-- dump date 20140619_115247 -- class Genbank::misc_feature -- table misc_feature_note -- id note 547146000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 547146000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 547146000003 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 547146000004 Walker A motif; other site 547146000005 ATP binding site [chemical binding]; other site 547146000006 Walker B motif; other site 547146000007 arginine finger; other site 547146000008 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 547146000009 DnaA box-binding interface [nucleotide binding]; other site 547146000010 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 547146000011 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 547146000012 dimer interface [polypeptide binding]; other site 547146000013 putative tRNA-binding site [nucleotide binding]; other site 547146000014 glycogen synthase; Provisional; Region: glgA; PRK00654 547146000015 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 547146000016 ADP-binding pocket [chemical binding]; other site 547146000017 homodimer interface [polypeptide binding]; other site 547146000018 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 547146000019 dihydropteroate synthase; Region: DHPS; TIGR01496 547146000020 substrate binding pocket [chemical binding]; other site 547146000021 dimer interface [polypeptide binding]; other site 547146000022 inhibitor binding site; inhibition site 547146000023 Uncharacterized conserved protein [Function unknown]; Region: COG1624 547146000024 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 547146000025 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 547146000026 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 547146000027 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547146000028 HlyD family secretion protein; Region: HlyD_3; pfam13437 547146000029 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 547146000030 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 547146000031 Walker A/P-loop; other site 547146000032 ATP binding site [chemical binding]; other site 547146000033 Q-loop/lid; other site 547146000034 ABC transporter signature motif; other site 547146000035 Walker B; other site 547146000036 D-loop; other site 547146000037 H-loop/switch region; other site 547146000038 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 547146000039 FtsX-like permease family; Region: FtsX; pfam02687 547146000040 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 547146000041 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 547146000042 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 547146000043 PhoU domain; Region: PhoU; pfam01895 547146000044 PhoU domain; Region: PhoU; pfam01895 547146000045 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 547146000046 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 547146000047 dimerization interface [polypeptide binding]; other site 547146000048 PAS domain; Region: PAS_8; pfam13188 547146000049 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 547146000050 dimer interface [polypeptide binding]; other site 547146000051 phosphorylation site [posttranslational modification] 547146000052 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 547146000053 ATP binding site [chemical binding]; other site 547146000054 G-X-G motif; other site 547146000055 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 547146000056 PilX N-terminal; Region: PilX_N; pfam14341 547146000057 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 547146000058 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547146000059 putative substrate translocation pore; other site 547146000060 Major Facilitator Superfamily; Region: MFS_1; pfam07690 547146000061 Quinolinate synthetase A protein; Region: NadA; pfam02445 547146000062 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 547146000063 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 547146000064 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547146000065 active site 547146000066 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 547146000067 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 547146000068 RNA binding surface [nucleotide binding]; other site 547146000069 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 547146000070 active site 547146000071 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 547146000072 GTP cyclohydrolase I; Provisional; Region: PLN03044 547146000073 active site 547146000074 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 547146000075 active site 547146000076 oligomerization interface [polypeptide binding]; other site 547146000077 metal binding site [ion binding]; metal-binding site 547146000078 peptide chain release factor 2; Validated; Region: prfB; PRK00578 547146000079 This domain is found in peptide chain release factors; Region: PCRF; smart00937 547146000080 RF-1 domain; Region: RF-1; pfam00472 547146000081 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 547146000082 metal-binding site [ion binding] 547146000083 chaperone protein DnaJ; Provisional; Region: PRK14291 547146000084 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 547146000085 HSP70 interaction site [polypeptide binding]; other site 547146000086 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 547146000087 Zn binding sites [ion binding]; other site 547146000088 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 547146000089 dimer interface [polypeptide binding]; other site 547146000090 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 547146000091 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 547146000092 DNA binding residues [nucleotide binding] 547146000093 putative dimer interface [polypeptide binding]; other site 547146000094 Cupin domain; Region: Cupin_2; pfam07883 547146000095 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 547146000096 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 547146000097 Substrate binding site; other site 547146000098 Mg++ binding site; other site 547146000099 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 547146000100 active site 547146000101 substrate binding site [chemical binding]; other site 547146000102 CoA binding site [chemical binding]; other site 547146000103 poxB regulator PoxA; Provisional; Region: PRK09350 547146000104 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 547146000105 motif 1; other site 547146000106 dimer interface [polypeptide binding]; other site 547146000107 active site 547146000108 motif 2; other site 547146000109 motif 3; other site 547146000110 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 547146000111 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 547146000112 Ligand Binding Site [chemical binding]; other site 547146000113 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 547146000114 binding surface 547146000115 TPR motif; other site 547146000116 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 547146000117 binding surface 547146000118 TPR motif; other site 547146000119 Tetratricopeptide repeat; Region: TPR_12; pfam13424 547146000120 Tetratricopeptide repeat; Region: TPR_12; pfam13424 547146000121 SprA-related family; Region: SprA-related; pfam12118 547146000122 Esterase/lipase [General function prediction only]; Region: COG1647 547146000123 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 547146000124 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 547146000125 inhibitor-cofactor binding pocket; inhibition site 547146000126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146000127 catalytic residue [active] 547146000128 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 547146000129 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 547146000130 dimer interface [polypeptide binding]; other site 547146000131 catalytic triad [active] 547146000132 peroxidatic and resolving cysteines [active] 547146000133 5'-3' exonuclease; Region: 53EXOc; smart00475 547146000134 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 547146000135 active site 547146000136 metal binding site 1 [ion binding]; metal-binding site 547146000137 putative 5' ssDNA interaction site; other site 547146000138 metal binding site 3; metal-binding site 547146000139 metal binding site 2 [ion binding]; metal-binding site 547146000140 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 547146000141 putative DNA binding site [nucleotide binding]; other site 547146000142 putative metal binding site [ion binding]; other site 547146000143 Bifunctional nuclease; Region: DNase-RNase; pfam02577 547146000144 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]; Region: COG1144 547146000145 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 547146000146 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 547146000147 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 547146000148 TPP-binding site [chemical binding]; other site 547146000149 dimer interface [polypeptide binding]; other site 547146000150 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 547146000151 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 547146000152 dimer interface [polypeptide binding]; other site 547146000153 PYR/PP interface [polypeptide binding]; other site 547146000154 TPP binding site [chemical binding]; other site 547146000155 substrate binding site [chemical binding]; other site 547146000156 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; pfam02552 547146000157 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 547146000158 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 547146000159 Acylphosphatase; Region: Acylphosphatase; pfam00708 547146000160 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 547146000161 HypF finger; Region: zf-HYPF; pfam07503 547146000162 HypF finger; Region: zf-HYPF; pfam07503 547146000163 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 547146000164 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 547146000165 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 547146000166 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 547146000167 dimerization interface [polypeptide binding]; other site 547146000168 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 547146000169 ATP binding site [chemical binding]; other site 547146000170 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 547146000171 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 547146000172 HupF/HypC family; Region: HupF_HypC; pfam01455 547146000173 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 547146000174 putative substrate-binding site; other site 547146000175 nickel binding site [ion binding]; other site 547146000176 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 547146000177 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 547146000178 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 547146000179 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 547146000180 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 547146000181 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 547146000182 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 547146000183 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 547146000184 catalytic residues [active] 547146000185 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 547146000186 DHHA1 domain; Region: DHHA1; pfam02272 547146000187 Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Region: RpsA; COG0539 547146000188 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 547146000189 RNA binding site [nucleotide binding]; other site 547146000190 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 547146000191 RNA binding site [nucleotide binding]; other site 547146000192 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 547146000193 RNA binding site [nucleotide binding]; other site 547146000194 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 547146000195 RNA binding site [nucleotide binding]; other site 547146000196 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 547146000197 homodimer interface [polypeptide binding]; other site 547146000198 MazG family protein; Region: mazG; TIGR00444 547146000199 metal binding site [ion binding]; metal-binding site 547146000200 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 547146000201 homodimer interface [polypeptide binding]; other site 547146000202 active site 547146000203 putative chemical substrate binding site [chemical binding]; other site 547146000204 metal binding site [ion binding]; metal-binding site 547146000205 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 547146000206 ketol-acid reductoisomerase; Provisional; Region: PRK05479 547146000207 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 547146000208 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 547146000209 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 547146000210 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 547146000211 RibD C-terminal domain; Region: RibD_C; cl17279 547146000212 dihydrodipicolinate reductase; Provisional; Region: PRK00048 547146000213 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 547146000214 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 547146000215 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 547146000216 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 547146000217 active site 547146000218 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 547146000219 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 547146000220 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 547146000221 putative NAD(P) binding site [chemical binding]; other site 547146000222 active site 547146000223 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 547146000224 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 547146000225 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 547146000226 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 547146000227 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 547146000228 GTP binding site; other site 547146000229 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 547146000230 N-acetyl-D-glucosamine binding site [chemical binding]; other site 547146000231 catalytic residue [active] 547146000232 type II secretion system protein D; Region: type_II_gspD; TIGR02517 547146000233 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 547146000234 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 547146000235 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 547146000236 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK01236 547146000237 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 547146000238 DNA protecting protein DprA; Region: dprA; TIGR00732 547146000239 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 547146000240 RNA methyltransferase, RsmE family; Region: TIGR00046 547146000241 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 547146000242 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 547146000243 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 547146000244 dimer interface [polypeptide binding]; other site 547146000245 PYR/PP interface [polypeptide binding]; other site 547146000246 TPP binding site [chemical binding]; other site 547146000247 substrate binding site [chemical binding]; other site 547146000248 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 547146000249 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 547146000250 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 547146000251 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 547146000252 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 547146000253 Walker A/P-loop; other site 547146000254 ATP binding site [chemical binding]; other site 547146000255 Q-loop/lid; other site 547146000256 ABC transporter signature motif; other site 547146000257 Walker B; other site 547146000258 D-loop; other site 547146000259 H-loop/switch region; other site 547146000260 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 547146000261 gliding motility-associated protein GldE; Region: GldE; TIGR03520 547146000262 Domain of unknown function DUF21; Region: DUF21; pfam01595 547146000263 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 547146000264 Transporter associated domain; Region: CorC_HlyC; smart01091 547146000265 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 547146000266 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547146000267 active site 547146000268 acetyl-CoA synthetase; Provisional; Region: PRK00174 547146000269 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 547146000270 active site 547146000271 CoA binding site [chemical binding]; other site 547146000272 acyl-activating enzyme (AAE) consensus motif; other site 547146000273 AMP binding site [chemical binding]; other site 547146000274 acetate binding site [chemical binding]; other site 547146000275 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 547146000276 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 547146000277 purine monophosphate binding site [chemical binding]; other site 547146000278 dimer interface [polypeptide binding]; other site 547146000279 putative catalytic residues [active] 547146000280 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 547146000281 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 547146000282 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 547146000283 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 547146000284 FMN binding site [chemical binding]; other site 547146000285 substrate binding site [chemical binding]; other site 547146000286 putative catalytic residue [active] 547146000287 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 547146000288 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 547146000289 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 547146000290 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 547146000291 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 547146000292 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 547146000293 ATP-grasp domain; Region: ATP-grasp; pfam02222 547146000294 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 547146000295 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146000296 FeS/SAM binding site; other site 547146000297 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 547146000298 Roadblock/LC7 domain [Function unknown]; Region: COG4831 547146000299 Roadblock/LC7 domain [Function unknown]; Region: COG4831 547146000300 SCP-2 sterol transfer family; Region: SCP2; pfam02036 547146000301 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 547146000302 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 547146000303 putative active site [active] 547146000304 heme pocket [chemical binding]; other site 547146000305 PAS domain; Region: PAS; smart00091 547146000306 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 547146000307 Walker A motif; other site 547146000308 ATP binding site [chemical binding]; other site 547146000309 Walker B motif; other site 547146000310 arginine finger; other site 547146000311 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 547146000312 HsdM N-terminal domain; Region: HsdM_N; pfam12161 547146000313 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 547146000314 Methyltransferase domain; Region: Methyltransf_26; pfam13659 547146000315 Fic family protein [Function unknown]; Region: COG3177 547146000316 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 547146000317 Fic/DOC family; Region: Fic; pfam02661 547146000318 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 547146000319 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 547146000320 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 547146000321 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 547146000322 active site 547146000323 NTP binding site [chemical binding]; other site 547146000324 metal binding triad [ion binding]; metal-binding site 547146000325 antibiotic binding site [chemical binding]; other site 547146000326 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 547146000327 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 547146000328 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 547146000329 ATP binding site [chemical binding]; other site 547146000330 putative Mg++ binding site [ion binding]; other site 547146000331 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 547146000332 Protein of unknown function DUF45; Region: DUF45; pfam01863 547146000333 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 547146000334 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 547146000335 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 547146000336 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 547146000337 IHF - DNA interface [nucleotide binding]; other site 547146000338 IHF dimer interface [polypeptide binding]; other site 547146000339 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 547146000340 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 547146000341 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 547146000342 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 547146000343 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 547146000344 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 547146000345 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 547146000346 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 547146000347 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 547146000348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146000349 catalytic residue [active] 547146000350 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 547146000351 MoaE interaction surface [polypeptide binding]; other site 547146000352 MoeB interaction surface [polypeptide binding]; other site 547146000353 thiocarboxylated glycine; other site 547146000354 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 547146000355 IPP transferase; Region: IPPT; pfam01715 547146000356 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 547146000357 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 547146000358 Chorismate mutase type II; Region: CM_2; smart00830 547146000359 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 547146000360 Prephenate dehydratase; Region: PDT; pfam00800 547146000361 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 547146000362 putative L-Phe binding site [chemical binding]; other site 547146000363 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 547146000364 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 547146000365 Protein export membrane protein; Region: SecD_SecF; pfam02355 547146000366 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 547146000367 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547146000368 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 547146000369 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 547146000370 thymidylate kinase; Validated; Region: tmk; PRK00698 547146000371 TMP-binding site; other site 547146000372 ATP-binding site [chemical binding]; other site 547146000373 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 547146000374 replicative DNA helicase; Region: DnaB; TIGR00665 547146000375 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 547146000376 Walker A motif; other site 547146000377 ATP binding site [chemical binding]; other site 547146000378 Walker B motif; other site 547146000379 DNA binding loops [nucleotide binding] 547146000380 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 547146000381 putative acyl-acceptor binding pocket; other site 547146000382 glutamine synthetase, type I; Region: GlnA; TIGR00653 547146000383 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 547146000384 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 547146000385 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 547146000386 Nitrogen regulatory protein P-II; Region: P-II; smart00938 547146000387 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 547146000388 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 547146000389 trimer interface [polypeptide binding]; other site 547146000390 dimer interface [polypeptide binding]; other site 547146000391 putative active site [active] 547146000392 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 547146000393 MPT binding site; other site 547146000394 trimer interface [polypeptide binding]; other site 547146000395 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 547146000396 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 547146000397 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 547146000398 NodB motif; other site 547146000399 active site 547146000400 metal binding site [ion binding]; metal-binding site 547146000401 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 547146000402 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 547146000403 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 547146000404 ATP-grasp domain; Region: ATP-grasp_4; cl17255 547146000405 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 547146000406 FAD binding domain; Region: FAD_binding_4; pfam01565 547146000407 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 547146000408 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 547146000409 16S/18S rRNA binding site [nucleotide binding]; other site 547146000410 S13e-L30e interaction site [polypeptide binding]; other site 547146000411 25S rRNA binding site [nucleotide binding]; other site 547146000412 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 547146000413 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 547146000414 RNase E interface [polypeptide binding]; other site 547146000415 trimer interface [polypeptide binding]; other site 547146000416 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 547146000417 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 547146000418 RNase E interface [polypeptide binding]; other site 547146000419 trimer interface [polypeptide binding]; other site 547146000420 active site 547146000421 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 547146000422 putative nucleic acid binding region [nucleotide binding]; other site 547146000423 G-X-X-G motif; other site 547146000424 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 547146000425 RNA binding site [nucleotide binding]; other site 547146000426 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 547146000427 trimer interface [polypeptide binding]; other site 547146000428 active site 547146000429 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 547146000430 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 547146000431 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 547146000432 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 547146000433 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 547146000434 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 547146000435 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 547146000436 Walker A motif; other site 547146000437 ATP binding site [chemical binding]; other site 547146000438 Walker B motif; other site 547146000439 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 547146000440 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 547146000441 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 547146000442 oligomer interface [polypeptide binding]; other site 547146000443 active site residues [active] 547146000444 FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]; Region: Tig; COG0544 547146000445 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 547146000446 homotrimer interaction site [polypeptide binding]; other site 547146000447 putative active site [active] 547146000448 cell division protein FtsZ; Validated; Region: PRK09330 547146000449 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 547146000450 nucleotide binding site [chemical binding]; other site 547146000451 SulA interaction site; other site 547146000452 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 547146000453 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 547146000454 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 547146000455 SAF-like; Region: SAF_2; pfam13144 547146000456 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 547146000457 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 547146000458 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 547146000459 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 547146000460 PilX N-terminal; Region: PilX_N; pfam14341 547146000461 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 547146000462 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 547146000463 argininosuccinate lyase; Provisional; Region: PRK00855 547146000464 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 547146000465 active sites [active] 547146000466 tetramer interface [polypeptide binding]; other site 547146000467 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 547146000468 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 547146000469 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 547146000470 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146000471 FeS/SAM binding site; other site 547146000472 S-adenosylmethionine synthetase; Validated; Region: PRK05250 547146000473 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 547146000474 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 547146000475 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 547146000476 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 547146000477 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_1; cd05017 547146000478 dimer interface [polypeptide binding]; other site 547146000479 active site 547146000480 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 547146000481 dimer interface [polypeptide binding]; other site 547146000482 active site 547146000483 Acylphosphatase; Region: Acylphosphatase; pfam00708 547146000484 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 547146000485 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 547146000486 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 547146000487 Peptidase family M23; Region: Peptidase_M23; pfam01551 547146000488 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 547146000489 dimer interface [polypeptide binding]; other site 547146000490 substrate binding site [chemical binding]; other site 547146000491 metal binding sites [ion binding]; metal-binding site 547146000492 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 547146000493 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 547146000494 putative active site [active] 547146000495 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 547146000496 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 547146000497 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 547146000498 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 547146000499 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 547146000500 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 547146000501 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgC; COG1558 547146000502 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 547146000503 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 547146000504 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 547146000505 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 547146000506 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 547146000507 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 547146000508 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 547146000509 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 547146000510 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 547146000511 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 547146000512 putative substrate binding site [chemical binding]; other site 547146000513 putative ATP binding site [chemical binding]; other site 547146000514 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 547146000515 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 547146000516 putative active site; other site 547146000517 catalytic residue [active] 547146000518 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 547146000519 mce related protein; Region: MCE; pfam02470 547146000520 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 547146000521 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547146000522 Walker A/P-loop; other site 547146000523 ATP binding site [chemical binding]; other site 547146000524 Q-loop/lid; other site 547146000525 ABC transporter signature motif; other site 547146000526 Walker B; other site 547146000527 D-loop; other site 547146000528 H-loop/switch region; other site 547146000529 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 547146000530 Permease; Region: Permease; pfam02405 547146000531 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 547146000532 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 547146000533 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 547146000534 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 547146000535 Family description; Region: DsbD_2; pfam13386 547146000536 Helix-turn-helix domain; Region: HTH_17; pfam12728 547146000537 Type III pantothenate kinase; Region: Pan_kinase; cl17198 547146000538 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 547146000539 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 547146000540 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 547146000541 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 547146000542 active site 547146000543 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 547146000544 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 547146000545 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 547146000546 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 547146000547 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 547146000548 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 547146000549 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 547146000550 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 547146000551 trimer interface [polypeptide binding]; other site 547146000552 active site 547146000553 UDP-GlcNAc binding site [chemical binding]; other site 547146000554 lipid binding site [chemical binding]; lipid-binding site 547146000555 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 547146000556 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 547146000557 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 547146000558 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 547146000559 active site 547146000560 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 547146000561 DNA polymerase III subunit delta'; Validated; Region: PRK08485 547146000562 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 547146000563 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 547146000564 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 547146000565 PAS domain; Region: PAS_9; pfam13426 547146000566 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547146000567 putative active site [active] 547146000568 heme pocket [chemical binding]; other site 547146000569 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 547146000570 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547146000571 metal binding site [ion binding]; metal-binding site 547146000572 active site 547146000573 I-site; other site 547146000574 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 547146000575 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 547146000576 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 547146000577 N-acetyl-D-glucosamine binding site [chemical binding]; other site 