-- dump date 20140619_115309 -- class Genbank::misc_feature -- table misc_feature_note -- id note 380749000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 380749000002 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 380749000003 Walker A motif; other site 380749000004 ATP binding site [chemical binding]; other site 380749000005 Walker B motif; other site 380749000006 arginine finger; other site 380749000007 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 380749000008 DnaA box-binding interface [nucleotide binding]; other site 380749000009 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 380749000010 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 380749000011 dimer interface [polypeptide binding]; other site 380749000012 putative tRNA-binding site [nucleotide binding]; other site 380749000013 glycogen synthase; Provisional; Region: glgA; PRK00654 380749000014 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 380749000015 ADP-binding pocket [chemical binding]; other site 380749000016 homodimer interface [polypeptide binding]; other site 380749000017 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 380749000018 dihydropteroate synthase; Region: DHPS; TIGR01496 380749000019 substrate binding pocket [chemical binding]; other site 380749000020 dimer interface [polypeptide binding]; other site 380749000021 inhibitor binding site; inhibition site 380749000022 Uncharacterized conserved protein [Function unknown]; Region: COG1624 380749000023 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 380749000024 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 380749000025 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 380749000026 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 380749000027 HlyD family secretion protein; Region: HlyD_3; pfam13437 380749000028 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 380749000029 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 380749000030 Walker A/P-loop; other site 380749000031 ATP binding site [chemical binding]; other site 380749000032 Q-loop/lid; other site 380749000033 ABC transporter signature motif; other site 380749000034 Walker B; other site 380749000035 D-loop; other site 380749000036 H-loop/switch region; other site 380749000037 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 380749000038 FtsX-like permease family; Region: FtsX; pfam02687 380749000039 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 380749000040 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 380749000041 PhoU domain; Region: PhoU; pfam01895 380749000042 PhoU domain; Region: PhoU; pfam01895 380749000043 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 380749000044 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 380749000045 dimerization interface [polypeptide binding]; other site 380749000046 PAS domain; Region: PAS_8; pfam13188 380749000047 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 380749000048 dimer interface [polypeptide binding]; other site 380749000049 phosphorylation site [posttranslational modification] 380749000050 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 380749000051 ATP binding site [chemical binding]; other site 380749000052 G-X-G motif; other site 380749000053 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 380749000054 putative substrate translocation pore; other site 380749000055 Major Facilitator Superfamily; Region: MFS_1; pfam07690 380749000056 Quinolinate synthetase A protein; Region: NadA; pfam02445 380749000057 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 380749000058 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 380749000059 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 380749000060 active site 380749000061 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 380749000062 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 380749000063 RNA binding surface [nucleotide binding]; other site 380749000064 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 380749000065 active site 380749000066 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 380749000067 GTP cyclohydrolase I; Provisional; Region: PLN03044 380749000068 active site 380749000069 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 380749000070 active site 380749000071 oligomerization interface [polypeptide binding]; other site 380749000072 metal binding site [ion binding]; metal-binding site 380749000073 peptide chain release factor 2; Validated; Region: prfB; PRK00578 380749000074 This domain is found in peptide chain release factors; Region: PCRF; smart00937 380749000075 RF-1 domain; Region: RF-1; pfam00472 380749000076 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 380749000077 metal-binding site [ion binding] 380749000078 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 380749000079 chaperone protein DnaJ; Provisional; Region: PRK14291 380749000080 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 380749000081 HSP70 interaction site [polypeptide binding]; other site 380749000082 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 380749000083 Zn binding sites [ion binding]; other site 380749000084 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 380749000085 dimer interface [polypeptide binding]; other site 380749000086 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 380749000087 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 380749000088 DNA binding residues [nucleotide binding] 380749000089 putative dimer interface [polypeptide binding]; other site 380749000090 Cupin domain; Region: Cupin_2; pfam07883 380749000091 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 380749000092 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 380749000093 Substrate binding site; other site 380749000094 Mg++ binding site; other site 380749000095 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 380749000096 active site 380749000097 substrate binding site [chemical binding]; other site 380749000098 CoA binding site [chemical binding]; other site 380749000099 poxB regulator PoxA; Provisional; Region: PRK09350 380749000100 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 380749000101 motif 1; other site 380749000102 dimer interface [polypeptide binding]; other site 380749000103 active site 380749000104 motif 2; other site 380749000105 motif 3; other site 380749000106 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 380749000107 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 380749000108 Ligand Binding Site [chemical binding]; other site 380749000109 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 380749000110 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 380749000111 dimer interface [polypeptide binding]; other site 380749000112 putative CheW interface [polypeptide binding]; other site 380749000113 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 380749000114 TPR motif; other site 380749000115 binding surface 380749000116 Tetratricopeptide repeat; Region: TPR_12; pfam13424 380749000117 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 380749000118 binding surface 380749000119 TPR motif; other site 380749000120 Tetratricopeptide repeat; Region: TPR_12; pfam13424 380749000121 Tetratricopeptide repeat; Region: TPR_12; pfam13424 380749000122 SprA-related family; Region: SprA-related; pfam12118 380749000123 Esterase/lipase [General function prediction only]; Region: COG1647 380749000124 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 380749000125 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 380749000126 inhibitor-cofactor binding pocket; inhibition site 