; pfam12848 1239934002296 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1239934002297 FOG: WD40-like repeat [Function unknown]; Region: COG1520 1239934002298 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1239934002299 active site 1239934002300 Borrelia P83/100 protein; Region: Borrelia_P83; pfam05262 1239934002301 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1239934002302 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1239934002303 minor groove reading motif; other site 1239934002304 helix-hairpin-helix signature motif; other site 1239934002305 substrate binding pocket [chemical binding]; other site 1239934002306 active site 1239934002307 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1239934002308 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 1239934002309 ABC-ATPase subunit interface; other site 1239934002310 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1239934002311 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 1239934002312 ABC-ATPase subunit interface; other site 1239934002313 putative PBP binding loops; other site 1239934002314 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 1239934002315 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 1239934002316 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 1239934002317 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1239934002318 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1239934002319 Walker A/P-loop; other site 1239934002320 ATP binding site [chemical binding]; other site 1239934002321 Q-loop/lid; other site 1239934002322 ABC transporter signature motif; other site 1239934002323 Walker B; other site 1239934002324 D-loop; other site 1239934002325 H-loop/switch region; other site 1239934002326 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1239934002327 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1239934002328 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1239934002329 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1239934002330 ATP-dependent Clp protease proteolytic subunit; Provisional; Region: PRK14512 1239934002331 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1239934002332 oligomer interface [polypeptide binding]; other site 1239934002333 active site residues [active] 1239934002334 Domain of unknown function (DUF368); Region: DUF368; cl00893 1239934002335 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 1239934002336 putative metal binding site [ion binding]; other site 1239934002337 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1239934002338 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1239934002339 Peptidase family M23; Region: Peptidase_M23; pfam01551 1239934002340 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1239934002341 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 1239934002342 active site 1239934002343 phosphorylation site [posttranslational modification] 1239934002344 intermolecular recognition site; other site 1239934002345 dimerization interface [polypeptide binding]; other site 1239934002346 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 1239934002347 Walker A motif; other site 1239934002348 ATP binding site [chemical binding]; other site 1239934002349 Walker B motif; other site 1239934002350 arginine finger; other site 1239934002351 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1239934002352 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1239934002353 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 1239934002354 dimer interface [polypeptide binding]; other site 1239934002355 phosphorylation site [posttranslational modification] 1239934002356 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 1239934002357 ATP binding site [chemical binding]; other site 1239934002358 Mg2+ binding site [ion binding]; other site 1239934002359 G-X-G motif; other site 1239934002360 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1239934002361 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1239934002362 Colicin V production protein; Region: Colicin_V; pfam02674 1239934002363 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1239934002364 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 1239934002365 homodimer interface [polypeptide binding]; other site 1239934002366 active site 1239934002367 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1239934002368 pyridoxal binding site [chemical binding]; other site 1239934002369 dimer interface [polypeptide binding]; other site 1239934002370 ATP binding site [chemical binding]; other site 1239934002371 UGMP family protein; Validated; Region: PRK09604 1239934002372 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1239934002373 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1239934002374 putative active site [active] 1239934002375 Divergent polysaccharide deacetylase; Region: Polysacc_deac_2; cl17042 1239934002376 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1239934002377 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 1239934002378 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1239934002379 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 1239934002380 DNA binding residues [nucleotide binding] 1239934002381 Rod binding protein; Region: Rod-binding; cl01626 1239934002382 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1239934002383 SAF-like; Region: SAF_2; pfam13144 1239934002384 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12816 1239934002385 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1239934002386 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1239934002387 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 1239934002388 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1239934002389 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1239934002390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 1239934002391 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1239934002392 active site 1239934002393 ribosomal protein L21; Region: L21; TIGR00061 1239934002394 hypothetical protein; Provisional; Region: PRK14553 1239934002395 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1239934002396 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1239934002397 GTP1/OBG; Region: GTP1_OBG; pfam01018 1239934002398 Obg GTPase; Region: Obg; cd01898 1239934002399 G1 box; other site 1239934002400 GTP/Mg2+ binding site [chemical binding]; other site 1239934002401 Switch I region; other site 1239934002402 G2 box; other site 1239934002403 G3 box; other site 1239934002404 Switch II region; other site 1239934002405 G4 box; other site 1239934002406 G5 box; other site 1239934002407 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1239934002408 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 