547146000578 catalytic residue [active] 547146000579 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 547146000580 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 547146000581 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 547146000582 active site 547146000583 homodimer interface [polypeptide binding]; other site 547146000584 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547146000585 metal binding site [ion binding]; metal-binding site 547146000586 active site 547146000587 I-site; other site 547146000588 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 547146000589 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 547146000590 putative dimer interface [polypeptide binding]; other site 547146000591 [2Fe-2S] cluster binding site [ion binding]; other site 547146000592 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 547146000593 SLBB domain; Region: SLBB; pfam10531 547146000594 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 547146000595 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 547146000596 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 547146000597 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 547146000598 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 547146000599 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 547146000600 active site 547146000601 catalytic residue [active] 547146000602 dimer interface [polypeptide binding]; other site 547146000603 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 547146000604 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 547146000605 Tetramer interface [polypeptide binding]; other site 547146000606 active site 547146000607 FMN-binding site [chemical binding]; other site 547146000608 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 547146000609 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 547146000610 trimer interface [polypeptide binding]; other site 547146000611 putative metal binding site [ion binding]; other site 547146000612 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 547146000613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547146000614 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 547146000615 NAD(P) binding site [chemical binding]; other site 547146000616 active site 547146000617 cysteine synthase B; Region: cysM; TIGR01138 547146000618 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 547146000619 dimer interface [polypeptide binding]; other site 547146000620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146000621 catalytic residue [active] 547146000622 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 547146000623 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 547146000624 putative phosphate acyltransferase; Provisional; Region: PRK05331 547146000625 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 547146000626 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 547146000627 dimer interface [polypeptide binding]; other site 547146000628 active site 547146000629 CoA binding pocket [chemical binding]; other site 547146000630 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 547146000631 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 547146000632 Moco binding site; other site 547146000633 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 547146000634 metal coordination site [ion binding]; other site 547146000635 exopolyphosphatase; Region: exo_poly_only; TIGR03706 547146000636 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 547146000637 MoxR-like ATPases [General function prediction only]; Region: COG0714 547146000638 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 547146000639 Walker A motif; other site 547146000640 ATP binding site [chemical binding]; other site 547146000641 Walker B motif; other site 547146000642 arginine finger; other site 547146000643 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 547146000644 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547146000645 metal binding site [ion binding]; metal-binding site 547146000646 active site 547146000647 I-site; other site 547146000648 recombination protein RecR; Region: recR; TIGR00615 547146000649 RecR protein; Region: RecR; pfam02132 547146000650 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 547146000651 putative active site [active] 547146000652 putative metal-binding site [ion binding]; other site 547146000653 tetramer interface [polypeptide binding]; other site 547146000654 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 547146000655 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 547146000656 Walker A motif; other site 547146000657 ATP binding site [chemical binding]; other site 547146000658 Walker B motif; other site 547146000659 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 547146000660 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 547146000661 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 547146000662 Walker A motif; other site 547146000663 ATP binding site [chemical binding]; other site 547146000664 Walker B motif; other site 547146000665 reverse gyrase; Reviewed; Region: PRK09401 547146000666 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 547146000667 ATP binding site [chemical binding]; other site 547146000668 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 547146000669 nucleotide binding region [chemical binding]; other site 547146000670 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 547146000671 active site 547146000672 metal binding site [ion binding]; metal-binding site 547146000673 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 547146000674 domain I; other site 547146000675 DNA binding groove [nucleotide binding] 547146000676 phosphate binding site [ion binding]; other site 547146000677 domain II; other site 547146000678 domain III; other site 547146000679 nucleotide binding site [chemical binding]; other site 547146000680 catalytic site [active] 547146000681 domain IV; other site 547146000682 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547146000683 active site 547146000684 elongation factor Tu; Reviewed; Region: PRK00049 547146000685 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 547146000686 G1 box; other site 547146000687 GEF interaction site [polypeptide binding]; other site 547146000688 GTP/Mg2+ binding site [chemical binding]; other site 547146000689 Switch I region; other site 547146000690 G2 box; other site 547146000691 G3 box; other site 547146000692 Switch II region; other site 547146000693 G4 box; other site 547146000694 G5 box; other site 547146000695 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 547146000696 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 547146000697 Antibiotic Binding Site [chemical binding]; other site 547146000698 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 547146000699 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 547146000700 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 547146000701 NGN-insert domain found between N-terminal domain (D1) and C-terminal KOW domain (DIII) repeats of some N-Utilization Substance G (NusG) N-terminal (NGN); Region: NGN-insert_like; cd09910 547146000702 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 547146000703 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 547146000704 heterodimer interface [polypeptide binding]; other site 547146000705 homodimer interface [polypeptide binding]; other site 547146000706 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 547146000707 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 547146000708 23S rRNA interface [nucleotide binding]; other site 547146000709 L7/L12 interface [polypeptide binding]; other site 547146000710 putative thiostrepton binding site; other site 547146000711 L25 interface [polypeptide binding]; other site 547146000712 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 547146000713 mRNA/rRNA interface [nucleotide binding]; other site 547146000714 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 547146000715 23S rRNA interface [nucleotide binding]; other site 547146000716 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 547146000717 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 547146000718 core dimer interface [polypeptide binding]; other site 547146000719 peripheral dimer interface [polypeptide binding]; other site 547146000720 L10 interface [polypeptide binding]; other site 547146000721 L11 interface [polypeptide binding]; other site 547146000722 putative EF-Tu interaction site [polypeptide binding]; other site 547146000723 putative EF-G interaction site [polypeptide binding]; other site 547146000724 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 547146000725 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 547146000726 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 547146000727 RPB11 interaction site [polypeptide binding]; other site 547146000728 RPB12 interaction site [polypeptide binding]; other site 547146000729 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 547146000730 RPB1 interaction site [polypeptide binding]; other site 547146000731 RNA polymerase Rpb2, domain 7; Region: RNA_pol_Rpb2_7; pfam04560 547146000732 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 547146000733 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 547146000734 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 547146000735 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 547146000736 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 547146000737 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 547146000738 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 547146000739 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 547146000740 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 547146000741 DNA binding site [nucleotide binding] 547146000742 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 547146000743 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 547146000744 S17 interaction site [polypeptide binding]; other site 547146000745 S8 interaction site; other site 547146000746 16S rRNA interaction site [nucleotide binding]; other site 547146000747 streptomycin interaction site [chemical binding]; other site 547146000748 23S rRNA interaction site [nucleotide binding]; other site 547146000749 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 547146000750 30S ribosomal protein S7; Validated; Region: PRK05302 547146000751 elongation factor G; Reviewed; Region: PRK00007 547146000752 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 547146000753 G1 box; other site 547146000754 putative GEF interaction site [polypeptide binding]; other site 547146000755 GTP/Mg2+ binding site [chemical binding]; other site 547146000756 Switch I region; other site 547146000757 G2 box; other site 547146000758 G3 box; other site 547146000759 Switch II region; other site 547146000760 G4 box; other site 547146000761 G5 box; other site 547146000762 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 547146000763 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 547146000764 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 547146000765 elongation factor Tu; Reviewed; Region: PRK00049 547146000766 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 547146000767 G1 box; other site 547146000768 GEF interaction site [polypeptide binding]; other site 547146000769 GTP/Mg2+ binding site [chemical binding]; other site 547146000770 Switch I region; other site 547146000771 G2 box; other site 547146000772 G3 box; other site 547146000773 Switch II region; other site 547146000774 G4 box; other site 547146000775 G5 box; other site 547146000776 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 547146000777 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 547146000778 Antibiotic Binding Site [chemical binding]; other site 547146000779 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 547146000780 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 547146000781 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 547146000782 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 547146000783 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 547146000784 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 547146000785 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 547146000786 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 547146000787 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 547146000788 putative translocon binding site; other site 547146000789 protein-rRNA interface [nucleotide binding]; other site 547146000790 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 547146000791 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 547146000792 G-X-X-G motif; other site 547146000793 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 547146000794 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 547146000795 23S rRNA interface [nucleotide binding]; other site 547146000796 5S rRNA interface [nucleotide binding]; other site 547146000797 putative antibiotic binding site [chemical binding]; other site 547146000798 L25 interface [polypeptide binding]; other site 547146000799 L27 interface [polypeptide binding]; other site 547146000800 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 547146000801 putative translocon interaction site; other site 547146000802 23S rRNA interface [nucleotide binding]; other site 547146000803 signal recognition particle (SRP54) interaction site; other site 547146000804 L23 interface [polypeptide binding]; other site 547146000805 trigger factor interaction site; other site 547146000806 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 547146000807 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 547146000808 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 547146000809 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 547146000810 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 547146000811 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 547146000812 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 547146000813 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 547146000814 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 547146000815 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 547146000816 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 547146000817 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 547146000818 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 547146000819 5S rRNA interface [nucleotide binding]; other site 547146000820 L27 interface [polypeptide binding]; other site 547146000821 23S rRNA interface [nucleotide binding]; other site 547146000822 L5 interface [polypeptide binding]; other site 547146000823 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 547146000824 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 547146000825 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 547146000826 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; cd01658 547146000827 23S rRNA binding site [nucleotide binding]; other site 547146000828 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 547146000829 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 547146000830 SecY translocase; Region: SecY; pfam00344 547146000831 adenylate kinase; Reviewed; Region: adk; PRK00279 547146000832 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 547146000833 AMP-binding site [chemical binding]; other site 547146000834 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 547146000835 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 547146000836 active site 547146000837 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 547146000838 rRNA binding site [nucleotide binding]; other site 547146000839 predicted 30S ribosome binding site; other site 547146000840 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 547146000841 30S ribosomal protein S13; Region: bact_S13; TIGR03631 547146000842 30S ribosomal protein S11; Validated; Region: PRK05309 547146000843 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 547146000844 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 547146000845 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 547146000846 RNA binding surface [nucleotide binding]; other site 547146000847 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 547146000848 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 547146000849 alphaNTD homodimer interface [polypeptide binding]; other site 547146000850 alphaNTD - beta interaction site [polypeptide binding]; other site 547146000851 alphaNTD - beta' interaction site [polypeptide binding]; other site 547146000852 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 547146000853 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 547146000854 YGGT family; Region: YGGT; pfam02325 547146000855 signal recognition particle protein; Provisional; Region: PRK10867 547146000856 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 547146000857 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 547146000858 P loop; other site 547146000859 GTP binding site [chemical binding]; other site 547146000860 Signal peptide binding domain; Region: SRP_SPB; pfam02978 547146000861 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 547146000862 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 547146000863 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 547146000864 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 547146000865 DEAD-like helicases superfamily; Region: DEXDc; smart00487 547146000866 ATP binding site [chemical binding]; other site 547146000867 Mg++ binding site [ion binding]; other site 547146000868 motif III; other site 547146000869 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 547146000870 nucleotide binding region [chemical binding]; other site 547146000871 ATP-binding site [chemical binding]; other site 547146000872 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 547146000873 dimer interface [polypeptide binding]; other site 547146000874 substrate binding site [chemical binding]; other site 547146000875 ATP binding site [chemical binding]; other site 547146000876 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 547146000877 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547146000878 Walker A/P-loop; other site 547146000879 ATP binding site [chemical binding]; other site 547146000880 Q-loop/lid; other site 547146000881 ABC transporter signature motif; other site 547146000882 Walker B; other site 547146000883 D-loop; other site 547146000884 H-loop/switch region; other site 547146000885 NosL; Region: NosL; cl01769 547146000886 SapC; Region: SapC; pfam07277 547146000887 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 547146000888 Methyltransferase domain; Region: Methyltransf_23; pfam13489 547146000889 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 547146000890 S-adenosylmethionine binding site [chemical binding]; other site 547146000891 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 547146000892 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 547146000893 catalytic loop [active] 547146000894 iron binding site [ion binding]; other site 547146000895 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 547146000896 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 547146000897 active site 547146000898 (T/H)XGH motif; other site 547146000899 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 547146000900 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 547146000901 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 547146000902 molybdopterin cofactor binding site; other site 547146000903 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 547146000904 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 547146000905 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 547146000906 putative molybdopterin cofactor binding site; other site 547146000907 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 547146000908 4Fe-4S binding domain; Region: Fer4; pfam00037 547146000909 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 547146000910 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 547146000911 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 547146000912 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 547146000913 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 547146000914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2380 547146000915 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 547146000916 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 547146000917 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 547146000918 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 547146000919 arsenite oxidase, large subunit; Region: arsenite_ox_L; TIGR02693 547146000920 molybdopterin cofactor binding site; other site 547146000921 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 547146000922 molybdopterin cofactor binding site; other site 547146000923 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 547146000924 Small subunit of Arsenite oxidase (ArOX) family, Rieske domain; ArOX is a molybdenum/iron protein involved in the detoxification of arsenic, oxidizing it to arsenate. It consists of two subunits, a large subunit similar to members of the DMSO reductase...; Region: Rieske_ArOX_small; cd03476 547146000925 [2Fe-2S] cluster binding site [ion binding]; other site 547146000926 subunit interaction site [polypeptide binding]; other site 547146000927 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 547146000928 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 547146000929 active site 547146000930 phosphorylation site [posttranslational modification] 547146000931 intermolecular recognition site; other site 547146000932 dimerization interface [polypeptide binding]; other site 547146000933 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 547146000934 Walker A motif; other site 547146000935 ATP binding site [chemical binding]; other site 547146000936 Walker B motif; other site 547146000937 arginine finger; other site 547146000938 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 547146000939 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 547146000940 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 547146000941 Ligand binding site; other site 547146000942 oligomer interface; other site 547146000943 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 547146000944 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 547146000945 Cytochrome c; Region: Cytochrom_C; cl11414 547146000946 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 547146000947 active site residue [active] 547146000948 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 547146000949 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 547146000950 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 547146000951 PSP1 C-terminal conserved region; Region: PSP1; cl00770 547146000952 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 547146000953 threonine synthase; Reviewed; Region: PRK06721 547146000954 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 547146000955 homodimer interface [polypeptide binding]; other site 547146000956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146000957 catalytic residue [active] 547146000958 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 547146000959 Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]; Region: MobB; COG1763 547146000960 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 547146000961 feedback inhibition sensing region; other site 547146000962 homohexameric interface [polypeptide binding]; other site 547146000963 nucleotide binding site [chemical binding]; other site 547146000964 N-acetyl-L-glutamate binding site [chemical binding]; other site 547146000965 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 547146000966 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547146000967 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 547146000968 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 547146000969 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 547146000970 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 547146000971 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 547146000972 Tetratricopeptide repeat; Region: TPR_16; pfam13432 547146000973 TPR motif; other site 547146000974 binding surface 547146000975 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 547146000976 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 547146000977 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 547146000978 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 547146000979 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 547146000980 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 547146000981 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 547146000982 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 547146000983 carboxyltransferase (CT) interaction site; other site 547146000984 biotinylation site [posttranslational modification]; other site 547146000985 elongation factor P; Validated; Region: PRK00529 547146000986 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 547146000987 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 547146000988 RNA binding site [nucleotide binding]; other site 547146000989 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 547146000990 RNA binding site [nucleotide binding]; other site 547146000991 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 547146000992 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 547146000993 dihydrodipicolinate synthase; Region: dapA; TIGR00674 547146000994 dimer interface [polypeptide binding]; other site 547146000995 active site 547146000996 catalytic residue [active] 547146000997 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 547146000998 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 547146000999 active site 547146001000 HIGH motif; other site 547146001001 KMSKS motif; other site 547146001002 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 547146001003 tRNA binding surface [nucleotide binding]; other site 547146001004 anticodon binding site; other site 547146001005 Protein of unknown function (DUF503); Region: DUF503; pfam04456 547146001006 TPR repeat; Region: TPR_11; pfam13414 547146001007 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 547146001008 binding surface 547146001009 TPR motif; other site 547146001010 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 547146001011 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 547146001012 Ligand Binding Site [chemical binding]; other site 547146001013 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 547146001014 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 547146001015 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 547146001016 Permease; Region: Permease; pfam02405 547146001017 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 547146001018 heme-binding site [chemical binding]; other site 547146001019 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 547146001020 EamA-like transporter family; Region: EamA; pfam00892 547146001021 EamA-like transporter family; Region: EamA; pfam00892 547146001022 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 547146001023 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 547146001024 NAD binding site [chemical binding]; other site 547146001025 homodimer interface [polypeptide binding]; other site 547146001026 active site 547146001027 substrate binding site [chemical binding]; other site 547146001028 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 547146001029 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 547146001030 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 547146001031 GatB domain; Region: GatB_Yqey; smart00845 547146001032 DNA gyrase subunit A; Validated; Region: PRK05560 547146001033 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 547146001034 CAP-like domain; other site 547146001035 active site 547146001036 primary dimer interface [polypeptide binding]; other site 547146001037 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 547146001038 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 547146001039 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 547146001040 seryl-tRNA synthetase; Provisional; Region: PRK05431 547146001041 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 547146001042 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 547146001043 dimer interface [polypeptide binding]; other site 547146001044 active site 547146001045 motif 1; other site 547146001046 motif 2; other site 547146001047 motif 3; other site 547146001048 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 547146001049 putative active site pocket [active] 547146001050 4-fold oligomerization interface [polypeptide binding]; other site 547146001051 metal binding residues [ion binding]; metal-binding site 547146001052 3-fold/trimer interface [polypeptide binding]; other site 547146001053 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 547146001054 rod shape-determining protein MreB; Provisional; Region: PRK13927 547146001055 MreB and similar proteins; Region: MreB_like; cd10225 547146001056 nucleotide binding site [chemical binding]; other site 547146001057 Mg binding site [ion binding]; other site 547146001058 putative protofilament interaction site [polypeptide binding]; other site 547146001059 RodZ interaction site [polypeptide binding]; other site 547146001060 rod shape-determining protein MreC; Provisional; Region: PRK13922 547146001061 rod shape-determining protein MreC; Region: MreC; pfam04085 547146001062 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 547146001063 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 547146001064 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 547146001065 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 547146001066 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 547146001067 Cu(I) binding site [ion binding]; other site 547146001068 Putative motility protein; Region: YjfB_motility; pfam14070 547146001069 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 547146001070 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 547146001071 active site 547146001072 phosphorylation site [posttranslational modification] 547146001073 intermolecular recognition site; other site 547146001074 dimerization interface [polypeptide binding]; other site 547146001075 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547146001076 DNA binding site [nucleotide binding] 547146001077 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 547146001078 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 547146001079 dimer interface [polypeptide binding]; other site 547146001080 phosphorylation site [posttranslational modification] 547146001081 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 547146001082 ATP binding site [chemical binding]; other site 547146001083 Mg2+ binding site [ion binding]; other site 547146001084 G-X-G motif; other site 547146001085 Domain of unknown function DUF20; Region: UPF0118; pfam01594 547146001086 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 547146001087 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 547146001088 G1 box; other site 547146001089 GTP/Mg2+ binding site [chemical binding]; other site 547146001090 Switch I region; other site 547146001091 G2 box; other site 547146001092 G3 box; other site 547146001093 Switch II region; other site 547146001094 G4 box; other site 547146001095 G5 box; other site 547146001096 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 547146001097 HIGH motif; other site 547146001098 dimer interface [polypeptide binding]; other site 547146001099 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 547146001100 active site 547146001101 KMSKS motif; other site 547146001102 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 547146001103 Peptidase family M50; Region: Peptidase_M50; pfam02163 547146001104 active site 547146001105 putative substrate binding region [chemical binding]; other site 547146001106 Putative zinc ribbon domain; Region: DUF164; pfam02591 547146001107 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 547146001108 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146001109 FeS/SAM binding site; other site 547146001110 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 547146001111 CoenzymeA binding site [chemical binding]; other site 547146001112 subunit interaction site [polypeptide binding]; other site 547146001113 PHB binding site; other site 547146001114 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 547146001115 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 547146001116 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146001117 FeS/SAM binding site; other site 547146001118 CheB methylesterase; Region: CheB_methylest; pfam01339 547146001119 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 547146001120 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 547146001121 OstA-like protein; Region: OstA; pfam03968 547146001122 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 547146001123 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 547146001124 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 547146001125 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 547146001126 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 547146001127 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 547146001128 NifU-like domain; Region: NifU; cl00484 547146001129 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 547146001130 CPxP motif; other site 547146001131 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 547146001132 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 547146001133 Ligand Binding Site [chemical binding]; other site 547146001134 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 547146001135 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 547146001136 trimerization site [polypeptide binding]; other site 547146001137 active site 547146001138 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 547146001139 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 547146001140 dimerization interface [polypeptide binding]; other site 547146001141 putative ATP binding site [chemical binding]; other site 547146001142 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 547146001143 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 547146001144 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 547146001145 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 547146001146 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 547146001147 Protein of unknown function (DUF523); Region: DUF523; pfam04463 547146001148 Uncharacterized conserved protein [Function unknown]; Region: COG3272 547146001149 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 547146001150 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 547146001151 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 547146001152 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 547146001153 active site 547146001154 HIGH motif; other site 547146001155 KMSK motif region; other site 547146001156 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 547146001157 tRNA binding surface [nucleotide binding]; other site 547146001158 anticodon binding site; other site 547146001159 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 547146001160 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 547146001161 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 547146001162 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 547146001163 