380749000127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749000128 catalytic residue [active] 380749000129 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 380749000130 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 380749000131 dimer interface [polypeptide binding]; other site 380749000132 catalytic triad [active] 380749000133 peroxidatic and resolving cysteines [active] 380749000134 5'-3' exonuclease; Region: 53EXOc; smart00475 380749000135 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 380749000136 active site 380749000137 metal binding site 1 [ion binding]; metal-binding site 380749000138 putative 5' ssDNA interaction site; other site 380749000139 metal binding site 3; metal-binding site 380749000140 metal binding site 2 [ion binding]; metal-binding site 380749000141 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 380749000142 putative DNA binding site [nucleotide binding]; other site 380749000143 putative metal binding site [ion binding]; other site 380749000144 Bifunctional nuclease; Region: DNase-RNase; pfam02577 380749000145 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]; Region: COG1144 380749000146 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 380749000147 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 380749000148 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 380749000149 TPP-binding site [chemical binding]; other site 380749000150 dimer interface [polypeptide binding]; other site 380749000151 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 380749000152 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 380749000153 dimer interface [polypeptide binding]; other site 380749000154 PYR/PP interface [polypeptide binding]; other site 380749000155 TPP binding site [chemical binding]; other site 380749000156 substrate binding site [chemical binding]; other site 380749000157 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; pfam02552 380749000158 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 380749000159 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 380749000160 Acylphosphatase; Region: Acylphosphatase; pfam00708 380749000161 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 380749000162 HypF finger; Region: zf-HYPF; pfam07503 380749000163 HypF finger; Region: zf-HYPF; pfam07503 380749000164 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 380749000165 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 380749000166 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 380749000167 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 380749000168 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 380749000169 dimerization interface [polypeptide binding]; other site 380749000170 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 380749000171 ATP binding site [chemical binding]; other site 380749000172 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 380749000173 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 380749000174 HupF/HypC family; Region: HupF_HypC; pfam01455 380749000175 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 380749000176 putative substrate-binding site; other site 380749000177 nickel binding site [ion binding]; other site 380749000178 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 380749000179 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 380749000180 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 380749000181 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 380749000182 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 380749000183 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 380749000184 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; cl01054 380749000185 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 380749000186 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 380749000187 dimer interface [polypeptide binding]; other site 380749000188 putative CheW interface [polypeptide binding]; other site 380749000189 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 380749000190 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 380749000191 catalytic residues [active] 380749000192 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 380749000193 DHHA1 domain; Region: DHHA1; pfam02272 380749000194 Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Region: RpsA; COG0539 380749000195 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 380749000196 RNA binding site [nucleotide binding]; other site 380749000197 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 380749000198 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 380749000199 RNA binding site [nucleotide binding]; other site 380749000200 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 380749000201 RNA binding site [nucleotide binding]; other site 380749000202 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 380749000203 homodimer interface [polypeptide binding]; other site 380749000204 MazG family protein; Region: mazG; TIGR00444 380749000205 metal binding site [ion binding]; metal-binding site 380749000206 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 380749000207 homodimer interface [polypeptide binding]; other site 380749000208 active site 380749000209 putative chemical substrate binding site [chemical binding]; other site 380749000210 metal binding site [ion binding]; metal-binding site 380749000211 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 380749000212 ketol-acid reductoisomerase; Provisional; Region: PRK05479 380749000213 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 380749000214 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 380749000215 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 380749000216 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 380749000217 RibD C-terminal domain; Region: RibD_C; cl17279 380749000218 dihydrodipicolinate reductase; Provisional; Region: PRK00048 380749000219 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 380749000220 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 380749000221 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 380749000222 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 380749000223 active site 380749000224 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 380749000225 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 380749000226 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 380749000227 putative NAD(P) binding site [chemical binding]; other site 380749000228 active site 380749000229 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 380749000230 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 380749000231 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 380749000232 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 380749000233 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 380749000234 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 380749000235 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 380749000236 GTP binding site; other site 380749000237 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 380749000238 N-acetyl-D-glucosamine binding site [chemical binding]; other site 380749000239 catalytic residue [active] 380749000240 type II secretion system protein D; Region: type_II_gspD; TIGR02517 380749000241 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 380749000242 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 380749000243 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK01236 380749000244 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 380749000245 DNA protecting protein DprA; Region: dprA; TIGR00732 380749000246 