1239934002409 active site 1239934002410 (T/H)XGH motif; other site 1239934002411 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1239934002412 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 1239934002413 Oligomerisation domain; Region: Oligomerisation; cl00519 1239934002414 regulatory protein SpoVG; Reviewed; Region: PRK13259 1239934002415 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1239934002416 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 1239934002417 5S rRNA interface [nucleotide binding]; other site 1239934002418 CTC domain interface [polypeptide binding]; other site 1239934002419 L16 interface [polypeptide binding]; other site 1239934002420 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 1239934002421 putative active site [active] 1239934002422 catalytic residue [active] 1239934002423 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1239934002424 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 1239934002425 Ligand Binding Site [chemical binding]; other site 1239934002426 FtsH Extracellular; Region: FtsH_ext; pfam06480 1239934002427 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1239934002428 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 1239934002429 Walker A motif; other site 1239934002430 ATP binding site [chemical binding]; other site 1239934002431 Walker B motif; other site 1239934002432 arginine finger; other site 1239934002433 Peptidase family M41; Region: Peptidase_M41; pfam01434 1239934002434 Thymidine kinase [Nucleotide transport and metabolism]; Region: Tdk; COG1435 1239934002435 thymidylate kinase; Region: DTMP_kinase; TIGR00041 1239934002436 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 1239934002437 TMP-binding site; other site 1239934002438 ATP-binding site [chemical binding]; other site 1239934002439 Family of unknown function (DUF490); Region: DUF490; pfam04357 1239934002440 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1239934002441 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1239934002442 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1239934002443 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1239934002444 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1239934002445 Surface antigen; Region: Bac_surface_Ag; pfam01103 1239934002446 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1239934002447 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1239934002448 MutS domain I; Region: MutS_I; pfam01624 1239934002449 MutS domain II; Region: MutS_II; pfam05188 1239934002450 MutS domain III; Region: MutS_III; pfam05192 1239934002451 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1239934002452 Walker A/P-loop; other site 1239934002453 ATP binding site [chemical binding]; other site 1239934002454 Q-loop/lid; other site 1239934002455 ABC transporter signature motif; other site 1239934002456 Walker B; other site 1239934002457 D-loop; other site 1239934002458 H-loop/switch region; other site 1239934002459 comF family protein; Region: comF; TIGR00201 1239934002460 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1239934002461 active site 1239934002462 hypothetical protein; Provisional; Region: PRK14630 1239934002463 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 1239934002464 heptamer interface [polypeptide binding]; other site 1239934002465 Sm1 motif; other site 1239934002466 hexamer interface [polypeptide binding]; other site 1239934002467 RNA binding site [nucleotide binding]; other site 1239934002468 Sm2 motif; other site 1239934002469 transcription termination factor NusA; Region: NusA; TIGR01953 1239934002470 NusA N-terminal domain; Region: NusA_N; pfam08529 1239934002471 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 1239934002472 RNA binding site [nucleotide binding]; other site 1239934002473 homodimer interface [polypeptide binding]; other site 1239934002474 NusA-like KH domain; Region: KH_5; pfam13184 1239934002475 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 1239934002476 G-X-X-G motif; other site 1239934002477 Spt5 C-terminal nonapeptide repeat binding Spt4; Region: CTD; cl17750 1239934002478 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1239934002479 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1239934002480 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1239934002481 G1 box; other site 1239934002482 putative GEF interaction site [polypeptide binding]; other site 1239934002483 GTP/Mg2+ binding site [chemical binding]; other site 1239934002484 Switch I region; other site 1239934002485 G2 box; other site 1239934002486 G3 box; other site 1239934002487 Switch II region; other site 1239934002488 G4 box; other site 1239934002489 G5 box; other site 1239934002490 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 1239934002491 Translation-initiation factor 2; Region: IF-2; pfam11987 1239934002492 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 1239934002493 ribosome-binding factor A; Region: rbfA; TIGR00082 1239934002494 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 1239934002495 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1239934002496 RNA binding site [nucleotide binding]; other site 1239934002497 active site 1239934002498 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 1239934002499 16S/18S rRNA binding site [nucleotide binding]; other site 1239934002500 S13e-L30e interaction site [polypeptide binding]; other site 1239934002501 25S rRNA binding site [nucleotide binding]; other site 1239934002502 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1239934002503 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1239934002504 RNase E interface [polypeptide binding]; other site 1239934002505 trimer interface [polypeptide binding]; other site 1239934002506 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1239934002507 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1239934002508 RNase E interface [polypeptide binding]; other site 1239934002509 trimer interface [polypeptide binding]; other site 1239934002510 active site 1239934002511 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 1239934002512 putative nucleic acid binding region [nucleotide binding]; other site 1239934002513 G-X-X-G motif; other site 1239934002514 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 1239934002515 RNA binding site [nucleotide binding]; other site 1239934002516 Predicted permeases [General function prediction only]; Region: COG0795 1239934002517 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1239934002518 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1239934002519 Predicted permeases [General function prediction only]; Region: COG0795 1239934002520 tRNA-guanine transglycosylase, queuosine-34-forming; Region: Q_tRNA_tgt; TIGR00430 1239934002521 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1239934002522 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1239934002523 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1239934002524 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1239934002525 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 1239934002526 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 1239934002527 Flavoprotein; Region: Flavoprotein; pfam02441 1239934002528 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1239934002529 sodium/panthothenate symporter; Provisional; Region: panF; PRK09442 1239934002530 Na binding site [ion binding]; other site 1239934002531 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1239934002532 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1239934002533 active site 1239934002534 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 1239934002535 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1239934002536 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1239934002537 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1239934002538 TIGR00255 family protein; Region: TIGR00255 1239934002539 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1239934002540 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1239934002541 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG1102 1239934002542 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 1239934002543 CMP-binding site; other site 1239934002544 The sites determining sugar specificity; other site 1239934002545 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 1239934002546 tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional; Region: miaA; PRK14729 1239934002547 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 1239934002548 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1239934002549 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 1239934002550 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 1239934002551 ATP binding site [chemical binding]; other site 1239934002552 putative Mg++ binding site [ion binding]; other site 1239934002553 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 1239934002554 nucleotide binding region [chemical binding]; other site 1239934002555 ATP-binding site [chemical binding]; other site 1239934002556 Helicase associated domain (HA2); Region: HA2; pfam04408 1239934002557 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1239934002558 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 1239934002559 phosphate binding site [ion binding]; other site 1239934002560 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 1239934002561 domain II; other site 1239934002562 domain III; other site 1239934002563 nucleotide binding site [chemical binding]; other site 1239934002564 DNA binding groove [nucleotide binding] 1239934002565 catalytic site [active] 1239934002566 domain IV; other site 1239934002567 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1239934002568 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1239934002569 active site 1239934002570 metal binding site [ion binding]; metal-binding site 1239934002571 DNA binding site [nucleotide binding] 1239934002572 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1239934002573 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1239934002574 Walker A/P-loop; other site 1239934002575 ATP binding site [chemical binding]; other site 1239934002576 Q-loop/lid; other site 1239934002577 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1239934002578 ABC transporter signature motif; other site 1239934002579 Walker B; other site 1239934002580 D-loop; other site 1239934002581 H-loop/switch region; other site 1239934002582 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1239934002583 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1239934002584 nucleotide binding site [chemical binding]; other site 1239934002585 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1239934002586 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1239934002587 HIGH motif; other site 1239934002588 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1239934002589 active site 1239934002590 KMSKS motif; other site 1239934002591 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1239934002592 tRNA binding surface [nucleotide binding]; other site 1239934002593 anticodon binding site; other site 1239934002594 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 1239934002595 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1239934002596 Walker A motif; other site 1239934002597 ATP binding site [chemical binding]; other site 1239934002598 Walker B motif; other site 1239934002599 arginine finger; other site 1239934002600 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1239934002601 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 1239934002602 Walker A motif; other site 1239934002603 ATP binding site [chemical binding]; other site 1239934002604 Walker B motif; other site 1239934002605 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1239934002606 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1239934002607 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1239934002608 active site 1239934002609 substrate binding site [chemical binding]; other site 1239934002610 metal binding site [ion binding]; metal-binding site 1239934002611 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 1239934002612 ATP binding site [chemical binding]; other site 1239934002613 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 1239934002614 nucleotide binding region [chemical binding]; other site 1239934002615 ATP-binding site [chemical binding]; other site 1239934002616 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1239934002617 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1239934002618 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1239934002619 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1239934002620 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1239934002621 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1239934002622 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 1239934002623 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 1239934002624 RNA/DNA hybrid binding site [nucleotide binding]; other site 1239934002625 active site 1239934002626 arginine deiminase; Provisional; Region: PRK01388 1239934002627 ornithine carbamoyltransferase; Provisional; Region: PRK04284 1239934002628 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1239934002629 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1239934002630 Predicted membrane protein [Function unknown]; Region: COG1288 1239934002631 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606