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 547146001164 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547146001165 MULE transposase domain; Region: MULE; pfam10551 547146001166 CRISPR-associated protein; Region: TIGR03986 547146001167 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 547146001168 active site 547146001169 catalytic site [active] 547146001170 substrate binding site [chemical binding]; other site 547146001171 SurA N-terminal domain; Region: SurA_N; pfam09312 547146001172 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 547146001173 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 547146001174 active site 547146001175 (T/H)XGH motif; other site 547146001176 Protein of unknown function DUF72; Region: DUF72; pfam01904 547146001177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 547146001178 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 547146001179 catalytic loop [active] 547146001180 iron binding site [ion binding]; other site 547146001181 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 547146001182 4Fe-4S binding domain; Region: Fer4; pfam00037 547146001183 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 547146001184 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 547146001185 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 547146001186 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 547146001187 active site 547146001188 dimer interface [polypeptide binding]; other site 547146001189 Uncharacterized conserved protein [Function unknown]; Region: COG2445 547146001190 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 547146001191 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 547146001192 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 547146001193 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 547146001194 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 547146001195 aspartate aminotransferase; Provisional; Region: PRK05764 547146001196 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547146001197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146001198 homodimer interface [polypeptide binding]; other site 547146001199 catalytic residue [active] 547146001200 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 547146001201 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 547146001202 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 547146001203 putative ADP-binding pocket [chemical binding]; other site 547146001204 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 547146001205 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 547146001206 putative acyl-acceptor binding pocket; other site 547146001207 Mechanosensitive ion channel; Region: MS_channel; pfam00924 547146001208 UPF0126 domain; Region: UPF0126; pfam03458 547146001209 Predicted membrane protein [Function unknown]; Region: COG2860 547146001210 UPF0126 domain; Region: UPF0126; pfam03458 547146001211 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 547146001212 Glucose inhibited division protein A; Region: GIDA; pfam01134 547146001213 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 547146001214 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 547146001215 motif 1; other site 547146001216 dimer interface [polypeptide binding]; other site 547146001217 active site 547146001218 motif 2; other site 547146001219 motif 3; other site 547146001220 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 547146001221 Organic solvent tolerance protein; Region: OstA_C; pfam04453 547146001222 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 547146001223 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 547146001224 active site 547146001225 motif I; other site 547146001226 motif II; other site 547146001227 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 547146001228 Protein of unknown function (DUF465); Region: DUF465; pfam04325 547146001229 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 547146001230 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 547146001231 substrate binding site [chemical binding]; other site 547146001232 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547146001233 active site 547146001234 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 547146001235 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 547146001236 RNA binding surface [nucleotide binding]; other site 547146001237 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 547146001238 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 547146001239 Transglycosylase; Region: Transgly; pfam00912 547146001240 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 547146001241 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 547146001242 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 547146001243 substrate binding site [chemical binding]; other site 547146001244 glutamase interaction surface [polypeptide binding]; other site 547146001245 Bacterial PH domain; Region: DUF304; pfam03703 547146001246 Copper resistance protein D; Region: CopD; cl00563 547146001247 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 547146001248 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 547146001249 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 547146001250 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 547146001251 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 547146001252 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 547146001253 dimer interface [polypeptide binding]; other site 547146001254 ssDNA binding site [nucleotide binding]; other site 547146001255 tetramer (dimer of dimers) interface [polypeptide binding]; other site 547146001256 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 547146001257 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 547146001258 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 547146001259 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 547146001260 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 547146001261 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 547146001262 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 547146001263 Walker A/P-loop; other site 547146001264 ATP binding site [chemical binding]; other site 547146001265 Q-loop/lid; other site 547146001266 ABC transporter signature motif; other site 547146001267 Walker B; other site 547146001268 D-loop; other site 547146001269 H-loop/switch region; other site 547146001270 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 547146001271 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 547146001272 active site residue [active] 547146001273 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 547146001274 arsenical pump membrane protein; Provisional; Region: PRK15445 547146001275 transmembrane helices; other site 547146001276 gamma-glutamyl kinase; Provisional; Region: PRK05429 547146001277 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 547146001278 nucleotide binding site [chemical binding]; other site 547146001279 homotetrameric interface [polypeptide binding]; other site 547146001280 putative phosphate binding site [ion binding]; other site 547146001281 putative allosteric binding site; other site 547146001282 PUA domain; Region: PUA; pfam01472 547146001283 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 547146001284 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 547146001285 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 547146001286 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 547146001287 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 547146001288 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 547146001289 dimer interface [polypeptide binding]; other site 547146001290 anticodon binding site; other site 547146001291 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 547146001292 homodimer interface [polypeptide binding]; other site 547146001293 motif 1; other site 547146001294 active site 547146001295 motif 2; other site 547146001296 GAD domain; Region: GAD; pfam02938 547146001297 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 547146001298 active site 547146001299 motif 3; other site 547146001300 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 547146001301 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 547146001302 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 547146001303 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 547146001304 GTPase CgtA; Reviewed; Region: obgE; PRK12299 547146001305 GTP1/OBG; Region: GTP1_OBG; pfam01018 547146001306 Obg GTPase; Region: Obg; cd01898 547146001307 G1 box; other site 547146001308 GTP/Mg2+ binding site [chemical binding]; other site 547146001309 Switch I region; other site 547146001310 G2 box; other site 547146001311 G3 box; other site 547146001312 Switch II region; other site 547146001313 G4 box; other site 547146001314 G5 box; other site 547146001315 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 547146001316 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 547146001317 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 547146001318 Protein of unknown function (DUF554); Region: DUF554; pfam04474 547146001319 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 547146001320 nucleotide binding site/active site [active] 547146001321 HIT family signature motif; other site 547146001322 catalytic residue [active] 547146001323 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 547146001324 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 547146001325 thiamine-monophosphate kinase; Region: thiL; TIGR01379 547146001326 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 547146001327 ATP binding site [chemical binding]; other site 547146001328 dimerization interface [polypeptide binding]; other site 547146001329 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 547146001330 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 547146001331 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 547146001332 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 547146001333 Protein of unknown function DUF58; Region: DUF58; pfam01882 547146001334 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 547146001335 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 547146001336 dimer interface [polypeptide binding]; other site 547146001337 conserved gate region; other site 547146001338 putative PBP binding loops; other site 547146001339 ABC-ATPase subunit interface; other site 547146001340 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 547146001341 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 547146001342 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547146001343 AAA domain; Region: AAA_23; pfam13476 547146001344 Walker A/P-loop; other site 547146001345 ATP binding site [chemical binding]; other site 547146001346 Q-loop/lid; other site 547146001347 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 547146001348 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 547146001349 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 547146001350 ABC transporter signature motif; other site 547146001351 Walker B; other site 547146001352 D-loop; other site 547146001353 H-loop/switch region; other site 547146001354 argininosuccinate synthase; Provisional; Region: PRK13820 547146001355 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 547146001356 ANP binding site [chemical binding]; other site 547146001357 Substrate Binding Site II [chemical binding]; other site 547146001358 Substrate Binding Site I [chemical binding]; other site 547146001359 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 547146001360 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547146001361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146001362 homodimer interface [polypeptide binding]; other site 547146001363 catalytic residue [active] 547146001364 Uncharacterized conserved protein [Function unknown]; Region: COG2835 547146001365 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 547146001366 FAD binding domain; Region: FAD_binding_4; pfam01565 547146001367 GTP-binding protein Der; Reviewed; Region: PRK00093 547146001368 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 547146001369 G1 box; other site 547146001370 GTP/Mg2+ binding site [chemical binding]; other site 547146001371 Switch I region; other site 547146001372 G2 box; other site 547146001373 Switch II region; other site 547146001374 G3 box; other site 547146001375 G4 box; other site 547146001376 G5 box; other site 547146001377 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 547146001378 G1 box; other site 547146001379 GTP/Mg2+ binding site [chemical binding]; other site 547146001380 Switch I region; other site 547146001381 G2 box; other site 547146001382 G3 box; other site 547146001383 Switch II region; other site 547146001384 G4 box; other site 547146001385 G5 box; other site 547146001386 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 547146001387 heterotetramer interface [polypeptide binding]; other site 547146001388 active site pocket [active] 547146001389 cleavage site 547146001390 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 547146001391 active site 547146001392 catalytic residues [active] 547146001393 metal binding site [ion binding]; metal-binding site 547146001394 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 547146001395 ACT domain; Region: ACT_6; pfam13740 547146001396 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 547146001397 fumarate hydratase; Reviewed; Region: fumC; PRK00485 547146001398 Class II fumarases; Region: Fumarase_classII; cd01362 547146001399 active site 547146001400 tetramer interface [polypeptide binding]; other site 547146001401 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 547146001402 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 547146001403 inhibitor-cofactor binding pocket; inhibition site 547146001404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146001405 catalytic residue [active] 547146001406 EVE domain; Region: EVE; pfam01878 547146001407 Protein of unknown function (DUF996); Region: DUF996; pfam06195 547146001408 Uncharacterized protein conserved in archaea (DUF2250); Region: DUF2250; pfam10007 547146001409 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 547146001410 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 547146001411 dimer interface [polypeptide binding]; other site 547146001412 active site 547146001413 glycine-pyridoxal phosphate binding site [chemical binding]; other site 547146001414 folate binding site [chemical binding]; other site 547146001415 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 547146001416 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 547146001417 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 547146001418 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 547146001419 hypothetical protein; Validated; Region: PRK00110 547146001420 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 547146001421 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 547146001422 putative DNA binding site [nucleotide binding]; other site 547146001423 putative Zn2+ binding site [ion binding]; other site 547146001424 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 547146001425 catalytic motif [active] 547146001426 Zn binding site [ion binding]; other site 547146001427 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 547146001428 RibD C-terminal domain; Region: RibD_C; cl17279 547146001429 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 547146001430 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 547146001431 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 547146001432 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 547146001433 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 547146001434 NAD(P) binding site [chemical binding]; other site 547146001435 homotetramer interface [polypeptide binding]; other site 547146001436 homodimer interface [polypeptide binding]; other site 547146001437 active site 547146001438 acyl carrier protein; Provisional; Region: acpP; PRK00982 547146001439 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 547146001440 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 547146001441 dimer interface [polypeptide binding]; other site 547146001442 active site 547146001443 ribonuclease III; Reviewed; Region: rnc; PRK00102 547146001444 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 547146001445 dimerization interface [polypeptide binding]; other site 547146001446 active site 547146001447 metal binding site [ion binding]; metal-binding site 547146001448 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 547146001449 dsRNA binding site [nucleotide binding]; other site 547146001450 Domain of unknown function (DUF1886); Region: DUF1886; cl01666 547146001451 GTP-binding protein YchF; Reviewed; Region: PRK09601 547146001452 YchF GTPase; Region: YchF; cd01900 547146001453 G1 box; other site 547146001454 GTP/Mg2+ binding site [chemical binding]; other site 547146001455 Switch I region; other site 547146001456 G2 box; other site 547146001457 Switch II region; other site 547146001458 G3 box; other site 547146001459 G4 box; other site 547146001460 G5 box; other site 547146001461 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 547146001462 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 547146001463 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 547146001464 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 547146001465 active site 547146001466 dimer interface [polypeptide binding]; other site 547146001467 motif 1; other site 547146001468 motif 2; other site 547146001469 motif 3; other site 547146001470 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 547146001471 anticodon binding site; other site 547146001472 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 547146001473 AAA domain; Region: AAA_26; pfam13500 547146001474 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 547146001475 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 547146001476 Walker A motif; other site 547146001477 ATP binding site [chemical binding]; other site 547146001478 Walker B motif; other site 547146001479 arginine finger; other site 547146001480 Peptidase family M41; Region: Peptidase_M41; pfam01434 547146001481 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 547146001482 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 547146001483 substrate binding site [chemical binding]; other site 547146001484 ligand binding site [chemical binding]; other site 547146001485 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 547146001486 Phosphopantetheinyl transferase (holo-ACP synthase) [Lipid metabolism]; Region: AcpS; COG0736 547146001487 diaminopimelate decarboxylase; Region: lysA; TIGR01048 547146001488 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 547146001489 active site 547146001490 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 547146001491 substrate binding site [chemical binding]; other site 547146001492 catalytic residues [active] 547146001493 dimer interface [polypeptide binding]; other site 547146001494 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 547146001495 V4R domain; Region: V4R; pfam02830 547146001496 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 547146001497 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 547146001498 homotetramer interface [polypeptide binding]; other site 547146001499 ligand binding site [chemical binding]; other site 547146001500 catalytic site [active] 547146001501 NAD binding site [chemical binding]; other site 547146001502 FAD binding domain; Region: FAD_binding_4; pfam01565 547146001503 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 547146001504 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 547146001505 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 547146001506 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 547146001507 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 547146001508 type II secretion system protein D; Region: type_II_gspD; TIGR02517 547146001509 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 547146001510 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 547146001511 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 547146001512 Dynamin family; Region: Dynamin_N; pfam00350 547146001513 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 547146001514 G3 box; other site 547146001515 Switch II region; other site 547146001516 GTP/Mg2+ binding site [chemical binding]; other site 547146001517 G4 box; other site 547146001518 G5 box; other site 547146001519 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 547146001520 TPP-binding site [chemical binding]; other site 547146001521 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 547146001522 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 547146001523 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 547146001524 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547146001525 catalytic residue [active] 547146001526 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 547146001527 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 547146001528 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 547146001529 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 547146001530 dimer interface [polypeptide binding]; other site 547146001531 conserved gate region; other site 547146001532 putative PBP binding loops; other site 547146001533 ABC-ATPase subunit interface; other site 547146001534 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional; Region: PRK14975 547146001535 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 547146001536 active site 547146001537 catalytic site [active] 547146001538 substrate binding site [chemical binding]; other site 547146001539 Phylum Aquificae Pol A is different from Escherichia coli Pol A by three signature sequences; Region: DNA_pol_A_Aquificae_like; cd08639 547146001540 active site 547146001541 DNA binding site [nucleotide binding] 547146001542 catalytic site [active] 547146001543 amino acid transporter; Region: 2A0306; TIGR00909 547146001544 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 547146001545 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 547146001546 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 547146001547 NAD(P) binding site [chemical binding]; other site 547146001548 catalytic residues [active] 547146001549 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 547146001550 dimer interface [polypeptide binding]; other site 547146001551 active site 547146001552 Schiff base residues; other site 547146001553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 547146001554 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 547146001555 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 547146001556 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 547146001557 catalytic center binding site [active] 547146001558 ATP binding site [chemical binding]; other site 547146001559 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 547146001560 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 547146001561 active site 547146001562 putative substrate binding pocket [chemical binding]; other site 547146001563 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 547146001564 homopentamer interface [polypeptide binding]; other site 547146001565 active site 547146001566 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 547146001567 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 547146001568 Walker A motif; other site 547146001569 ATP binding site [chemical binding]; other site 547146001570 Walker B motif; other site 547146001571 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 547146001572 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547146001573 putative substrate translocation pore; other site 547146001574 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 547146001575 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 547146001576 ATP-grasp domain; Region: ATP-grasp_4; cl17255 547146001577 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 547146001578 IMP binding site; other site 547146001579 dimer interface [polypeptide binding]; other site 547146001580 interdomain contacts; other site 547146001581 partial ornithine binding site; other site 547146001582 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 547146001583 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 547146001584 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 547146001585 Predicted Ser/Thr protein kinase [Signal transduction mechanisms]; Region: COG2112 547146001586 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 547146001587 active site 547146001588 substrate binding site [chemical binding]; other site 547146001589 ATP binding site [chemical binding]; other site 547146001590 Putative sterol carrier protein [Lipid metabolism]; Region: COG3255 547146001591 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 547146001592 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 547146001593 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 547146001594 putative active site [active] 547146001595 catalytic triad [active] 547146001596 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 547146001597 Found in ATP-dependent protease La (LON); Region: LON; smart00464 547146001598 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 547146001599 Walker A motif; other site 547146001600 ATP binding site [chemical binding]; other site 547146001601 Walker B motif; other site 547146001602 arginine finger; other site 547146001603 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 547146001604 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 547146001605 trimer interface [polypeptide binding]; other site 547146001606 active site 547146001607 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 547146001608 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 547146001609 N-acetyl-D-glucosamine binding site [chemical binding]; other site 547146001610 catalytic residue [active] 547146001611 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 547146001612 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 547146001613 dimer interface [polypeptide binding]; other site 547146001614 motif 1; other site 547146001615 active site 547146001616 motif 2; other site 547146001617 motif 3; other site 547146001618 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 547146001619 anticodon binding site; other site 547146001620 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 547146001621 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547146001622 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547146001623 multifunctional aminopeptidase A; Provisional; Region: PRK00913 547146001624 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 547146001625 interface (dimer of trimers) [polypeptide binding]; other site 547146001626 Substrate-binding/catalytic site; other site 547146001627 Zn-binding sites [ion binding]; other site 547146001628 aspartate aminotransferase; Provisional; Region: PRK08636 547146001629 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547146001630 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146001631 homodimer interface [polypeptide binding]; other site 547146001632 catalytic residue [active] 547146001633 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 547146001634 MarC family integral membrane protein; Region: MarC; pfam01914 547146001635 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 547146001636 Protein export membrane protein; Region: SecD_SecF; cl14618 547146001637 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 547146001638 HlyD family secretion protein; Region: HlyD_3; pfam13437 547146001639 Outer membrane efflux protein; Region: OEP; pfam02321 547146001640 Outer membrane efflux protein; Region: OEP; pfam02321 547146001641 Low molecular weight phosphatase family; Region: LMWPc; cd00115 547146001642 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 547146001643 active site 547146001644 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 547146001645 dimerization interface [polypeptide binding]; other site 547146001646 putative DNA binding site [nucleotide binding]; other site 547146001647 putative Zn2+ binding site [ion binding]; other site 547146001648 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 547146001649 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 547146001650 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 547146001651 Prenyltransferase and squalene oxidase repeat; Region: Prenyltrans; pfam00432 547146001652 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 547146001653 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 547146001654 S-adenosylmethionine binding site [chemical binding]; other site 547146001655 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 547146001656 HEAT repeats; Region: HEAT_2; pfam13646 547146001657 pyruvate kinase; Provisional; Region: PRK05826 547146001658 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 547146001659 domain interfaces; other site 547146001660 active site 547146001661 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 547146001662 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 547146001663 Cl- selectivity filter; other site 547146001664 Cl- binding residues [ion binding]; other site 547146001665 pore gating glutamate residue; other site 547146001666 dimer interface [polypeptide binding]; other site 547146001667 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 547146001668 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 547146001669 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 547146001670 hydrogenase 4 subunit B; Validated; Region: PRK06459 547146001671 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 547146001672 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 547146001673 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 547146001674 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 547146001675 hydrogenase 4 subunit F; Validated; Region: PRK06458 547146001676 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 547146001677 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 547146001678 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 547146001679 NADH dehydrogenase; Region: NADHdh; cl00469 547146001680 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 547146001681 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 547146001682 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 547146001683 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 547146001684 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 547146001685 putative metal binding site; other site 547146001686 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 547146001687 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 547146001688 HSP70 interaction site [polypeptide binding]; other site 547146001689 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 547146001690 substrate binding site [polypeptide binding]; other site 547146001691 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 547146001692 Zn binding sites [ion binding]; other site 547146001693 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 547146001694 dimer interface [polypeptide binding]; other site 547146001695 Rod binding protein; Region: Rod-binding; pfam10135 547146001696 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 547146001697 Flagellar P-ring protein; Region: FlgI; pfam02119 547146001698 Biotin synthase-related enzyme [General function prediction only]; Region: COG2516 547146001699 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146001700 FeS/SAM binding site; other site 547146001701 L-aspartate oxidase; Provisional; Region: PRK06175 547146001702 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 547146001703 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 547146001704 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 547146001705 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 547146001706 phosphate binding site [ion binding]; other site 547146001707 putative substrate binding pocket [chemical binding]; other site 547146001708 dimer interface [polypeptide binding]; other site 547146001709 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 547146001710 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 547146001711 homoserine kinase; Provisional; Region: PRK01212 547146001712 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 547146001713 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 547146001714 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 547146001715 CPxP motif; other site 547146001716 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 547146001717 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547146001718 ALIX V-shaped domain binding to HIV; Region: ALIX_LYPXL_bnd; pfam13949 547146001719 Protein of unknown function (DUF1641); Region: DUF1641; pfam07849 547146001720 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 547146001721 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 547146001722 dimer interface [polypeptide binding]; other site 547146001723 decamer (pentamer of dimers) interface [polypeptide binding]; other site 547146001724 catalytic triad [active] 547146001725 peroxidatic and resolving cysteines [active] 547146001726 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 547146001727 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547146001728 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 547146001729 Walker A motif; other site 547146001730 Walker A/P-loop; other site 547146001731 ATP binding site [chemical binding]; other site 547146001732 ATP binding site [chemical binding]; other site 547146001733 Walker B motif; other site 547146001734 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 547146001735 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 547146001736 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 547146001737 active site 547146001738 catalytic residues [active] 547146001739 DNA binding site [nucleotide binding] 547146001740 Int/Topo IB signature motif; other site 547146001741 malate dehydrogenase; Reviewed; Region: PRK06223 547146001742 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 547146001743 NAD(P) binding site [chemical binding]; other site 547146001744 dimer interface [polypeptide binding]; other site 547146001745 tetramer (dimer of dimers) interface [polypeptide binding]; other site 547146001746 substrate binding site [chemical binding]; other site 547146001747 aconitate hydratase; Validated; Region: PRK07229 547146001748 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 547146001749 substrate binding site [chemical binding]; other site 547146001750 ligand binding site [chemical binding]; other site 547146001751 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course...; Region: AcnA_Bact_Swivel; cd01579 547146001752 substrate binding site [chemical binding]; other site 547146001753 Fructose-1,6-bisphosphatase; Region: FBPase_3; pfam01950 547146001754 Predicted membrane protein [Function unknown]; Region: COG3431 547146001755 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547146001756 Major Facilitator Superfamily; Region: MFS_1; pfam07690 547146001757 putative substrate translocation pore; other site 547146001758 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 547146001759 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 547146001760 active site 547146001761 tetramer interface; other site 547146001762 glycogen branching enzyme; Provisional; Region: PRK12313 547146001763 