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 380749000247 RNA methyltransferase, RsmE family; Region: TIGR00046 380749000248 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 380749000249 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 380749000250 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 380749000251 dimer interface [polypeptide binding]; other site 380749000252 PYR/PP interface [polypeptide binding]; other site 380749000253 TPP binding site [chemical binding]; other site 380749000254 substrate binding site [chemical binding]; other site 380749000255 DsrE/DsrF-like family; Region: DrsE; pfam02635 380749000256 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 380749000257 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 380749000258 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 380749000259 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 380749000260 Walker A/P-loop; other site 380749000261 ATP binding site [chemical binding]; other site 380749000262 Q-loop/lid; other site 380749000263 ABC transporter signature motif; other site 380749000264 Walker B; other site 380749000265 D-loop; other site 380749000266 H-loop/switch region; other site 380749000267 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 380749000268 gliding motility-associated protein GldE; Region: GldE; TIGR03520 380749000269 Domain of unknown function DUF21; Region: DUF21; pfam01595 380749000270 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 380749000271 Transporter associated domain; Region: CorC_HlyC; smart01091 380749000272 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 380749000273 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 380749000274 active site 380749000275 acetyl-CoA synthetase; Provisional; Region: PRK00174 380749000276 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 380749000277 active site 380749000278 CoA binding site [chemical binding]; other site 380749000279 acyl-activating enzyme (AAE) consensus motif; other site 380749000280 AMP binding site [chemical binding]; other site 380749000281 acetate binding site [chemical binding]; other site 380749000282 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 380749000283 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 380749000284 purine monophosphate binding site [chemical binding]; other site 380749000285 dimer interface [polypeptide binding]; other site 380749000286 putative catalytic residues [active] 380749000287 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 380749000288 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 380749000289 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 380749000290 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 380749000291 FMN binding site [chemical binding]; other site 380749000292 substrate binding site [chemical binding]; other site 380749000293 putative catalytic residue [active] 380749000294 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 380749000295 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 380749000296 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 380749000297 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 380749000298 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 380749000299 Probable transposase; Region: OrfB_IS605; pfam01385 380749000300 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 380749000301 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 380749000302 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 380749000303 ATP-grasp domain; Region: ATP-grasp; pfam02222 380749000304 GTP-binding protein LepA; Provisional; Region: PRK05433 380749000305 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 380749000306 G1 box; other site 380749000307 putative GEF interaction site [polypeptide binding]; other site 380749000308 GTP/Mg2+ binding site [chemical binding]; other site 380749000309 Switch I region; other site 380749000310 G2 box; other site 380749000311 G3 box; other site 380749000312 Switch II region; other site 380749000313 G4 box; other site 380749000314 G5 box; other site 380749000315 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 380749000316 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 380749000317 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 380749000318 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 380749000319 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 380749000320 FeS/SAM binding site; other site 380749000321 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 380749000322 Roadblock/LC7 domain [Function unknown]; Region: COG4831 380749000323 Uncharacterized conserved protein (DUF2173); Region: DUF2173; cl01994 380749000324 SCP-2 sterol transfer family; Region: SCP2; pfam02036 380749000325 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 380749000326 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 380749000327 putative active site [active] 380749000328 heme pocket [chemical binding]; other site 380749000329 PAS domain; Region: PAS; smart00091 380749000330 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 380749000331 Walker A motif; other site 380749000332 ATP binding site [chemical binding]; other site 380749000333 Walker B motif; other site 380749000334 arginine finger; other site 380749000335 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 380749000336 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 380749000337 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 380749000338 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 380749000339 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 380749000340 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 380749000341 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 380749000342 IHF - DNA interface [nucleotide binding]; other site 380749000343 IHF dimer interface [polypeptide binding]; other site 380749000344 Type II transport protein GspH; Region: GspH; pfam12019 380749000345 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 380749000346 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 380749000347 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 380749000348 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 380749000349 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 380749000350 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 380749000351 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 380749000352 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 380749000353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749000354 catalytic residue [active] 380749000355 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 380749000356 MoaE interaction surface [polypeptide binding]; other site 380749000357 MoeB interaction surface [polypeptide binding]; other site 380749000358 thiocarboxylated glycine; other site 380749000359 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 380749000360 IPP transferase; Region: IPPT; pfam01715 380749000361 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 380749000362 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 380749000363 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 380749000364 Chorismate mutase type II; Region: CM_2; smart00830 380749000365 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 380749000366 Prephenate dehydratase; Region: PDT; pfam00800 380749000367 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 380749000368 putative L-Phe binding site [chemical binding]; other site 380749000369 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 380749000370 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 380749000371 