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 547146001764 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 547146001765 active site 547146001766 catalytic site [active] 547146001767 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 547146001768 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 547146001769 binding surface 547146001770 TPR motif; other site 547146001771 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 547146001772 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 547146001773 P loop; other site 547146001774 GTP binding site [chemical binding]; other site 547146001775 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 547146001776 metal binding site 2 [ion binding]; metal-binding site 547146001777 putative DNA binding helix; other site 547146001778 metal binding site 1 [ion binding]; metal-binding site 547146001779 dimer interface [polypeptide binding]; other site 547146001780 structural Zn2+ binding site [ion binding]; other site 547146001781 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 547146001782 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 547146001783 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 547146001784 dimerization interface [polypeptide binding]; other site 547146001785 putative DNA binding site [nucleotide binding]; other site 547146001786 putative Zn2+ binding site [ion binding]; other site 547146001787 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 547146001788 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 547146001789 catalytic residues [active] 547146001790 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 547146001791 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547146001792 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547146001793 PilZ domain; Region: PilZ; pfam07238 547146001794 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 547146001795 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 547146001796 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 547146001797 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 547146001798 homodimer interface [polypeptide binding]; other site 547146001799 oligonucleotide binding site [chemical binding]; other site 547146001800 threonine synthase; Validated; Region: PRK07591 547146001801 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 547146001802 homodimer interface [polypeptide binding]; other site 547146001803 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146001804 catalytic residue [active] 547146001805 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 547146001806 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 547146001807 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 547146001808 Cl- selectivity filter; other site 547146001809 Cl- binding residues [ion binding]; other site 547146001810 pore gating glutamate residue; other site 547146001811 dimer interface [polypeptide binding]; other site 547146001812 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 547146001813 pyruvate carboxylase subunit B; Validated; Region: PRK09282 547146001814 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 547146001815 active site 547146001816 catalytic residues [active] 547146001817 metal binding site [ion binding]; metal-binding site 547146001818 homodimer binding site [polypeptide binding]; other site 547146001819 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 547146001820 carboxyltransferase (CT) interaction site; other site 547146001821 biotinylation site [posttranslational modification]; other site 547146001822 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 547146001823 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 547146001824 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 547146001825 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 547146001826 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 547146001827 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 547146001828 ligand binding site [chemical binding]; other site 547146001829 L-aspartate oxidase; Provisional; Region: PRK06175 547146001830 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 547146001831 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 547146001832 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 547146001833 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 547146001834 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 547146001835 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 547146001836 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 547146001837 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 547146001838 Surface antigen; Region: Bac_surface_Ag; pfam01103 547146001839 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 547146001840 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 547146001841 active site 547146001842 HIGH motif; other site 547146001843 dimer interface [polypeptide binding]; other site 547146001844 KMSKS motif; other site 547146001845 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 547146001846 RNA binding surface [nucleotide binding]; other site 547146001847 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 547146001848 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 547146001849 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 547146001850 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 547146001851 transcription antitermination factor NusB; Region: nusB; TIGR01951 547146001852 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 547146001853 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 547146001854 active site 547146001855 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 547146001856 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 547146001857 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 547146001858 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 547146001859 dimerization domain [polypeptide binding]; other site 547146001860 dimer interface [polypeptide binding]; other site 547146001861 catalytic residues [active] 547146001862 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 547146001863 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 547146001864 active site 547146001865 Zn binding site [ion binding]; other site 547146001866 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 547146001867 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 547146001868 ligand binding site [chemical binding]; other site 547146001869 flexible hinge region; other site 547146001870 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 547146001871 putative switch regulator; other site 547146001872 non-specific DNA interactions [nucleotide binding]; other site 547146001873 DNA binding site [nucleotide binding] 547146001874 sequence specific DNA binding site [nucleotide binding]; other site 547146001875 putative cAMP binding site [chemical binding]; other site 547146001876 GMP synthase; Reviewed; Region: guaA; PRK00074 547146001877 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 547146001878 AMP/PPi binding site [chemical binding]; other site 547146001879 candidate oxyanion hole; other site 547146001880 catalytic triad [active] 547146001881 potential glutamine specificity residues [chemical binding]; other site 547146001882 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 547146001883 ATP Binding subdomain [chemical binding]; other site 547146001884 Ligand Binding sites [chemical binding]; other site 547146001885 Dimerization subdomain; other site 547146001886 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 547146001887 active site 547146001888 hydrophilic channel; other site 547146001889 dimerization interface [polypeptide binding]; other site 547146001890 catalytic residues [active] 547146001891 active site lid [active] 547146001892 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 547146001893 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 547146001894 MgtE intracellular N domain; Region: MgtE_N; cl15244 547146001895 MgtE intracellular N domain; Region: MgtE_N; smart00924 547146001896 FliG C-terminal domain; Region: FliG_C; pfam01706 547146001897 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 547146001898 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 547146001899 Walker A motif; other site 547146001900 ATP binding site [chemical binding]; other site 547146001901 Walker B motif; other site 547146001902 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 547146001903 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 547146001904 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 547146001905 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 547146001906 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 547146001907 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 547146001908 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 547146001909 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 547146001910 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 547146001911 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 547146001912 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 547146001913 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 547146001914 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 547146001915 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 547146001916 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 547146001917 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 547146001918 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146001919 FeS/SAM binding site; other site 547146001920 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 547146001921 RNA/DNA hybrid binding site [nucleotide binding]; other site 547146001922 active site 547146001923 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 547146001924 TPR motif; other site 547146001925 Tetratricopeptide repeat; Region: TPR_12; pfam13424 547146001926 binding surface 547146001927 Tetratricopeptide repeat; Region: TPR_12; pfam13424 547146001928 Herpesvirus latent membrane protein 1 (LMP1); Region: Herpes_LMP1; pfam05297 547146001929 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 547146001930 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 547146001931 Uncharacterized conserved protein (DUF2203); Region: DUF2203; pfam09969 547146001932 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 547146001933 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 547146001934 putative active site [active] 547146001935 Ubiquitin-like proteins; Region: UBQ; cl00155 547146001936 charged pocket; other site 547146001937 hydrophobic patch; other site 547146001938 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 547146001939 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 547146001940 active site 547146001941 HIGH motif; other site 547146001942 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 547146001943 active site 547146001944 KMSKS motif; other site 547146001945 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 547146001946 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cl09909 547146001947 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cl09909 547146001948 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 547146001949 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 547146001950 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 547146001951 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 547146001952 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 547146001953 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 547146001954 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 547146001955 Probable transposase; Region: OrfB_IS605; pfam01385 547146001956 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 547146001957 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 547146001958 Clp amino terminal domain; Region: Clp_N; pfam02861 547146001959 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 547146001960 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 547146001961 Walker A motif; other site 547146001962 ATP binding site [chemical binding]; other site 547146001963 Walker B motif; other site 547146001964 arginine finger; other site 547146001965 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 547146001966 Walker A motif; other site 547146001967 ATP binding site [chemical binding]; other site 547146001968 Walker B motif; other site 547146001969 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 547146001970 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 547146001971 Peptidase family U32; Region: Peptidase_U32; pfam01136 547146001972 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 547146001973 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 547146001974 putative catalytic cysteine [active] 547146001975 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 547146001976 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 547146001977 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 547146001978 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 547146001979 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 547146001980 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 547146001981 CoA-binding site [chemical binding]; other site 547146001982 ATP-binding [chemical binding]; other site 547146001983 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 547146001984 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 547146001985 G1 box; other site 547146001986 putative GEF interaction site [polypeptide binding]; other site 547146001987 GTP/Mg2+ binding site [chemical binding]; other site 547146001988 Switch I region; other site 547146001989 G2 box; other site 547146001990 G3 box; other site 547146001991 Switch II region; other site 547146001992 G4 box; other site 547146001993 G5 box; other site 547146001994 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 547146001995 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 547146001996 transcription termination factor Rho; Provisional; Region: rho; PRK09376 547146001997 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 547146001998 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 547146001999 RNA binding site [nucleotide binding]; other site 547146002000 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 547146002001 multimer interface [polypeptide binding]; other site 547146002002 Walker A motif; other site 547146002003 ATP binding site [chemical binding]; other site 547146002004 Walker B motif; other site 547146002005 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 547146002006 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 547146002007 trmE is a tRNA modification GTPase; Region: trmE; cd04164 547146002008 G1 box; other site 547146002009 GTP/Mg2+ binding site [chemical binding]; other site 547146002010 Switch I region; other site 547146002011 G2 box; other site 547146002012 Switch II region; other site 547146002013 G3 box; other site 547146002014 G4 box; other site 547146002015 G5 box; other site 547146002016 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 547146002017 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 547146002018 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 547146002019 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547146002020 Coenzyme A binding pocket [chemical binding]; other site 547146002021 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 547146002022 AsnC family; Region: AsnC_trans_reg; pfam01037 547146002023 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 547146002024 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 547146002025 tRNA; other site 547146002026 putative tRNA binding site [nucleotide binding]; other site 547146002027 putative NADP binding site [chemical binding]; other site 547146002028 prolyl-tRNA synthetase; Provisional; Region: PRK09194 547146002029 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 547146002030 dimer interface [polypeptide binding]; other site 547146002031 motif 1; other site 547146002032 active site 547146002033 motif 2; other site 547146002034 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 547146002035 putative deacylase active site [active] 547146002036 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 547146002037 active site 547146002038 motif 3; other site 547146002039 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 547146002040 anticodon binding site; other site 547146002041 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 547146002042 UGMP family protein; Validated; Region: PRK09604 547146002043 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 547146002044 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 547146002045 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 547146002046 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 547146002047 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 547146002048 Catalytic dyad [active] 547146002049 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 547146002050 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 547146002051 putative acyl-acceptor binding pocket; other site 547146002052 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 547146002053 Predicted deacetylase [General function prediction only]; Region: COG3233 547146002054 putative active site [active] 547146002055 putative Zn binding site [ion binding]; other site 547146002056 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 547146002057 active site 547146002058 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 547146002059 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 547146002060 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 547146002061 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 547146002062 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 547146002063 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 547146002064 N-terminal plug; other site 547146002065 ligand-binding site [chemical binding]; other site 547146002066 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 547146002067 active site 547146002068 NTP binding site [chemical binding]; other site 547146002069 metal binding triad [ion binding]; metal-binding site 547146002070 antibiotic binding site [chemical binding]; other site 547146002071 Protein of unknown function DUF86; Region: DUF86; cl01031 547146002072 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 547146002073 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 547146002074 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 547146002075 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 547146002076 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 547146002077 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 547146002078 Uncharacterized conserved protein [Function unknown]; Region: COG3391 547146002079 Phosphoesterase family; Region: Phosphoesterase; pfam04185 547146002080 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 547146002081 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 547146002082 Soluble P-type ATPase [General function prediction only]; Region: COG4087 547146002083 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 547146002084 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 547146002085 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 547146002086 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 547146002087 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 547146002088 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 547146002089 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 547146002090 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 547146002091 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 547146002092 ATP binding site [chemical binding]; other site 547146002093 Walker B motif; other site 547146002094 Predicted membrane protein [Function unknown]; Region: COG1238 547146002095 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 547146002096 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 547146002097 putative dimer interface [polypeptide binding]; other site 547146002098 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 547146002099 dimer interface [polypeptide binding]; other site 547146002100 FMN binding site [chemical binding]; other site 547146002101 putative carbohydrate kinase; Provisional; Region: PRK10565 547146002102 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 547146002103 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 547146002104 putative substrate binding site [chemical binding]; other site 547146002105 putative ATP binding site [chemical binding]; other site 547146002106 Phosphoglycerate kinase; Region: PGK; pfam00162 547146002107 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 547146002108 substrate binding site [chemical binding]; other site 547146002109 hinge regions; other site 547146002110 ADP binding site [chemical binding]; other site 547146002111 catalytic site [active] 547146002112 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 547146002113 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 547146002114 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 547146002115 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 547146002116 catalytic loop [active] 547146002117 iron binding site [ion binding]; other site 547146002118 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 547146002119 nucleotide binding site/active site [active] 547146002120 HIT family signature motif; other site 547146002121 catalytic residue [active] 547146002122 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 547146002123 S-adenosylmethionine synthetase; Provisional; Region: PRK04439 547146002124 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 547146002125 NADH dehydrogenase subunit B; Validated; Region: PRK06411 547146002126 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 547146002127 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 547146002128 NADH dehydrogenase subunit D; Validated; Region: PRK06075 547146002129 NADH:ubiquinone oxidoreductase subunit 1 (chain H) [Energy production and conversion]; Region: NuoH; COG1005 547146002130 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 547146002131 4Fe-4S binding domain; Region: Fer4; cl02805 547146002132 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; pfam00499 547146002133 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 547146002134 NADH:ubiquinone oxidoreductase subunit 11 or 4L (chain K) [Energy production and conversion]; Region: NuoK; COG0713 547146002135 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 547146002136 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 547146002137 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 547146002138 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 547146002139 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 547146002140 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 547146002141 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 547146002142 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 547146002143 NADH dehydrogenase subunit D; Validated; Region: PRK06075 547146002144 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 547146002145 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 547146002146 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 547146002147 4Fe-4S binding domain; Region: Fer4; pfam00037 547146002148 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 547146002149 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 547146002150 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 547146002151 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 547146002152 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 547146002153 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 547146002154 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 547146002155 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 547146002156 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 547146002157 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 547146002158 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 547146002159 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 547146002160 catalytic site [active] 547146002161 G-X2-G-X-G-K; other site 547146002162 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 547146002163 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 547146002164 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 547146002165 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 547146002166 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 547146002167 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 547146002168 Beta-Casp domain; Region: Beta-Casp; smart01027 547146002169 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 547146002170 Predicted integral membrane protein [Function unknown]; Region: COG5542 547146002171 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 547146002172 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 547146002173 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 547146002174 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 547146002175 Walker A/P-loop; other site 547146002176 ATP binding site [chemical binding]; other site 547146002177 Q-loop/lid; other site 547146002178 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 547146002179 ABC transporter signature motif; other site 547146002180 Walker B; other site 547146002181 D-loop; other site 547146002182 H-loop/switch region; other site 547146002183 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 547146002184 active site residue [active] 547146002185 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 547146002186 tetramerization interface [polypeptide binding]; other site 547146002187 active site 547146002188 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 547146002189 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 547146002190 active site 547146002191 HIGH motif; other site 547146002192 nucleotide binding site [chemical binding]; other site 547146002193 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 547146002194 active site 547146002195 KMSKS motif; other site 547146002196 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 547146002197 tRNA binding surface [nucleotide binding]; other site 547146002198 anticodon binding site; other site 547146002199 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 547146002200 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 547146002201 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 547146002202 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 547146002203 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 547146002204 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 547146002205 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 547146002206 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 547146002207 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 547146002208 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 547146002209 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 547146002210 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547146002211 Walker A/P-loop; other site 547146002212 ATP binding site [chemical binding]; other site 547146002213 Q-loop/lid; other site 547146002214 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 547146002215 ABC transporter signature motif; other site 547146002216 Walker B; other site 547146002217 D-loop; other site 547146002218 H-loop/switch region; other site 547146002219 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 547146002220 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547146002221 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 547146002222 Protein export membrane protein; Region: SecD_SecF; cl14618 547146002223 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 547146002224 Methyltransferase domain; Region: Methyltransf_26; pfam13659 547146002225 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 547146002226 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 547146002227 acyl-activating enzyme (AAE) consensus motif; other site 547146002228 putative AMP binding site [chemical binding]; other site 547146002229 putative active site [active] 547146002230 putative CoA binding site [chemical binding]; other site 547146002231 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 547146002232 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 547146002233 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 547146002234 putative acyl-acceptor binding pocket; other site 547146002235 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 547146002236 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 547146002237 ligand binding site [chemical binding]; other site 547146002238 NAD binding site [chemical binding]; other site 547146002239 dimerization interface [polypeptide binding]; other site 547146002240 catalytic site [active] 547146002241 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 547146002242 putative L-serine binding site [chemical binding]; other site 547146002243 aspartate kinase; Reviewed; Region: PRK06635 547146002244 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 547146002245 putative catalytic residues [active] 547146002246 putative nucleotide binding site [chemical binding]; other site 547146002247 putative aspartate binding site [chemical binding]; other site 547146002248 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 547146002249 putative allosteric regulatory site; other site 547146002250 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 547146002251 putative allosteric regulatory residue; other site 547146002252 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 547146002253 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 547146002254 putative ribose interaction site [chemical binding]; other site 547146002255 putative ADP binding site [chemical binding]; other site 547146002256 Outer membrane efflux protein; Region: OEP; pfam02321 547146002257 Outer membrane efflux protein; Region: OEP; pfam02321 547146002258 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 547146002259 HlyD family secretion protein; Region: HlyD_3; pfam13437 547146002260 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 547146002261 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 547146002262 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547146002263 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 547146002264 putative substrate translocation pore; other site 547146002265 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547146002266 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cl00942 547146002267 aromatic arch; other site 547146002268 DCoH dimer interaction site [polypeptide binding]; other site 547146002269 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 547146002270 DCoH tetramer interaction site [polypeptide binding]; other site 547146002271 substrate binding site [chemical binding]; other site 547146002272 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 547146002273 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 547146002274 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 547146002275 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 547146002276 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 547146002277 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 547146002278 catalytic residues [active] 547146002279 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 547146002280 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 547146002281 inhibitor-cofactor binding pocket; inhibition site 547146002282 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146002283 catalytic residue [active] 547146002284 N-terminal catalytic domain of 4-alpha-glucanotransferase; glycoside hydrolase family 57 (GH57); Region: GH57N_TLGT_like; cd10793 547146002285 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 547146002286 active site 547146002287 catalytic site [active] 547146002288 homodimer interface [polypeptide binding]; other site 547146002289 Lid 1; other site 547146002290 Domain of unknown function (DUF1925); Region: DUF1925; pfam09094 547146002291 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 547146002292 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 547146002293 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 547146002294 dimer interface [polypeptide binding]; other site 547146002295 phosphorylation site [posttranslational modification] 547146002296 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 547146002297 ATP binding site [chemical binding]; other site 547146002298 G-X-G motif; other site 547146002299 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 547146002300 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 547146002301 Walker A motif; other site 547146002302 ATP binding site [chemical binding]; other site 547146002303 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 547146002304 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 547146002305 Preprotein translocase subunit; Region: YajC; pfam02699 547146002306 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 547146002307 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 547146002308 IHF - DNA interface [nucleotide binding]; other site 547146002309 IHF dimer interface [polypeptide binding]; other site 547146002310 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 547146002311 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 547146002312 glutaminase active site [active] 547146002313 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 547146002314 dimer interface [polypeptide binding]; other site 547146002315 active site 547146002316 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 547146002317 dimer interface [polypeptide binding]; other site 547146002318 active site 547146002319 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 547146002320 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146002321 FeS/SAM binding site; other site 547146002322 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 547146002323 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 547146002324 S-adenosylmethionine binding site [chemical binding]; other site 547146002325 Preprotein translocase SecG subunit; Region: SecG; pfam03840 547146002326 6-carboxyhexanoate--CoA ligase; Provisional; Region: PRK01322 547146002327 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 547146002328 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 547146002329 dimer interface [polypeptide binding]; other site 547146002330 putative CheW interface [polypeptide binding]; other site 547146002331 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 547146002332 active site 547146002333 intersubunit interactions; other site 547146002334 catalytic residue [active] 547146002335 dihydroorotase; Validated; Region: pyrC; PRK09357 547146002336 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 547146002337 active site 547146002338 Predicted transcriptional regulator [Transcription]; Region: COG2932 547146002339 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 547146002340 non-specific DNA binding site [nucleotide binding]; other site 547146002341 salt bridge; other site 547146002342 sequence-specific DNA binding site [nucleotide binding]; other site 547146002343 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 547146002344 Catalytic site [active] 547146002345 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 547146002346 active site 547146002347 KMSKS motif; other site 547146002348 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 547146002349 tRNA binding surface [nucleotide binding]; other site 547146002350 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 547146002351 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 547146002352 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 547146002353 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547146002354 metal binding site [ion binding]; metal-binding site 547146002355 active site 547146002356 I-site; other site 547146002357 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 547146002358 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 547146002359 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 547146002360 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 547146002361 Low-spin heme binding site [chemical binding]; other site 547146002362 D-pathway; other site 547146002363 Putative water exit pathway; other site 547146002364 Binuclear center (active site) [active] 547146002365 K-pathway; other site 547146002366 Putative proton exit pathway; other site 547146002367 Cytochrome c; Region: Cytochrom_C; pfam00034 547146002368 Cytochrome c; Region: Cytochrom_C; pfam00034 547146002369 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 547146002370 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 547146002371 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 547146002372 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 547146002373 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 547146002374 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 547146002375 pantoate--beta-alanine ligase; Region: panC; TIGR00018 547146002376 Pantoate-beta-alanine ligase; Region: PanC; cd00560 547146002377 active site 547146002378 ATP-binding site [chemical binding]; other site 547146002379 pantoate-binding site; other site 547146002380 HXXH motif; other site 547146002381 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 547146002382 Bacterial sugar transferase; Region: Bac_transf; pfam02397 547146002383 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 547146002384 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 547146002385 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 547146002386 Walker A motif; other site 547146002387 ATP binding site [chemical binding]; other site 547146002388 Walker B motif; other site 547146002389 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 547146002390 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 547146002391 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 547146002392 Substrate binding site; other site 547146002393 Cupin domain; Region: Cupin_2; cl17218 547146002394 Predicted methyltransferases [General function prediction only]; Region: COG1568 547146002395 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 547146002396 S-adenosylmethionine binding site [chemical binding]; other site 547146002397 excinuclease ABC subunit B; Provisional; Region: PRK05298 547146002398 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 547146002399 ATP binding site [chemical binding]; other site 547146002400 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 547146002401 nucleotide binding region [chemical binding]; other site 547146002402 ATP-binding site [chemical binding]; other site 547146002403 Ultra-violet resistance protein B; Region: UvrB; pfam12344 547146002404 UvrB/uvrC motif; Region: UVR; pfam02151 547146002405 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 547146002406 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 547146002407 active site 547146002408 motif I; other site 547146002409 motif II; other site 547146002410 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 547146002411 D-Lactate and related Dehydrogenase like proteins, NAD-binding and catalytic domains; Region: LDH_like_1; cd12187 547146002412 ligand binding site [chemical binding]; other site 547146002413 NAD binding site [chemical binding]; other site 547146002414 homodimer interface [polypeptide binding]; other site 547146002415 catalytic site [active] 547146002416 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 547146002417 mce related protein; Region: MCE; pfam02470 547146002418 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 547146002419 metal binding triad; other site 547146002420 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 547146002421 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 547146002422 metal binding triad; other site 547146002423 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 547146002424 active site 547146002425 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 547146002426 metal binding site 2 [ion binding]; metal-binding site 547146002427 putative DNA binding helix; other site 547146002428 metal binding site 1 [ion binding]; metal-binding site 547146002429 dimer interface [polypeptide binding]; other site 547146002430 structural Zn2+ binding site [ion binding]; other site 547146002431 photolyase PhrII; Region: phr2; TIGR00591 547146002432 DNA photolyase; Region: DNA_photolyase; pfam00875 547146002433 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 547146002434 active site 547146002435 dimerization interface [polypeptide binding]; other site 547146002436 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 547146002437 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547146002438 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547146002439 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 547146002440 Lumazine binding domain; Region: Lum_binding; pfam00677 547146002441 Lumazine binding domain; Region: Lum_binding; pfam00677 547146002442 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 547146002443 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 547146002444 Outer membrane efflux protein; Region: OEP; pfam02321 547146002445 Outer membrane efflux protein; Region: OEP; pfam02321 547146002446 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 547146002447 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547146002448 HlyD family secretion protein; Region: HlyD_3; pfam13437 547146002449 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14331 547146002450 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 547146002451 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146002452 FeS/SAM binding site; other site 547146002453 TRAM domain; Region: TRAM; pfam01938 547146002454 Competence-damaged protein; Region: CinA; pfam02464 547146002455 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 547146002456 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 547146002457 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 547146002458 MraW methylase family; Region: Methyltransf_5; cl17771 547146002459 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 547146002460 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 547146002461 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 547146002462 active site 547146002463 Zn binding site [ion binding]; other site 547146002464 ribonuclease PH; Reviewed; Region: rph; PRK00173 547146002465 Ribonuclease PH; Region: RNase_PH_bact; cd11362 547146002466 hexamer interface [polypeptide binding]; other site 547146002467 active site 547146002468 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 547146002469 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 547146002470 oligomerisation interface [polypeptide binding]; other site 547146002471 mobile loop; other site 547146002472 roof hairpin; other site 547146002473 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 547146002474 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 547146002475 ring oligomerisation interface [polypeptide binding]; other site 547146002476 ATP/Mg binding site [chemical binding]; other site 547146002477 stacking interactions; other site 547146002478 hinge regions; other site 547146002479 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 547146002480 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 547146002481 dGTP triphosphohydrolase [Nucleotide transport and metabolism]; Region: Dgt; COG0232 547146002482 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 547146002483 Zn2+ binding site [ion binding]; other site 547146002484 Mg2+ binding site [ion binding]; other site 547146002485 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 547146002486 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 547146002487 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 547146002488 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 547146002489 metal binding site [ion binding]; metal-binding site 547146002490 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 547146002491 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 547146002492 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 547146002493 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547146002494 Coenzyme A binding pocket [chemical binding]; other site 547146002495 Flagellar protein FliS; Region: FliS; cl00654 547146002496 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 547146002497 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 547146002498 FlaG protein; Region: FlaG; pfam03646 547146002499 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 547146002500 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 547146002501 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 547146002502 putative tRNA-binding site [nucleotide binding]; other site 547146002503 B3/4 domain; Region: B3_4; pfam03483 547146002504 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 547146002505 motif 1; other site 547146002506 dimer interface [polypeptide binding]; other site 547146002507 active site 547146002508 motif 2; other site 547146002509 motif 3; other site 547146002510 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 547146002511 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 547146002512 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 547146002513 phosphodiesterase; Provisional; Region: PRK12704 547146002514 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 547146002515 Zn2+ binding site [ion binding]; other site 547146002516 Mg2+ binding site [ion binding]; other site 547146002517 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 547146002518 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146002519 FeS/SAM binding site; other site 547146002520 HemN C-terminal domain; Region: HemN_C; pfam06969 547146002521 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 547146002522 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 547146002523 ATP synthase subunit C; Region: ATP-synt_C; cl00466 547146002524 hypothetical protein; Provisional; Region: PRK14382 547146002525 membrane protein insertase; Provisional; Region: PRK01318 547146002526 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 547146002527 SurA N-terminal domain; Region: SurA_N_3; pfam13624 547146002528 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 547146002529 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]; Region: COG1465 547146002530 3-dehydroquinate synthase; Provisional; Region: PRK02290 547146002531 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 547146002532 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 547146002533 substrate binding site [chemical binding]; other site 547146002534 hexamer interface [polypeptide binding]; other site 547146002535 metal binding site [ion binding]; metal-binding site 547146002536 hypothetical protein; Provisional; Region: PRK08960 547146002537 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547146002538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146002539 homodimer interface [polypeptide binding]; other site 547146002540 catalytic residue [active] 547146002541 spermidine synthase; Provisional; Region: PRK00811 547146002542 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 547146002543 S-adenosylmethionine binding site [chemical binding]; other site 547146002544 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 547146002545 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 547146002546 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 547146002547 minor groove reading motif; other site 547146002548 helix-hairpin-helix signature motif; other site 547146002549 substrate binding pocket [chemical binding]; other site 547146002550 active site 547146002551 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 547146002552 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 547146002553 Na binding site [ion binding]; other site 547146002554 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 547146002555 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 547146002556 histidinol dehydrogenase; Region: hisD; TIGR00069 547146002557 NAD binding site [chemical binding]; other site 547146002558 dimerization interface [polypeptide binding]; other site 547146002559 product binding site; other site 547146002560 substrate binding site [chemical binding]; other site 547146002561 zinc binding site [ion binding]; other site 547146002562 catalytic residues [active] 547146002563 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 547146002564 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 547146002565 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 547146002566 homodimer interface [polypeptide binding]; other site 547146002567 NADP binding site [chemical binding]; other site 547146002568 substrate binding site [chemical binding]; other site 547146002569 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 547146002570 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 547146002571 nucleotide binding pocket [chemical binding]; other site 547146002572 K-X-D-G motif; other site 547146002573 catalytic site [active] 547146002574 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 547146002575 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 547146002576 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 547146002577 Dimer interface [polypeptide binding]; other site 547146002578 BRCT sequence motif; other site 547146002579 DsrE/DsrF-like family; Region: DrsE; pfam02635 547146002580 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 547146002581 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 547146002582 Cysteine-rich domain; Region: CCG; pfam02754 547146002583 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 547146002584 Ferritin-like domain; Region: Ferritin; pfam00210 547146002585 binuclear metal center [ion binding]; other site 547146002586 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 547146002587 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 547146002588 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 547146002589 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 547146002590 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 547146002591 active site 547146002592 metal binding site [ion binding]; metal-binding site 547146002593 HerA helicase [Replication, recombination, and repair]; Region: COG0433 547146002594 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 547146002595 Walker A motif; other site 547146002596 ATP binding site [chemical binding]; other site 547146002597 Walker B motif; other site 547146002598 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 547146002599 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 547146002600 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 547146002601 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 547146002602 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 547146002603 substrate binding pocket [chemical binding]; other site 547146002604 chain length determination region; other site 547146002605 substrate-Mg2+ binding site; other site 547146002606 catalytic residues [active] 547146002607 aspartate-rich region 1; other site 547146002608 active site lid residues [active] 547146002609 aspartate-rich region 2; other site 547146002610 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 547146002611 Domain of unknown function DUF21; Region: DUF21; pfam01595 547146002612 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 547146002613 Transporter associated domain; Region: CorC_HlyC; smart01091 547146002614 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 547146002615 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 547146002616 4Fe-4S binding domain; Region: Fer4; cl02805 547146002617 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 547146002618 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 547146002619 tetrathionate reductase subunit A; Provisional; Region: PRK14991 547146002620 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 547146002621 putative [Fe4-S4] binding site [ion binding]; other site 547146002622 putative molybdopterin cofactor binding site [chemical binding]; other site 547146002623 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 547146002624 putative molybdopterin cofactor binding site; other site 547146002625 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 547146002626 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 547146002627 putative active site [active] 547146002628 putative metal binding site [ion binding]; other site 547146002629 hypothetical protein; Provisional; Region: PRK10621 547146002630 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 547146002631 Amino acid permease; Region: AA_permease_2; pfam13520 547146002632 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 547146002633 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 547146002634 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 547146002635 CoA binding domain; Region: CoA_binding; smart00881 547146002636 CoA-ligase; Region: Ligase_CoA; pfam00549 547146002637 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 547146002638 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 547146002639 CoA-ligase; Region: Ligase_CoA; pfam00549 547146002640 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 547146002641 DNA-binding site [nucleotide binding]; DNA binding site 547146002642 RNA-binding motif; other site 547146002643 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 547146002644 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 547146002645 RNA binding site [nucleotide binding]; other site 547146002646 active site 547146002647 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 547146002648 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 547146002649 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 547146002650 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 547146002651 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 547146002652 DNA binding residues [nucleotide binding] 547146002653 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 547146002654 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 547146002655 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 547146002656 protein binding site [polypeptide binding]; other site 547146002657 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 547146002658 protein binding site [polypeptide binding]; other site 547146002659 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 547146002660 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 547146002661 S-adenosylmethionine binding site [chemical binding]; other site 547146002662 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 547146002663 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 547146002664 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 547146002665 putative ligand binding pocket/active site [active] 547146002666 putative metal binding site [ion binding]; other site 547146002667 AAA domain; Region: AAA_33; pfam13671 547146002668 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 547146002669 active site 547146002670 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 547146002671 Nitrogen regulatory protein P-II; Region: P-II; smart00938 547146002672 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 547146002673 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 547146002674 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 547146002675 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 547146002676 molybdenum-pterin binding domain; Region: Mop; TIGR00638 547146002677 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 547146002678 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 547146002679 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 547146002680 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 547146002681 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 547146002682 dimer interface [polypeptide binding]; other site 547146002683 conserved gate region; other site 547146002684 putative PBP binding loops; other site 547146002685 ABC-ATPase subunit interface; other site 547146002686 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 547146002687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547146002688 Walker A/P-loop; other site 547146002689 ATP binding site [chemical binding]; other site 547146002690 Q-loop/lid; other site 547146002691 ABC transporter signature motif; other site 547146002692 Walker B; other site 547146002693 D-loop; other site 547146002694 H-loop/switch region; other site 547146002695 Nitrogen fixation protein NifW; Region: NifW; cl03935 547146002696 Nitrogen fixation protein NifW; Region: NifW; cl03935 547146002697 NifZ domain; Region: NifZ; pfam04319 547146002698 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 547146002699 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 547146002700 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 547146002701 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 547146002702 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 547146002703 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 547146002704 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 547146002705 dimerization interface [polypeptide binding]; other site 547146002706 active site 547146002707 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 547146002708 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 547146002709 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 547146002710 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 547146002711 catalytic site [active] 547146002712 subunit interface [polypeptide binding]; other site 547146002713 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547146002714 Major Facilitator Superfamily; Region: MFS_1; pfam07690 547146002715 putative substrate translocation pore; other site 547146002716 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 547146002717 putative active site [active] 547146002718 catalytic residue [active] 547146002719 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 547146002720 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 547146002721 5S rRNA interface [nucleotide binding]; other site 547146002722 CTC domain interface [polypeptide binding]; other site 547146002723 L16 interface [polypeptide binding]; other site 547146002724 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 547146002725 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 547146002726 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 547146002727 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 547146002728 NlpC/P60 family; Region: NLPC_P60; pfam00877 547146002729 DNA repair protein RadA; Provisional; Region: PRK11823 547146002730 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 547146002731 Walker A motif/ATP binding site; other site 547146002732 ATP binding site [chemical binding]; other site 547146002733 Walker B motif; other site 547146002734 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 547146002735 Uncharacterized conserved protein [Function unknown]; Region: COG1434 547146002736 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 547146002737 putative active site [active] 547146002738 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 547146002739 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 547146002740 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 547146002741 TPR motif; other site 547146002742 binding surface 547146002743 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 547146002744 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 547146002745 catalytic core [active] 547146002746 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 547146002747 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547146002748 catalytic residue [active] 547146002749 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 547146002750 active site 547146002751 multimer interface [polypeptide binding]; other site 547146002752 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 547146002753 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 547146002754 minor groove reading motif; other site 547146002755 helix-hairpin-helix signature motif; other site 547146002756 substrate binding pocket [chemical binding]; other site 547146002757 active site 547146002758 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 547146002759 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 547146002760 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 547146002761 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 547146002762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547146002763 NAD(P) binding site [chemical binding]; other site 547146002764 active site 547146002765 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 547146002766 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 547146002767 putative ADP-binding pocket [chemical binding]; other site 547146002768 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 547146002769 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547146002770 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547146002771 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 547146002772 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 547146002773 peptide chain release factor 1; Validated; Region: prfA; PRK00591 547146002774 This domain is found in peptide chain release factors; Region: PCRF; smart00937 547146002775 RF-1 domain; Region: RF-1; pfam00472 547146002776 Domain of unknown function (DUF202); Region: DUF202; cl09954 547146002777 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 547146002778 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 547146002779 hinge; other site 547146002780 active site 547146002781 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 547146002782 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 547146002783 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 547146002784 DNA binding residues [nucleotide binding] 547146002785 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 547146002786 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547146002787 putative substrate translocation pore; other site 547146002788 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 547146002789 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 547146002790 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 547146002791 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 547146002792 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 547146002793 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 547146002794 active site 547146002795 substrate binding site [chemical binding]; other site 547146002796 metal binding site [ion binding]; metal-binding site 547146002797 Uncharacterized conserved protein [Function unknown]; Region: COG1432 547146002798 LabA_like proteins; Region: LabA_like/DUF88; cl10034 547146002799 putative metal binding site [ion binding]; other site 547146002800 hypothetical protein; Provisional; Region: PRK04358 547146002801 hypothetical protein; Validated; Region: PRK00068 547146002802 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 547146002803 putative active site [active] 547146002804 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 547146002805 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 547146002806 dimer interface [polypeptide binding]; other site 547146002807 putative anticodon binding site; other site 547146002808 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 547146002809 motif 1; other site 547146002810 active site 547146002811 motif 2; other site 547146002812 motif 3; other site 547146002813 biotin synthase; Region: bioB; TIGR00433 547146002814 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146002815 FeS/SAM binding site; other site 547146002816 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 547146002817 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 547146002818 nucleoside/Zn binding site; other site 547146002819 dimer interface [polypeptide binding]; other site 547146002820 catalytic motif [active] 547146002821 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 547146002822 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 547146002823 RIP metalloprotease RseP; Region: TIGR00054 547146002824 active site 547146002825 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 547146002826 protein binding site [polypeptide binding]; other site 547146002827 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 547146002828 protein binding site [polypeptide binding]; other site 547146002829 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 547146002830 putative substrate binding region [chemical binding]; other site 547146002831 ornithine carbamoyltransferase; Provisional; Region: PRK00779 547146002832 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 547146002833 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 547146002834 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 547146002835 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 547146002836 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547146002837 Walker A/P-loop; other site 547146002838 ATP binding site [chemical binding]; other site 547146002839 Q-loop/lid; other site 547146002840 ABC transporter signature motif; other site 547146002841 Walker B; other site 547146002842 D-loop; other site 547146002843 H-loop/switch region; other site 547146002844 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 547146002845 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 547146002846 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 547146002847 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 547146002848 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 547146002849 23S rRNA interface [nucleotide binding]; other site 547146002850 L3 interface [polypeptide binding]; other site 547146002851 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 547146002852 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 547146002853 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 547146002854 active site 547146002855 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 547146002856 dimer interface [polypeptide binding]; other site 547146002857 substrate binding site [chemical binding]; other site 547146002858 catalytic residues [active] 547146002859 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 547146002860 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 547146002861 HAMP domain; Region: HAMP; pfam00672 547146002862 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 547146002863 dimer interface [polypeptide binding]; other site 547146002864 phosphorylation site [posttranslational modification] 547146002865 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 547146002866 ATP binding site [chemical binding]; other site 547146002867 Mg2+ binding site [ion binding]; other site 547146002868 G-X-G motif; other site 547146002869 translation initiation factor IF-2; Region: IF-2; TIGR00487 547146002870 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 547146002871 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 547146002872 G1 box; other site 547146002873 putative GEF interaction site [polypeptide binding]; other site 547146002874 GTP/Mg2+ binding site [chemical binding]; other site 547146002875 Switch I region; other site 547146002876 G2 box; other site 547146002877 G3 box; other site 547146002878 Switch II region; other site 547146002879 G4 box; other site 547146002880 G5 box; other site 547146002881 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 547146002882 Translation-initiation factor 2; Region: IF-2; pfam11987 547146002883 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 547146002884 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 547146002885 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 547146002886 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 547146002887 beta subunit interaction interface [polypeptide binding]; other site 547146002888 Walker A motif; other site 547146002889 ATP binding site [chemical binding]; other site 547146002890 Walker B motif; other site 547146002891 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 547146002892 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 547146002893 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 547146002894 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 547146002895 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 547146002896 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 547146002897 SmpB-tmRNA interface; other site 547146002898 ribonuclease R; Region: RNase_R; TIGR02063 547146002899 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 547146002900 RNB domain; Region: RNB; pfam00773 547146002901 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 547146002902 RNA binding site [nucleotide binding]; other site 547146002903 Cytochrome c; Region: Cytochrom_C; cl11414 547146002904 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 547146002905 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 547146002906 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 547146002907 alpha subunit interaction interface [polypeptide binding]; other site 547146002908 Walker A motif; other site 547146002909 ATP binding site [chemical binding]; other site 547146002910 Walker B motif; other site 547146002911 inhibitor binding site; inhibition site 547146002912 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 547146002913 Predicted integral membrane protein [Function unknown]; Region: COG5616 547146002914 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 547146002915 ATP-grasp domain; Region: ATP-grasp; pfam02222 547146002916 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 547146002917 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 547146002918 active site 547146002919 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 547146002920 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 547146002921 DNA topoisomerase III; Provisional; Region: PRK07726 547146002922 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 547146002923 active site 547146002924 putative interdomain interaction site [polypeptide binding]; other site 547146002925 putative metal-binding site [ion binding]; other site 547146002926 putative nucleotide binding site [chemical binding]; other site 547146002927 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 547146002928 domain I; other site 547146002929 phosphate binding site [ion binding]; other site 547146002930 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 547146002931 domain II; other site 547146002932 domain III; other site 547146002933 nucleotide binding site [chemical binding]; other site 547146002934 DNA binding groove [nucleotide binding] 547146002935 catalytic site [active] 547146002936 domain IV; other site 547146002937 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 547146002938 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 547146002939 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 547146002940 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 547146002941 N-acetyl-D-glucosamine binding site [chemical binding]; other site 547146002942 catalytic residue [active] 547146002943 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 547146002944 binding surface 547146002945 TPR motif; other site 547146002946 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 547146002947 binding surface 547146002948 Tetratricopeptide repeat; Region: TPR_16; pfam13432 547146002949 TPR motif; other site 547146002950 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 547146002951 binding surface 547146002952 TPR motif; other site 547146002953 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 547146002954 TPR repeat; Region: TPR_11; pfam13414 547146002955 binding surface 547146002956 TPR motif; other site 547146002957 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 547146002958 binding surface 547146002959 TPR motif; other site 547146002960 TPR repeat; Region: TPR_11; pfam13414 547146002961 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 547146002962 Ligand Binding Site [chemical binding]; other site 547146002963 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 547146002964 Ligand Binding Site [chemical binding]; other site 547146002965 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 547146002966 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 547146002967 active site 547146002968 dimerization interface [polypeptide binding]; other site 547146002969 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 547146002970 intersubunit interface [polypeptide binding]; other site 547146002971 active site 547146002972 Zn2+ binding site [ion binding]; other site 547146002973 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 547146002974 UbiA prenyltransferase family; Region: UbiA; pfam01040 547146002975 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 547146002976 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 547146002977 ADP binding site [chemical binding]; other site 547146002978 magnesium binding site [ion binding]; other site 547146002979 putative shikimate binding site; other site 547146002980 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 547146002981 Sporulation related domain; Region: SPOR; cl10051 547146002982 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 547146002983 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 547146002984 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 547146002985 dimer interface [polypeptide binding]; other site 547146002986 motif 1; other site 547146002987 active site 547146002988 motif 2; other site 547146002989 motif 3; other site 547146002990 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 547146002991 23S rRNA binding site [nucleotide binding]; other site 547146002992 L21 binding site [polypeptide binding]; other site 547146002993 L13 binding site [polypeptide binding]; other site 547146002994 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 547146002995 RNA/DNA hybrid binding site [nucleotide binding]; other site 547146002996 active site 547146002997 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 547146002998 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 547146002999 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 547146003000 gating phenylalanine in ion channel; other site 547146003001 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 547146003002 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 547146003003 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 547146003004 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 547146003005 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 547146003006 dimerization interface [polypeptide binding]; other site 547146003007 active site 547146003008 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 547146003009 IHF - DNA interface [nucleotide binding]; other site 547146003010 IHF dimer interface [polypeptide binding]; other site 547146003011 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 547146003012 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 547146003013 S-adenosylmethionine binding site [chemical binding]; other site 547146003014 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 547146003015 DNA binding site [nucleotide binding] 547146003016 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 547146003017 active site 547146003018 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 547146003019 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 547146003020 HIGH motif; other site 547146003021 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 547146003022 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 547146003023 DJ-1 family protein; Region: not_thiJ; TIGR01383 547146003024 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 547146003025 conserved cys residue [active] 547146003026 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]; Region: COG1144 547146003027 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 547146003028 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 547146003029 TPP-binding site; other site 547146003030 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 547146003031 PYR/PP interface [polypeptide binding]; other site 547146003032 dimer interface [polypeptide binding]; other site 547146003033 TPP binding site [chemical binding]; other site 547146003034 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 547146003035 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 547146003036 active site 547146003037 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 547146003038 Catalytic domain of Protein Kinases; Region: PKc; cd00180 547146003039 active site 547146003040 ATP binding site [chemical binding]; other site 547146003041 substrate binding site [chemical binding]; other site 547146003042 activation loop (A-loop); other site 547146003043 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 547146003044 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 547146003045 dimerization interface 3.5A [polypeptide binding]; other site 547146003046 active site 547146003047 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 547146003048 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 547146003049 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 547146003050 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 547146003051 dimerization domain [polypeptide binding]; other site 547146003052 dimer interface [polypeptide binding]; other site 547146003053 catalytic residues [active] 547146003054 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 547146003055 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 547146003056 putative active site [active] 547146003057 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 547146003058 glutamate synthase (NADPH), homotetrameric; Region: gltA; TIGR01316 547146003059 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 547146003060 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547146003061 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 547146003062 FAD binding pocket [chemical binding]; other site 547146003063 conserved FAD binding motif [chemical binding]; other site 547146003064 phosphate binding motif [ion binding]; other site 547146003065 beta-alpha-beta structure motif; other site 547146003066 NAD binding pocket [chemical binding]; other site 547146003067 Uncharacterized homolog of biotin synthetase [Function unknown]; Region: COG1856 547146003068 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146003069 FeS/SAM binding site; other site 547146003070 DsrE/DsrF-like family; Region: DrsE; pfam02635 547146003071 glycine cleavage system protein H; Provisional; Region: PRK13380 547146003072 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 547146003073 lipoyl attachment site [posttranslational modification]; other site 547146003074 Predicted peroxiredoxins [General function prediction only]; Region: COG2044 547146003075 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 547146003076 glycine cleavage system protein H; Provisional; Region: PRK13380 547146003077 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 547146003078 lipoyl attachment site [posttranslational modification]; other site 547146003079 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 547146003080 Cysteine-rich domain; Region: CCG; pfam02754 547146003081 Cysteine-rich domain; Region: CCG; pfam02754 547146003082 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 547146003083 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 547146003084 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547146003085 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 547146003086 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 547146003087 Cysteine-rich domain; Region: CCG; pfam02754 547146003088 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 547146003089 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 547146003090 Predicted peroxiredoxins [General function prediction only]; Region: COG2044 547146003091 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 547146003092 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 547146003093 CPxP motif; other site 547146003094 Protein of unknown function (DUF507); Region: DUF507; pfam04368 547146003095 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 547146003096 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 547146003097 gamma subunit interface [polypeptide binding]; other site 547146003098 epsilon subunit interface [polypeptide binding]; other site 547146003099 LBP interface [polypeptide binding]; other site 547146003100 DNA polymerase III subunit beta; Validated; Region: PRK05643 547146003101 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 547146003102 putative DNA binding surface [nucleotide binding]; other site 547146003103 dimer interface [polypeptide binding]; other site 547146003104 beta-clamp/clamp loader binding surface; other site 547146003105 beta-clamp/translesion DNA polymerase binding surface; other site 547146003106 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 547146003107 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 547146003108 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 547146003109 active site 547146003110 metal binding site [ion binding]; metal-binding site 547146003111 DNA binding site [nucleotide binding] 547146003112 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 547146003113 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 547146003114 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 547146003115 AIR carboxylase; Region: AIRC; pfam00731 547146003116 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547146003117 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 547146003118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146003119 homodimer interface [polypeptide binding]; other site 547146003120 catalytic residue [active] 547146003121 Predicted transcriptional regulators [Transcription]; Region: COG1733 547146003122 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 547146003123 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 547146003124 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 547146003125 GDP-binding site [chemical binding]; other site 547146003126 ACT binding site; other site 547146003127 IMP binding site; other site 547146003128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 547146003129 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 547146003130 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 547146003131 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 547146003132 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 547146003133 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 547146003134 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 547146003135 ATP binding site [chemical binding]; other site 547146003136 active site 547146003137 substrate binding site [chemical binding]; other site 547146003138 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 547146003139 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 547146003140 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 547146003141 AAA domain; Region: AAA_12; pfam13087 547146003142 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 547146003143 putative active site [active] 547146003144 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 547146003145 Sel1-like repeats; Region: SEL1; smart00671 547146003146 Sel1-like repeats; Region: SEL1; smart00671 547146003147 Sel1-like repeats; Region: SEL1; smart00671 547146003148 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 547146003149 hypothetical protein; Provisional; Region: PRK09956 547146003150 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 547146003151 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 547146003152 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 547146003153 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 547146003154 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 547146003155 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 547146003156 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 547146003157 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 547146003158 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 547146003159 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 547146003160 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 547146003161 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 547146003162 30S subunit binding site; other site 547146003163 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 547146003164 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 547146003165 nudix motif; other site 547146003166 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 547146003167 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 547146003168 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 547146003169 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 547146003170 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 547146003171 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 547146003172 active site 547146003173 HIGH motif; other site 547146003174 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 547146003175 KMSKS motif; other site 547146003176 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 547146003177 tRNA binding surface [nucleotide binding]; other site 547146003178 anticodon binding site; other site 547146003179 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 547146003180 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 547146003181 binding surface 547146003182 TPR motif; other site 547146003183 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 547146003184 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 547146003185 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 547146003186 ThiC family; Region: ThiC; pfam01964 547146003187 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 547146003188 hypothetical protein; Provisional; Region: PRK11820 547146003189 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 547146003190 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 547146003191 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 547146003192 active site 547146003193 Uncharacterized conserved protein [Function unknown]; Region: COG0011 547146003194 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 547146003195 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 547146003196 Low molecular weight phosphatase family; Region: LMWPc; cl00105 547146003197 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 547146003198 active site 547146003199 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 547146003200 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547146003201 Coenzyme A binding pocket [chemical binding]; other site 547146003202 Protein of unknown function, DUF488; Region: DUF488; cl01246 547146003203 Dienelactone hydrolase family; Region: DLH; pfam01738 547146003204 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 547146003205 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 547146003206 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 547146003207 ATP binding site [chemical binding]; other site 547146003208 Mg2+ binding site [ion binding]; other site 547146003209 G-X-G motif; other site 547146003210 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 547146003211 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 547146003212 Catalytic site [active] 547146003213 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 547146003214 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 547146003215 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 547146003216 dimer interface [polypeptide binding]; other site 547146003217 putative functional site; other site 547146003218 putative MPT binding site; other site 547146003219 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 547146003220 thiS-thiF/thiG interaction site; other site 547146003221 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 547146003222 ThiS interaction site; other site 547146003223 putative active site [active] 547146003224 tetramer interface [polypeptide binding]; other site 547146003225 protoporphyrinogen oxidase; Region: PLN02576 547146003226 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 547146003227 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 547146003228 S-adenosylmethionine binding site [chemical binding]; other site 547146003229 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 547146003230 active site 547146003231 NTP binding site [chemical binding]; other site 547146003232 metal binding triad [ion binding]; metal-binding site 547146003233 antibiotic binding site [chemical binding]; other site 547146003234 Protein of unknown function DUF86; Region: DUF86; cl01031 547146003235 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 547146003236 Oligomerisation domain; Region: Oligomerisation; pfam02410 547146003237 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 547146003238 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 547146003239 active site 547146003240 phosphorylation site [posttranslational modification] 547146003241 intermolecular recognition site; other site 547146003242 dimerization interface [polypeptide binding]; other site 547146003243 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547146003244 DNA binding site [nucleotide binding] 547146003245 MutS2 family protein; Region: mutS2; TIGR01069 547146003246 MutS domain III; Region: MutS_III; pfam05192 547146003247 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547146003248 Walker A/P-loop; other site 547146003249 ATP binding site [chemical binding]; other site 547146003250 Q-loop/lid; other site 547146003251 ABC transporter signature motif; other site 547146003252 Walker B; other site 547146003253 D-loop; other site 547146003254 H-loop/switch region; other site 547146003255 Smr domain; Region: Smr; pfam01713 547146003256 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 547146003257 Mechanosensitive ion channel; Region: MS_channel; pfam00924 547146003258 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 547146003259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547146003260 NAD(P) binding site [chemical binding]; other site 547146003261 active site 547146003262 hypothetical protein; Provisional; Region: PRK07233 547146003263 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 547146003264 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 547146003265 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 547146003266 GAF domain; Region: GAF; pfam01590 547146003267 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 547146003268 Walker A motif; other site 547146003269 ATP binding site [chemical binding]; other site 547146003270 Walker B motif; other site 547146003271 arginine finger; other site 547146003272 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 547146003273 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 547146003274 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 547146003275 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 547146003276 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 547146003277 NlpC/P60 family; Region: NLPC_P60; pfam00877 547146003278 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 547146003279 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 547146003280 homotrimer interaction site [polypeptide binding]; other site 547146003281 zinc binding site [ion binding]; other site 547146003282 CDP-binding sites; other site 547146003283 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 547146003284 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 547146003285 active site 547146003286 nucleophile elbow; other site 547146003287 Cytochrome c; Region: Cytochrom_C; cl11414 547146003288 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 547146003289 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 547146003290 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 547146003291 protein binding site [polypeptide binding]; other site 547146003292 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 547146003293 protein binding site [polypeptide binding]; other site 547146003294 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 547146003295 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 547146003296 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 547146003297 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 547146003298 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 547146003299 Cysteine-rich domain; Region: CCG; pfam02754 547146003300 Cysteine-rich domain; Region: CCG; pfam02754 547146003301 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 547146003302 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 547146003303 tetramer interfaces [polypeptide binding]; other site 547146003304 binuclear metal-binding site [ion binding]; other site 547146003305 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 547146003306 FOG: CBS domain [General function prediction only]; Region: COG0517 547146003307 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 547146003308 FOG: CBS domain [General function prediction only]; Region: COG0517 547146003309 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 547146003310 PAS domain; Region: PAS_9; pfam13426 547146003311 PAS domain S-box; Region: sensory_box; TIGR00229 547146003312 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547146003313 putative active site [active] 547146003314 heme pocket [chemical binding]; other site 547146003315 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 547146003316 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 547146003317 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547146003318 metal binding site [ion binding]; metal-binding site 547146003319 active site 547146003320 I-site; other site 547146003321 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 547146003322 thiamine phosphate binding site [chemical binding]; other site 547146003323 active site 547146003324 pyrophosphate binding site [ion binding]; other site 547146003325 CRISPR-associated autoregulator DevR family; Region: cas_MJ0381; TIGR01875 547146003326 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cd09650 547146003327 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 547146003328 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 547146003329 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 547146003330 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 547146003331 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 547146003332 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 547146003333 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 547146003334 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 547146003335 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 547146003336 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 547146003337 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 547146003338 2-isopropylmalate synthase; Validated; Region: PRK00915 547146003339 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 547146003340 active site 547146003341 catalytic residues [active] 547146003342 metal binding site [ion binding]; metal-binding site 547146003343 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 547146003344 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 547146003345 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 547146003346 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 547146003347 shikimate binding site; other site 547146003348 NAD(P) binding site [chemical binding]; other site 547146003349 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 547146003350 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 547146003351 Mg++ binding site [ion binding]; other site 547146003352 putative catalytic motif [active] 547146003353 putative substrate binding site [chemical binding]; other site 547146003354 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; cl17853 547146003355 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 547146003356 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 547146003357 PLD-like domain; Region: PLDc_2; pfam13091 547146003358 putative active site [active] 547146003359 catalytic site [active] 547146003360 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 547146003361 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 547146003362 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 547146003363 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 547146003364 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 547146003365 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 547146003366 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 547146003367 PilZ domain; Region: PilZ; pfam07238 547146003368 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 547146003369 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 547146003370 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 547146003371 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 547146003372 Uncharacterized conserved protein [Function unknown]; Region: COG1432 547146003373 LabA_like proteins; Region: LabA; cd10911 547146003374 putative metal binding site [ion binding]; other site 547146003375 GrpE; Region: GrpE; pfam01025 547146003376 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 547146003377 dimer interface [polypeptide binding]; other site 547146003378 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 547146003379 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 547146003380 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 547146003381 tandem repeat interface [polypeptide binding]; other site 547146003382 oligomer interface [polypeptide binding]; other site 547146003383 active site residues [active] 547146003384 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 547146003385 active site 547146003386 ribulose/triose binding site [chemical binding]; other site 547146003387 phosphate binding site [ion binding]; other site 547146003388 substrate (anthranilate) binding pocket [chemical binding]; other site 547146003389 product (indole) binding pocket [chemical binding]; other site 547146003390 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 547146003391 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 547146003392 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 547146003393 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 547146003394 substrate binding site [chemical binding]; other site 547146003395 active site 547146003396 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 547146003397 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 547146003398 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 547146003399 putative valine binding site [chemical binding]; other site 547146003400 dimer interface [polypeptide binding]; other site 547146003401 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 547146003402 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 547146003403 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 547146003404 PYR/PP interface [polypeptide binding]; other site 547146003405 dimer interface [polypeptide binding]; other site 547146003406 TPP binding site [chemical binding]; other site 547146003407 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 547146003408 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 547146003409 TPP-binding site [chemical binding]; other site 547146003410 dimer interface [polypeptide binding]; other site 547146003411 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 547146003412 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 547146003413 active site 547146003414 catalytic residues [active] 547146003415 metal binding site [ion binding]; metal-binding site 547146003416 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 547146003417 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 547146003418 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 547146003419 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 547146003420 active site 547146003421 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 547146003422 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 547146003423 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547146003424 DNA binding site [nucleotide binding] 547146003425 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 547146003426 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 547146003427 active site 547146003428 dimer interface [polypeptide binding]; other site 547146003429 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 547146003430 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 547146003431 active site 547146003432 FMN binding site [chemical binding]; other site 547146003433 substrate binding site [chemical binding]; other site 547146003434 3Fe-4S cluster binding site [ion binding]; other site 547146003435 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 547146003436 domain interface; other site 547146003437 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 547146003438 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 547146003439 apolar tunnel; other site 547146003440 heme binding site [chemical binding]; other site 547146003441 dimerization interface [polypeptide binding]; other site 547146003442 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 547146003443 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 547146003444 ligand binding site [chemical binding]; other site 547146003445 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 547146003446 putative switch regulator; other site 547146003447 non-specific DNA interactions [nucleotide binding]; other site 547146003448 DNA binding site [nucleotide binding] 547146003449 putative cAMP binding site [chemical binding]; other site 547146003450 sequence specific DNA binding site [nucleotide binding]; other site 547146003451 tRNA synthetases class I (I, L, M and V); Region: tRNA-synt_1; pfam00133 547146003452 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 547146003453 active site 547146003454 HIGH motif; other site 547146003455 nucleotide binding site [chemical binding]; other site 547146003456 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 547146003457 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 547146003458 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 547146003459 active site 547146003460 KMSKS motif; other site 547146003461 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 547146003462 tRNA binding surface [nucleotide binding]; other site 547146003463 anticodon binding site; other site 547146003464 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 547146003465 Peptidase family M23; Region: Peptidase_M23; pfam01551 547146003466 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 547146003467 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 547146003468 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional; Region: PRK04338 547146003469 Methyltransferase domain; Region: Methyltransf_18; pfam12847 547146003470 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 547146003471 putative active site [active] 547146003472 putative metal binding site [ion binding]; other site 547146003473 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 547146003474 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 547146003475 dimer interface [polypeptide binding]; other site 547146003476 putative radical transfer pathway; other site 547146003477 diiron center [ion binding]; other site 547146003478 tyrosyl radical; other site 547146003479 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 547146003480 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 547146003481 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 547146003482 bacterial Hfq-like; Region: Hfq; cd01716 547146003483 hexamer interface [polypeptide binding]; other site 547146003484 Sm1 motif; other site 547146003485 RNA binding site [nucleotide binding]; other site 547146003486 Sm2 motif; other site 547146003487 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 547146003488 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 547146003489 HflX GTPase family; Region: HflX; cd01878 547146003490 G1 box; other site 547146003491 GTP/Mg2+ binding site [chemical binding]; other site 547146003492 Switch I region; other site 547146003493 G2 box; other site 547146003494 G3 box; other site 547146003495 Switch II region; other site 547146003496 G4 box; other site 547146003497 G5 box; other site 547146003498 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 547146003499 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 547146003500 active site 547146003501 catalytic tetrad [active] 547146003502 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 547146003503 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 547146003504 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 547146003505 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 547146003506 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 547146003507 MPN+ (JAMM) motif; other site 547146003508 Zinc-binding site [ion binding]; other site 547146003509 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 547146003510 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 547146003511 domain interfaces; other site 547146003512 active site 547146003513 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 547146003514 active site 547146003515 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 547146003516 active site 547146003517 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 547146003518 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146003519 FeS/SAM binding site; other site 547146003520 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 547146003521 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547146003522 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547146003523 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 547146003524 Aspartyl protease; Region: Asp_protease_2; pfam13650 547146003525 inhibitor binding site; inhibition site 547146003526 catalytic motif [active] 547146003527 Catalytic residue [active] 547146003528 Active site flap [active] 547146003529 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 547146003530 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 547146003531 substrate binding pocket [chemical binding]; other site 547146003532 chain length determination region; other site 547146003533 substrate-Mg2+ binding site; other site 547146003534 catalytic residues [active] 547146003535 aspartate-rich region 1; other site 547146003536 active site lid residues [active] 547146003537 aspartate-rich region 2; other site 547146003538 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 547146003539 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 547146003540 heterodimer interface [polypeptide binding]; other site 547146003541 active site 547146003542 FMN binding site [chemical binding]; other site 547146003543 homodimer interface [polypeptide binding]; other site 547146003544 substrate binding site [chemical binding]; other site 547146003545 Uncharacterized conserved protein [Function unknown]; Region: COG2361 547146003546 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 547146003547 active site 547146003548 NTP binding site [chemical binding]; other site 547146003549 metal binding triad [ion binding]; metal-binding site 547146003550 antibiotic binding site [chemical binding]; other site 547146003551 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14667 547146003552 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 547146003553 GIY-YIG motif/motif A; other site 547146003554 active site 547146003555 catalytic site [active] 547146003556 putative DNA binding site [nucleotide binding]; other site 547146003557 metal binding site [ion binding]; metal-binding site 547146003558 UvrB/uvrC motif; Region: UVR; pfam02151 547146003559 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 547146003560 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 547146003561 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 547146003562 ATP binding site [chemical binding]; other site 547146003563 Mg2+ binding site [ion binding]; other site 547146003564 G-X-G motif; other site 547146003565 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 547146003566 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 547146003567 active site 547146003568 phosphorylation site [posttranslational modification] 547146003569 intermolecular recognition site; other site 547146003570 dimerization interface [polypeptide binding]; other site 547146003571 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 547146003572 DNA binding site [nucleotide binding] 547146003573 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 547146003574 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 547146003575 substrate binding site [chemical binding]; other site 547146003576 active site 547146003577 catalytic residues [active] 547146003578 heterodimer interface [polypeptide binding]; other site 547146003579 ribosome recycling factor; Reviewed; Region: frr; PRK00083 547146003580 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 547146003581 hinge region; other site 547146003582 bacterial Hfq-like; Region: Hfq; cd01716 547146003583 hexamer interface [polypeptide binding]; other site 547146003584 Sm1 motif; other site 547146003585 RNA binding site [nucleotide binding]; other site 547146003586 Sm2 motif; other site 547146003587 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 547146003588 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 547146003589 catalytic residue [active] 547146003590 putative FPP diphosphate binding site; other site 547146003591 putative FPP binding hydrophobic cleft; other site 547146003592 dimer interface [polypeptide binding]; other site 547146003593 putative IPP diphosphate binding site; other site 547146003594 enolase; Provisional; Region: eno; PRK00077 547146003595 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 547146003596 dimer interface [polypeptide binding]; other site 547146003597 metal binding site [ion binding]; metal-binding site 547146003598 substrate binding pocket [chemical binding]; other site 547146003599 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 547146003600 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 547146003601 dimerization interface [polypeptide binding]; other site 547146003602 ATP binding site [chemical binding]; other site 547146003603 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 547146003604 dimerization interface [polypeptide binding]; other site 547146003605 ATP binding site [chemical binding]; other site 547146003606 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 547146003607 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 547146003608 active site 547146003609 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 547146003610 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 547146003611 active site 547146003612 substrate binding site [chemical binding]; other site 547146003613 cosubstrate binding site; other site 547146003614 catalytic site [active] 547146003615 tartrate dehydrogenase; Region: TTC; TIGR02089 547146003616 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 547146003617 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 547146003618 catalytic residues [active] 547146003619 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 547146003620 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 547146003621 ssDNA binding site; other site 547146003622 generic binding surface II; other site 547146003623 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 547146003624 ATP binding site [chemical binding]; other site 547146003625 putative Mg++ binding site [ion binding]; other site 547146003626 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 547146003627 nucleotide binding region [chemical binding]; other site 547146003628 ATP-binding site [chemical binding]; other site 547146003629 Family of unknown function (DUF490); Region: DUF490; pfam04357 547146003630 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 547146003631 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 547146003632 CoA binding domain; Region: CoA_binding; smart00881 547146003633 CoA-ligase; Region: Ligase_CoA; pfam00549 547146003634 Succinyl-CoA synthetase, beta subunit [Energy production and conversion]; Region: SucC; COG0045 547146003635 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 547146003636 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 547146003637 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 547146003638 active site 547146003639 phosphorylation site [posttranslational modification] 547146003640 intermolecular recognition site; other site 547146003641 dimerization interface [polypeptide binding]; other site 547146003642 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547146003643 DNA binding site [nucleotide binding] 547146003644 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 547146003645 RimM N-terminal domain; Region: RimM; pfam01782 547146003646 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 547146003647 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 547146003648 flagellin; Reviewed; Region: PRK08869 547146003649 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 547146003650 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 547146003651 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 547146003652 active site 547146003653 Riboflavin kinase; Region: Flavokinase; smart00904 547146003654 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 547146003655 putative nucleotide binding site [chemical binding]; other site 547146003656 uridine monophosphate binding site [chemical binding]; other site 547146003657 homohexameric interface [polypeptide binding]; other site 547146003658 elongation factor Ts; Provisional; Region: tsf; PRK09377 547146003659 UBA/TS-N domain; Region: UBA; pfam00627 547146003660 Elongation factor TS; Region: EF_TS; pfam00889 547146003661 Elongation factor TS; Region: EF_TS; pfam00889 547146003662 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 547146003663 rRNA interaction site [nucleotide binding]; other site 547146003664 S8 interaction site; other site 547146003665 putative laminin-1 binding site; other site 547146003666 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 547146003667 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 547146003668 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 547146003669 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 547146003670 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 547146003671 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 547146003672 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 547146003673 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 547146003674 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 547146003675 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 547146003676 Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase; Region: Glucosamine_iso; pfam01182 547146003677 active site 547146003678 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 547146003679 TPR motif; other site 547146003680 binding surface 547146003681 HDOD domain; Region: HDOD; pfam08668 547146003682 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 547146003683 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 547146003684 substrate binding site; other site 547146003685 dimer interface; other site 547146003686 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 547146003687 active site 547146003688 DsrH like protein; Region: DsrH; cl17347 547146003689 DsrE/DsrF-like family; Region: DrsE; pfam02635 547146003690 DsrE/DsrF-like family; Region: DrsE; pfam02635 547146003691 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 547146003692 CPxP motif; other site 547146003693 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 547146003694 AAA domain; Region: AAA_14; pfam13173 547146003695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547146003696 pteridine reductase; Provisional; Region: PRK09135 547146003697 NAD(P) binding site [chemical binding]; other site 547146003698 active site 547146003699 glutamate racemase; Provisional; Region: PRK00865 547146003700 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 547146003701 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 547146003702 sequence-specific DNA binding site [nucleotide binding]; other site 547146003703 salt bridge; other site 547146003704 HipA N-terminal domain; Region: Couple_hipA; pfam13657 547146003705 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 547146003706 HipA-like N-terminal domain; Region: HipA_N; pfam07805 547146003707 HipA-like C-terminal domain; Region: HipA_C; pfam07804 547146003708 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 547146003709 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 547146003710 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 547146003711 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 547146003712 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 547146003713 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 547146003714 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 547146003715 NADH dehydrogenase; Region: NADHdh; cl00469 547146003716 hydrogenase membrane subunit; Validated; Region: PRK08667 547146003717 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 547146003718 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 547146003719 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 547146003720 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 547146003721 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 547146003722 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 547146003723 active site 547146003724 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 547146003725 active site 547146003726 HslU subunit interaction site [polypeptide binding]; other site 547146003727 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 547146003728 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 547146003729 TPP-binding site [chemical binding]; other site 547146003730 dimer interface [polypeptide binding]; other site 547146003731 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 547146003732 PYR/PP interface [polypeptide binding]; other site 547146003733 dimer interface [polypeptide binding]; other site 547146003734 TPP binding site [chemical binding]; other site 547146003735 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 547146003736 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 547146003737 active site residue [active] 547146003738 Ferritin-like domain; Region: Ferritin; pfam00210 547146003739 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 547146003740 dinuclear metal binding motif [ion binding]; other site 547146003741 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 547146003742 dinuclear metal binding motif [ion binding]; other site 547146003743 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 547146003744 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 547146003745 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 547146003746 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547146003747 metal binding site [ion binding]; metal-binding site 547146003748 active site 547146003749 I-site; other site 547146003750 TQO small subunit DoxD; Region: DoxD; pfam04173 547146003751 TQO small subunit DoxA; Region: DoxA; pfam07680 547146003752 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 547146003753 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 547146003754 N-acetyl-D-glucosamine binding site [chemical binding]; other site 547146003755 catalytic residue [active] 547146003756 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 547146003757 metal ion-dependent adhesion site (MIDAS); other site 547146003758 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 547146003759 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 547146003760 Ribosome-binding factor A; Region: RBFA; pfam02033 547146003761 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 547146003762 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 547146003763 active site 547146003764 phosphorylation site [posttranslational modification] 547146003765 intermolecular recognition site; other site 547146003766 dimerization interface [polypeptide binding]; other site 547146003767 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 547146003768 Walker A motif; other site 547146003769 ATP binding site [chemical binding]; other site 547146003770 Walker B motif; other site 547146003771 arginine finger; other site 547146003772 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 547146003773 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14953 547146003774 DNA polymerase III subunit delta'; Validated; Region: PRK08485 547146003775 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 547146003776 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 547146003777 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 547146003778 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 547146003779 DHH family; Region: DHH; pfam01368 547146003780 DHHA1 domain; Region: DHHA1; pfam02272 547146003781 Uncharacterized metal-binding protein (DUF2227); Region: DUF2227; cl01017 547146003782 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 547146003783 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 547146003784 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 547146003785 homodimer interface [polypeptide binding]; other site 547146003786 substrate-cofactor binding pocket; other site 547146003787 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146003788 catalytic residue [active] 547146003789 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 547146003790 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 547146003791 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 547146003792 dimerization interface [polypeptide binding]; other site 547146003793 active site 547146003794 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 547146003795 putative active site [active] 547146003796 catalytic triad [active] 547146003797 putative dimer interface [polypeptide binding]; other site 547146003798 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 547146003799 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 547146003800 Walker A motif; other site 547146003801 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 547146003802 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 547146003803 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547146003804 catalytic residue [active] 547146003805 Transcriptional regulator [Transcription]; Region: LysR; COG0583 547146003806 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547146003807 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 547146003808 putative dimerization interface [polypeptide binding]; other site 547146003809 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 547146003810 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548; Region: HAD-SF-IA-hyp1 547146003811 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 547146003812 HSP70 interaction site [polypeptide binding]; other site 547146003813 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 547146003814 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 547146003815 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547146003816 Walker A/P-loop; other site 547146003817 ATP binding site [chemical binding]; other site 547146003818 Q-loop/lid; other site 547146003819 ABC transporter signature motif; other site 547146003820 Walker B; other site 547146003821 D-loop; other site 547146003822 H-loop/switch region; other site 547146003823 Septum formation topological specificity factor MinE; Region: MinE; cl00538 547146003824 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 547146003825 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 547146003826 P-loop; other site 547146003827 ADP binding residues [chemical binding]; other site 547146003828 Switch I; other site 547146003829 Switch II; other site 547146003830 septum site-determining protein MinC; Region: minC; TIGR01222 547146003831 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 547146003832 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 547146003833 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 547146003834 S-adenosylmethionine binding site [chemical binding]; other site 547146003835 triosephosphate isomerase; Provisional; Region: PRK14565 547146003836 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 547146003837 substrate binding site [chemical binding]; other site 547146003838 dimer interface [polypeptide binding]; other site 547146003839 catalytic triad [active] 547146003840 PAS domain S-box; Region: sensory_box; TIGR00229 547146003841 PAS domain S-box; Region: sensory_box; TIGR00229 547146003842 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547146003843 putative active site [active] 547146003844 heme pocket [chemical binding]; other site 547146003845 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 547146003846 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547146003847 metal binding site [ion binding]; metal-binding site 547146003848 active site 547146003849 I-site; other site 547146003850 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 547146003851 Uncharacterized conserved protein [Function unknown]; Region: COG3334 547146003852 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 547146003853 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 547146003854 Zn2+ binding site [ion binding]; other site 547146003855 Mg2+ binding site [ion binding]; other site 547146003856 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 547146003857 synthetase active site [active] 547146003858 NTP binding site [chemical binding]; other site 547146003859 metal binding site [ion binding]; metal-binding site 547146003860 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 547146003861 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 547146003862 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 547146003863 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 547146003864 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 547146003865 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 547146003866 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 547146003867 lipoyl attachment site [posttranslational modification]; other site 547146003868 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 547146003869 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 547146003870 homodimer interface [polypeptide binding]; other site 547146003871 substrate-cofactor binding pocket; other site 547146003872 catalytic residue [active] 547146003873 phosphoglycolate phosphatase; Provisional; Region: PRK13222 547146003874 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 547146003875 motif II; other site 547146003876 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 547146003877 S-adenosylmethionine binding site [chemical binding]; other site 547146003878 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 547146003879 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 547146003880 dimer interface [polypeptide binding]; other site 547146003881 active site 547146003882 Competence protein; Region: Competence; pfam03772 547146003883 acetylornithine aminotransferase; Provisional; Region: PRK02627 547146003884 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 547146003885 inhibitor-cofactor binding pocket; inhibition site 547146003886 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146003887 catalytic residue [active] 547146003888 recombinase A; Provisional; Region: recA; PRK09354 547146003889 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 547146003890 hexamer interface [polypeptide binding]; other site 547146003891 Walker A motif; other site 547146003892 ATP binding site [chemical binding]; other site 547146003893 Walker B motif; other site 547146003894 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 547146003895 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 547146003896 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 547146003897 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 547146003898 Soluble P-type ATPase [General function prediction only]; Region: COG4087 547146003899 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 547146003900 Flagellar L-ring protein; Region: FlgH; pfam02107 547146003901 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 547146003902 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 547146003903 ATP-grasp domain; Region: ATP-grasp_4; cl17255 547146003904 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 547146003905 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 547146003906 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 547146003907 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 547146003908 active site 547146003909 citrylCoA binding site [chemical binding]; other site 547146003910 oxalacetate binding site [chemical binding]; other site 547146003911 coenzyme A binding site [chemical binding]; other site 547146003912 catalytic triad [active] 547146003913 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 547146003914 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 547146003915 ATP binding site [chemical binding]; other site 547146003916 substrate interface [chemical binding]; other site 547146003917 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 547146003918 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 547146003919 inhibitor-cofactor binding pocket; inhibition site 547146003920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547146003921 catalytic residue [active] 547146003922 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 547146003923 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 547146003924 putative active site [active] 547146003925 oxyanion strand; other site 547146003926 catalytic triad [active] 547146003927 Protein of unknown function (DUF328); Region: DUF328; cl01143 547146003928 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 547146003929 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 547146003930 Ligand binding site; other site 547146003931 Putative Catalytic site; other site 547146003932 DXD motif; other site 547146003933 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 547146003934 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 547146003935 active site 547146003936 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 547146003937 Protein export membrane protein; Region: SecD_SecF; cl14618 547146003938 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 547146003939 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 547146003940 HlyD family secretion protein; Region: HlyD_3; pfam13437 547146003941 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 547146003942 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 547146003943 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 547146003944 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14467 547146003945 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146003946 FeS/SAM binding site; other site 547146003947 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 547146003948 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 547146003949 catalytic triad [active] 547146003950 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 547146003951 dimer interface [polypeptide binding]; other site 547146003952 [2Fe-2S] cluster binding site [ion binding]; other site 547146003953 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 547146003954 High-affinity nickel-transport protein; Region: NicO; cl00964 547146003955 nickel responsive regulator; Provisional; Region: PRK00630 547146003956 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 547146003957 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 547146003958 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 547146003959 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 547146003960 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 547146003961 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 547146003962 nucleotide binding site [chemical binding]; other site 547146003963 NEF interaction site [polypeptide binding]; other site 547146003964 SBD interface [polypeptide binding]; other site 547146003965 KaiC domain protein, AF_0795 family; Region: thermo_KaiC_2; TIGR03878 547146003966 KaiC; Region: KaiC; pfam06745 547146003967 Walker A motif; other site 547146003968 ATP binding site [chemical binding]; other site 547146003969 Walker B motif; other site 547146003970 Predicted transcriptional regulators [Transcription]; Region: COG1318 547146003971 probable regulatory domain; Region: near_KaiC_dom; TIGR03879 547146003972 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547146003973 PAS domain; Region: PAS_9; pfam13426 547146003974 putative active site [active] 547146003975 heme pocket [chemical binding]; other site 547146003976 PAS domain; Region: PAS_9; pfam13426 547146003977 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547146003978 putative active site [active] 547146003979 heme pocket [chemical binding]; other site 547146003980 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 547146003981 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547146003982 metal binding site [ion binding]; metal-binding site 547146003983 active site 547146003984 I-site; other site 547146003985 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 547146003986 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 547146003987 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 547146003988 catalytic triad [active] 547146003989 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 547146003990 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146003991 FeS/SAM binding site; other site 547146003992 NAD synthetase; Provisional; Region: PRK13981 547146003993 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 547146003994 multimer interface [polypeptide binding]; other site 547146003995 active site 547146003996 catalytic triad [active] 547146003997 protein interface 1 [polypeptide binding]; other site 547146003998 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 547146003999 homodimer interface [polypeptide binding]; other site 547146004000 NAD binding pocket [chemical binding]; other site 547146004001 ATP binding pocket [chemical binding]; other site 547146004002 Mg binding site [ion binding]; other site 547146004003 active-site loop [active] 547146004004 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 547146004005 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547146004006 metal binding site [ion binding]; metal-binding site 547146004007 active site 547146004008 I-site; other site 547146004009 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 547146004010 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 547146004011 catalytic residues [active] 547146004012 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 547146004013 cell division protein FtsA; Region: ftsA; TIGR01174 547146004014 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 547146004015 nucleotide binding site [chemical binding]; other site 547146004016 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 547146004017 Cell division protein FtsA; Region: FtsA; pfam14450 547146004018 homoserine dehydrogenase; Provisional; Region: PRK06349 547146004019 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 547146004020 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 547146004021 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 547146004022 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14611 547146004023 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 547146004024 PhoH-like protein; Region: PhoH; pfam02562 547146004025 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 547146004026 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 547146004027 Cation efflux family; Region: Cation_efflux; pfam01545 547146004028 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 547146004029 Uncharacterized conserved protein [Function unknown]; Region: COG4095 547146004030 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 547146004031 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 547146004032 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 547146004033 nucleotide binding site [chemical binding]; other site 547146004034 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 547146004035 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 547146004036 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 547146004037 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 547146004038 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 547146004039 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 547146004040 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 547146004041 PLD-like domain; Region: PLDc_2; pfam13091 547146004042 putative homodimer interface [polypeptide binding]; other site 547146004043 putative active site [active] 547146004044 catalytic site [active] 547146004045 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 547146004046 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 547146004047 ATP binding site [chemical binding]; other site 547146004048 putative Mg++ binding site [ion binding]; other site 547146004049 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 547146004050 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 547146004051 nucleotide binding region [chemical binding]; other site 547146004052 ATP-binding site [chemical binding]; other site 547146004053 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 547146004054 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 547146004055 FeoA domain; Region: FeoA; pfam04023 547146004056 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 547146004057 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 547146004058 G1 box; other site 547146004059 GTP/Mg2+ binding site [chemical binding]; other site 547146004060 Switch I region; other site 547146004061 G2 box; other site 547146004062 G3 box; other site 547146004063 Switch II region; other site 547146004064 G4 box; other site 547146004065 G5 box; other site 547146004066 Nucleoside recognition; Region: Gate; pfam07670 547146004067 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 547146004068 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 547146004069 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 547146004070 catalytic triad [active] 547146004071 catalytic triad [active] 547146004072 oxyanion hole [active] 547146004073 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 547146004074 heme binding pocket [chemical binding]; other site 547146004075 heme ligand [chemical binding]; other site 547146004076 isocitrate dehydrogenase; Validated; Region: PRK06451 547146004077 Isocitrate dehydrogenases [Energy production and conversion]; Region: Icd; COG0538 547146004078 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 547146004079 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 547146004080 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 547146004081 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 547146004082 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 547146004083 pyruvate carboxylase subunit B; Validated; Region: PRK09282 547146004084 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 547146004085 active site 547146004086 catalytic residues [active] 547146004087 metal binding site [ion binding]; metal-binding site 547146004088 homodimer binding site [polypeptide binding]; other site 547146004089 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 547146004090 carboxyltransferase (CT) interaction site; other site 547146004091 biotinylation site [posttranslational modification]; other site 547146004092 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 547146004093 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 547146004094 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 547146004095 dimer interface [polypeptide binding]; other site 547146004096 PYR/PP interface [polypeptide binding]; other site 547146004097 TPP binding site [chemical binding]; other site 547146004098 substrate binding site [chemical binding]; other site 547146004099 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 547146004100 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 547146004101 TPP-binding site [chemical binding]; other site 547146004102 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 547146004103 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 547146004104 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 547146004105 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 547146004106 hypothetical protein; Provisional; Region: PRK08609 547146004107 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 547146004108 active site 547146004109 primer binding site [nucleotide binding]; other site 547146004110 NTP binding site [chemical binding]; other site 547146004111 metal binding triad [ion binding]; metal-binding site 547146004112 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 547146004113 active site 547146004114 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 547146004115 FOG: CBS domain [General function prediction only]; Region: COG0517 547146004116 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 547146004117 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 547146004118 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 547146004119 active site 547146004120 NTP binding site [chemical binding]; other site 547146004121 metal binding triad [ion binding]; metal-binding site 547146004122 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 547146004123 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 547146004124 active site 547146004125 FMN binding site [chemical binding]; other site 547146004126 substrate binding site [chemical binding]; other site 547146004127 homotetramer interface [polypeptide binding]; other site 547146004128 catalytic residue [active] 547146004129 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 547146004130 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547146004131 metal binding site [ion binding]; metal-binding site 547146004132 active site 547146004133 I-site; other site 547146004134 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 547146004135 adenylosuccinate lyase; Provisional; Region: PRK07492 547146004136 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 547146004137 tetramer interface [polypeptide binding]; other site 547146004138 active site 547146004139 Adenylosuccinate lyase C-terminus; Region: ADSL_C; pfam10397 547146004140 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 547146004141 GTPase Era; Reviewed; Region: era; PRK00089 547146004142 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 547146004143 G1 box; other site 547146004144 GTP/Mg2+ binding site [chemical binding]; other site 547146004145 Switch I region; other site 547146004146 G2 box; other site 547146004147 Switch II region; other site 547146004148 G3 box; other site 547146004149 G4 box; other site 547146004150 G5 box; other site 547146004151 KH domain; Region: KH_2; pfam07650 547146004152 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 547146004153 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 547146004154 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 547146004155 catalytic residues [active] 547146004156 Hemerythrin; Region: Hemerythrin; cd12107 547146004157 Fe binding site [ion binding]; other site 547146004158 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 547146004159 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547146004160 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547146004161 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 547146004162 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 547146004163 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 547146004164 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 547146004165 Glycoprotease family; Region: Peptidase_M22; pfam00814 547146004166 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 547146004167 Part of AAA domain; Region: AAA_19; pfam13245 547146004168 Family description; Region: UvrD_C_2; pfam13538 547146004169 Ion channel; Region: Ion_trans_2; pfam07885 547146004170 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 547146004171 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 547146004172 putative NAD(P) binding site [chemical binding]; other site 547146004173 active site 547146004174 putative substrate binding site [chemical binding]; other site 547146004175 Protein of unknown function (DUF461); Region: DUF461; pfam04314 547146004176 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 547146004177 TPR motif; other site 547146004178 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 547146004179 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 547146004180 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 547146004181 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 547146004182 putative active site [active] 547146004183 metal binding site [ion binding]; metal-binding site 547146004184 homodimer binding site [polypeptide binding]; other site 547146004185 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 547146004186 TPR motif; other site 547146004187 Tetratricopeptide repeat; Region: TPR_12; pfam13424 547146004188 binding surface 547146004189 Tetratricopeptide repeat; Region: TPR_12; pfam13424 547146004190 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 547146004191 TPR motif; other site 547146004192 binding surface 547146004193 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 547146004194 UbiA prenyltransferase family; Region: UbiA; pfam01040 547146004195 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 547146004196 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 547146004197 glutamine binding [chemical binding]; other site 547146004198 catalytic triad [active] 547146004199 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 547146004200 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547146004201 Walker A/P-loop; other site 547146004202 ATP binding site [chemical binding]; other site 547146004203 Q-loop/lid; other site 547146004204 ABC transporter signature motif; other site 547146004205 Walker B; other site 547146004206 D-loop; other site 547146004207 H-loop/switch region; other site 547146004208 ABC-2 type transporter; Region: ABC2_membrane; cl17235 547146004209 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 547146004210 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 547146004211 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 547146004212 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 547146004213 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 547146004214 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 547146004215 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 547146004216 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 547146004217 minor groove reading motif; other site 547146004218 helix-hairpin-helix signature motif; other site 547146004219 substrate binding pocket [chemical binding]; other site 547146004220 active site 547146004221 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 547146004222 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 547146004223 FHIPEP family; Region: FHIPEP; pfam00771 547146004224 Flagellar GTP-binding protein [Cell motility and secretion]; Region: FlhF; COG1419 547146004225 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 547146004226 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 547146004227 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 547146004228 P-loop; other site 547146004229 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 547146004230 Fe-S cluster binding site [ion binding]; other site 547146004231 active site 547146004232 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 547146004233 substrate binding site [chemical binding]; other site 547146004234 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 547146004235 Clp amino terminal domain; Region: Clp_N; pfam02861 547146004236 Clp amino terminal domain; Region: Clp_N; pfam02861 547146004237 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 547146004238 Walker A motif; other site 547146004239 ATP binding site [chemical binding]; other site 547146004240 Walker B motif; other site 547146004241 arginine finger; other site 547146004242 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 547146004243 Walker A motif; other site 547146004244 ATP binding site [chemical binding]; other site 547146004245 Walker B motif; other site 547146004246 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 547146004247 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 547146004248 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 547146004249 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 547146004250 ResB-like family; Region: ResB; pfam05140 547146004251 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 547146004252 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 547146004253 active site 547146004254 catalytic residues [active] 547146004255 metal binding site [ion binding]; metal-binding site 547146004256 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 547146004257 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 547146004258 integral membrane protein MviN; Region: mviN; TIGR01695 547146004259 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 547146004260 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 547146004261 Active_site [active] 547146004262 AMMECR1; Region: AMMECR1; pfam01871 547146004263 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 547146004264 Short C-terminal domain; Region: SHOCT; pfam09851 547146004265 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 547146004266 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 547146004267 THF binding site; other site 547146004268 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 547146004269 substrate binding site [chemical binding]; other site 547146004270 THF binding site; other site 547146004271 zinc-binding site [ion binding]; other site 547146004272 Ferrochelatase; Region: Ferrochelatase; pfam00762 547146004273 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 547146004274 C-terminal domain interface [polypeptide binding]; other site 547146004275 active site 547146004276 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 547146004277 active site 547146004278 N-terminal domain interface [polypeptide binding]; other site 547146004279 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 547146004280 PAP2 superfamily; Region: PAP2; pfam01569 547146004281 active site 547146004282 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 547146004283 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 547146004284 putative active site [active] 547146004285 substrate binding site [chemical binding]; other site 547146004286 putative cosubstrate binding site; other site 547146004287 catalytic site [active] 547146004288 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 547146004289 substrate binding site [chemical binding]; other site 547146004290 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 547146004291 Flavoprotein; Region: Flavoprotein; pfam02441 547146004292 cytidylate kinase; Provisional; Region: cmk; PRK00023 547146004293 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 547146004294 CMP-binding site; other site 547146004295 The sites determining sugar specificity; other site 547146004296 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 547146004297 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 547146004298 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 547146004299 dimer interface [polypeptide binding]; other site 547146004300 active site 547146004301 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 547146004302 catalytic residues [active] 547146004303 substrate binding site [chemical binding]; other site 547146004304 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 547146004305 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 547146004306 P loop; other site 547146004307 Nucleotide binding site [chemical binding]; other site 547146004308 DTAP/Switch II; other site 547146004309 Switch I; other site 547146004310 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 547146004311 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 547146004312 motif II; other site 547146004313 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 547146004314 Cupin domain; Region: Cupin_2; cl17218 547146004315 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 547146004316 intersubunit interface [polypeptide binding]; other site 547146004317 active site 547146004318 Zn2+ binding site [ion binding]; other site 547146004319 UDP-N-acetylmuramoylalanine--D-glutamate ligase; Region: murD; TIGR01087 547146004320 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 547146004321 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 547146004322 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547146004323 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 547146004324 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 547146004325 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 547146004326 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 547146004327 Surface antigen; Region: Bac_surface_Ag; pfam01103 547146004328 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 547146004329 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 547146004330 RNA binding surface [nucleotide binding]; other site 547146004331 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 547146004332 active site 547146004333 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 547146004334 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 547146004335 catalytic core [active] 547146004336 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 547146004337 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 547146004338 CPxP motif; other site 547146004339 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 547146004340 Flavoprotein; Region: Flavoprotein; pfam02441 547146004341 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 547146004342 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 547146004343 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 547146004344 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 547146004345 Walker A motif; other site 547146004346 ATP binding site [chemical binding]; other site 547146004347 Walker B motif; other site 547146004348 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 547146004349 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 547146004350 catalytic loop [active] 547146004351 iron binding site [ion binding]; other site 547146004352 Peptidase family M48; Region: Peptidase_M48; cl12018 547146004353 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 547146004354 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 547146004355 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 547146004356 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 547146004357 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 547146004358 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 547146004359 DNA binding residues [nucleotide binding] 547146004360 DNA primase, catalytic core; Region: dnaG; TIGR01391 547146004361 CHC2 zinc finger; Region: zf-CHC2; cl17510 547146004362 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 547146004363 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 547146004364 active site 547146004365 metal binding site [ion binding]; metal-binding site 547146004366 interdomain interaction site; other site 547146004367 MoxR-like ATPases [General function prediction only]; Region: COG0714 547146004368 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 547146004369 Walker A motif; other site 547146004370 ATP binding site [chemical binding]; other site 547146004371 Walker B motif; other site 547146004372 arginine finger; other site 547146004373 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 547146004374 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 547146004375 iron-sulfur cluster [ion binding]; other site 547146004376 [2Fe-2S] cluster binding site [ion binding]; other site 547146004377 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 547146004378 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 547146004379 Qi binding site; other site 547146004380 intrachain domain interface; other site 547146004381 interchain domain interface [polypeptide binding]; other site 547146004382 heme bH binding site [chemical binding]; other site 547146004383 heme bL binding site [chemical binding]; other site 547146004384 Qo binding site; other site 547146004385 intrachain domain interface; other site 547146004386 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 547146004387 Qo binding site; other site 547146004388 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 547146004389 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 547146004390 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 547146004391 motif 1; other site 547146004392 active site 547146004393 motif 2; other site 547146004394 motif 3; other site 547146004395 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 547146004396 DHHA1 domain; Region: DHHA1; pfam02272 547146004397 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 547146004398 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 547146004399 NADP binding site [chemical binding]; other site 547146004400 active site 547146004401 putative substrate binding site [chemical binding]; other site 547146004402 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 547146004403 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 547146004404 NAD binding site [chemical binding]; other site 547146004405 substrate binding site [chemical binding]; other site 547146004406 homodimer interface [polypeptide binding]; other site 547146004407 active site 547146004408 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 547146004409 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 547146004410 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 547146004411 substrate binding site; other site 547146004412 tetramer interface; other site 547146004413 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 547146004414 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 547146004415 Walker A/P-loop; other site 547146004416 ATP binding site [chemical binding]; other site 547146004417 Q-loop/lid; other site 547146004418 ABC transporter signature motif; other site 547146004419 Walker B; other site 547146004420 D-loop; other site 547146004421 H-loop/switch region; other site 547146004422 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 547146004423 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 547146004424 metal-binding site [ion binding] 547146004425 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 547146004426 Heavy-metal-associated domain; Region: HMA; pfam00403 547146004427 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 547146004428 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 547146004429 motif II; other site 547146004430 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 547146004431 FAD binding site [chemical binding]; other site 547146004432 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 547146004433 active site 547146004434 thiamine phosphate binding site [chemical binding]; other site 547146004435 pyrophosphate binding site [ion binding]; other site 547146004436 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 547146004437 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 547146004438 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 547146004439 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 547146004440 CTP synthetase; Validated; Region: pyrG; PRK05380 547146004441 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 547146004442 Catalytic site [active] 547146004443 active site 547146004444 UTP binding site [chemical binding]; other site 547146004445 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 547146004446 active site 547146004447 putative oxyanion hole; other site 547146004448 catalytic triad [active] 547146004449 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 547146004450 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 547146004451 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146004452 FeS/SAM binding site; other site 547146004453 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 547146004454 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146004455 FeS/SAM binding site; other site 547146004456 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 547146004457 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 547146004458 MoaE homodimer interface [polypeptide binding]; other site 547146004459 MoaD interaction [polypeptide binding]; other site 547146004460 active site residues [active] 547146004461 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 547146004462 core domain interface [polypeptide binding]; other site 547146004463 delta subunit interface [polypeptide binding]; other site 547146004464 epsilon subunit interface [polypeptide binding]; other site 547146004465 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 547146004466 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 547146004467 Ligand Binding Site [chemical binding]; other site 547146004468 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 547146004469 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 547146004470 catalytic residue [active] 547146004471 DNA fragmentation factor 40 kDa; Region: DFF40; pfam09230 547146004472 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 547146004473 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 547146004474 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 547146004475 FAD binding pocket [chemical binding]; other site 547146004476 FAD binding motif [chemical binding]; other site 547146004477 phosphate binding motif [ion binding]; other site 547146004478 beta-alpha-beta structure motif; other site 547146004479 NAD binding pocket [chemical binding]; other site 547146004480 Iron coordination center [ion binding]; other site 547146004481 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 547146004482 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 547146004483 active site 547146004484 NAD binding site [chemical binding]; other site 547146004485 metal binding site [ion binding]; metal-binding site 547146004486 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 547146004487 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 547146004488 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 547146004489 Walker A/P-loop; other site 547146004490 ATP binding site [chemical binding]; other site 547146004491 Q-loop/lid; other site 547146004492 ABC transporter signature motif; other site 547146004493 Walker B; other site 547146004494 D-loop; other site 547146004495 H-loop/switch region; other site 547146004496 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 547146004497 Protein of unknown function DUF116; Region: DUF116; pfam01976 547146004498 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; pfam02552 547146004499 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 547146004500 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 547146004501 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 547146004502 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 547146004503 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 547146004504 Methyltransferase domain; Region: Methyltransf_23; pfam13489 547146004505 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 547146004506 S-adenosylmethionine binding site [chemical binding]; other site 547146004507 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 547146004508 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 547146004509 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 547146004510 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 547146004511 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 547146004512 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 547146004513 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 547146004514 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 547146004515 Ligand binding site; other site 547146004516 Putative Catalytic site; other site 547146004517 DXD motif; other site 547146004518 Predicted membrane protein [Function unknown]; Region: COG2246 547146004519 GtrA-like protein; Region: GtrA; pfam04138 547146004520 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 547146004521 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 547146004522 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 547146004523 putative ADP-binding pocket [chemical binding]; other site 547146004524 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 547146004525 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 547146004526 NADP-binding site; other site 547146004527 homotetramer interface [polypeptide binding]; other site 547146004528 substrate binding site [chemical binding]; other site 547146004529 homodimer interface [polypeptide binding]; other site 547146004530 active site 547146004531 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 547146004532 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 547146004533 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 547146004534 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 547146004535 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 547146004536 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 547146004537 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 547146004538 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 547146004539 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 547146004540 Walker A motif; other site 547146004541 ATP binding site [chemical binding]; other site 547146004542 Walker B motif; other site 547146004543 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 547146004544 type II secretion system protein D; Region: type_II_gspD; TIGR02517 547146004545 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 547146004546 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 547146004547 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 547146004548 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 547146004549 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 547146004550 active site 547146004551 nucleotide binding site [chemical binding]; other site 547146004552 HIGH motif; other site 547146004553 KMSKS motif; other site 547146004554 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 547146004555 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 547146004556 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 547146004557 DHH family; Region: DHH; pfam01368 547146004558 phosphoenolpyruvate synthase; Validated; Region: PRK06464 547146004559 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 547146004560 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 547146004561 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 547146004562 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cd00368 547146004563 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 547146004564 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 547146004565 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 547146004566 NAD binding site [chemical binding]; other site 547146004567 homotetramer interface [polypeptide binding]; other site 547146004568 homodimer interface [polypeptide binding]; other site 547146004569 substrate binding site [chemical binding]; other site 547146004570 active site 547146004571 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 547146004572 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 547146004573 putative active site; other site 547146004574 catalytic residue [active] 547146004575 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 547146004576 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 547146004577 dimer interface [polypeptide binding]; other site 547146004578 motif 1; other site 547146004579 active site 547146004580 motif 2; other site 547146004581 motif 3; other site 547146004582 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 547146004583 active site 547146004584 NTP binding site [chemical binding]; other site 547146004585 metal binding triad [ion binding]; metal-binding site 547146004586 antibiotic binding site [chemical binding]; other site 547146004587 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 547146004588 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 547146004589 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 547146004590 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 547146004591 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 547146004592 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 547146004593 active site 547146004594 NTP binding site [chemical binding]; other site 547146004595 metal binding triad [ion binding]; metal-binding site 547146004596 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 547146004597 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 547146004598 Zn2+ binding site [ion binding]; other site 547146004599 Mg2+ binding site [ion binding]; other site 547146004600 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 547146004601 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 547146004602 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 547146004603 active site 547146004604 tetramer interface [polypeptide binding]; other site 547146004605 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547146004606 active site 547146004607 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 547146004608 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1817 547146004609 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 547146004610 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 547146004611 active site 547146004612 dimer interface [polypeptide binding]; other site 547146004613 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 547146004614 Ligand Binding Site [chemical binding]; other site 547146004615 Molecular Tunnel; other site 547146004616 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 547146004617 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 547146004618 Ligand Binding Site [chemical binding]; other site 547146004619 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 547146004620 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 547146004621 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 547146004622 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 547146004623 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 547146004624 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 547146004625 active site 547146004626 PHP Thumb interface [polypeptide binding]; other site 547146004627 metal binding site [ion binding]; metal-binding site 547146004628 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 547146004629 generic binding surface II; other site 547146004630 generic binding surface I; other site 547146004631 PBP superfamily domain; Region: PBP_like_2; cl17296 547146004632 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 547146004633 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 547146004634 dimer interface [polypeptide binding]; other site 547146004635 conserved gate region; other site 547146004636 putative PBP binding loops; other site 547146004637 ABC-ATPase subunit interface; other site 547146004638 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 547146004639 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 547146004640 dimer interface [polypeptide binding]; other site 547146004641 conserved gate region; other site 547146004642 putative PBP binding loops; other site 547146004643 ABC-ATPase subunit interface; other site 547146004644 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 547146004645 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 547146004646 Walker A/P-loop; other site 547146004647 ATP binding site [chemical binding]; other site 547146004648 Q-loop/lid; other site 547146004649 ABC transporter signature motif; other site 547146004650 Walker B; other site 547146004651 D-loop; other site 547146004652 H-loop/switch region; other site 547146004653 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 547146004654 catalytic core [active] 547146004655 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 547146004656 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 547146004657 Prephenate dehydrogenase; Region: PDH; pfam02153 547146004658 prephenate dehydrogenase; Validated; Region: PRK08507 547146004659 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 547146004660 Ligand Binding Site [chemical binding]; other site 547146004661 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 547146004662 Ligand Binding Site [chemical binding]; other site 547146004663 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 547146004664 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 547146004665 ATP binding site [chemical binding]; other site 547146004666 Mg2+ binding site [ion binding]; other site 547146004667 G-X-G motif; other site 547146004668 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 547146004669 anchoring element; other site 547146004670 dimer interface [polypeptide binding]; other site 547146004671 ATP binding site [chemical binding]; other site 547146004672 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 547146004673 active site 547146004674 putative metal-binding site [ion binding]; other site 547146004675 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 547146004676 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 547146004677 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 547146004678 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 547146004679 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 547146004680 motif II; other site 547146004681 Protein of unknown function (DUF996); Region: DUF996; pfam06195 547146004682 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 547146004683 Predicted methyltransferases [General function prediction only]; Region: COG0313 547146004684 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 547146004685 putative SAM binding site [chemical binding]; other site 547146004686 putative homodimer interface [polypeptide binding]; other site 547146004687 ribosome maturation protein RimP; Reviewed; Region: PRK00092 547146004688 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 547146004689 putative oligomer interface [polypeptide binding]; other site 547146004690 putative RNA binding site [nucleotide binding]; other site 547146004691 transcription termination factor NusA; Region: NusA; TIGR01953 547146004692 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 547146004693 RNA binding site [nucleotide binding]; other site 547146004694 homodimer interface [polypeptide binding]; other site 547146004695 NusA-like KH domain; Region: KH_5; pfam13184 547146004696 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 547146004697 G-X-X-G motif; other site 547146004698 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 547146004699 TRAM domain; Region: TRAM; cl01282 547146004700 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 547146004701 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 547146004702 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 547146004703 hinge; other site 547146004704 active site 547146004705 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 547146004706 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 547146004707 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 547146004708 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; pfam02552 547146004709 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 547146004710 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 547146004711 dimer interface [polypeptide binding]; other site 547146004712 PYR/PP interface [polypeptide binding]; other site 547146004713 TPP binding site [chemical binding]; other site 547146004714 substrate binding site [chemical binding]; other site 547146004715 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 547146004716 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 547146004717 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 547146004718 TPP-binding site [chemical binding]; other site 547146004719 dimer interface [polypeptide binding]; other site 547146004720 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 547146004721 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 547146004722 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 547146004723 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 547146004724 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547146004725 FeS/SAM binding site; other site 547146004726 hypothetical protein; Reviewed; Region: PRK12497 547146004727 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887