Protein export membrane protein; Region: SecD_SecF; pfam02355 380749000372 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 380749000373 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 380749000374 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 380749000375 thymidylate kinase; Validated; Region: tmk; PRK00698 380749000376 TMP-binding site; other site 380749000377 ATP-binding site [chemical binding]; other site 380749000378 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 380749000379 replicative DNA helicase; Region: DnaB; TIGR00665 380749000380 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 380749000381 Walker A motif; other site 380749000382 ATP binding site [chemical binding]; other site 380749000383 Walker B motif; other site 380749000384 DNA binding loops [nucleotide binding] 380749000385 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 380749000386 putative acyl-acceptor binding pocket; other site 380749000387 glutamine synthetase, type I; Region: GlnA; TIGR00653 380749000388 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 380749000389 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 380749000390 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 380749000391 Nitrogen regulatory protein P-II; Region: P-II; smart00938 380749000392 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 380749000393 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 380749000394 trimer interface [polypeptide binding]; other site 380749000395 dimer interface [polypeptide binding]; other site 380749000396 putative active site [active] 380749000397 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 380749000398 MPT binding site; other site 380749000399 trimer interface [polypeptide binding]; other site 380749000400 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 380749000401 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 380749000402 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 380749000403 NodB motif; other site 380749000404 active site 380749000405 metal binding site [ion binding]; metal-binding site 380749000406 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 380749000407 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 380749000408 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 380749000409 ATP-grasp domain; Region: ATP-grasp_4; cl17255 380749000410 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 380749000411 FAD binding domain; Region: FAD_binding_4; pfam01565 380749000412 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 380749000413 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 380749000414 GAF domain; Region: GAF; pfam01590 380749000415 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 380749000416 PAS domain; Region: PAS_9; pfam13426 380749000417 putative active site [active] 380749000418 heme pocket [chemical binding]; other site 380749000419 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749000420 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 380749000421 metal binding site [ion binding]; metal-binding site 380749000422 active site 380749000423 I-site; other site 380749000424 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; cl00290 380749000425 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; cl00290 380749000426 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 380749000427 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 380749000428 16S/18S rRNA binding site [nucleotide binding]; other site 380749000429 S13e-L30e interaction site [polypeptide binding]; other site 380749000430 25S rRNA binding site [nucleotide binding]; other site 380749000431 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 380749000432 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 380749000433 RNase E interface [polypeptide binding]; other site 380749000434 trimer interface [polypeptide binding]; other site 380749000435 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 380749000436 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 380749000437 RNase E interface [polypeptide binding]; other site 380749000438 trimer interface [polypeptide binding]; other site 380749000439 active site 380749000440 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 380749000441 putative nucleic acid binding region [nucleotide binding]; other site 380749000442 G-X-X-G motif; other site 380749000443 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 380749000444 RNA binding site [nucleotide binding]; other site 380749000445 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 380749000446 trimer interface [polypeptide binding]; other site 380749000447 active site 380749000448 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 380749000449 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 380749000450 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 380749000451 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 380749000452 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 380749000453 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 380749000454 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 380749000455 Walker A motif; other site 380749000456 ATP binding site [chemical binding]; other site 380749000457 Walker B motif; other site 380749000458 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 380749000459 Clp protease; Region: CLP_protease; pfam00574 380749000460 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 380749000461 oligomer interface [polypeptide binding]; other site 380749000462 active site residues [active] 380749000463 FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]; Region: Tig; COG0544 380749000464 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 380749000465 homotrimer interaction site [polypeptide binding]; other site 380749000466 putative active site [active] 380749000467 cell division protein FtsZ; Validated; Region: PRK09330 380749000468 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 380749000469 nucleotide binding site [chemical binding]; other site 380749000470 SulA interaction site; other site 380749000471 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 380749000472 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 380749000473 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 380749000474 SAF-like; Region: SAF_2; pfam13144 380749000475 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 380749000476 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 380749000477 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 380749000478 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 380749000479 PilX N-terminal; Region: PilX_N; pfam14341 380749000480 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 380749000481 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 380749000482 argininosuccinate lyase; Provisional; Region: PRK00855 380749000483 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 380749000484 active sites [active] 380749000485 tetramer interface [polypeptide binding]; other site 380749000486 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 380749000487 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 380749000488 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 380749000489 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 380749000490 FeS/SAM binding site; other site 380749000491 S-adenosylmethionine synthetase; Validated; Region: PRK05250 380749000492 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 380749000493 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 380749000494 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 380749000495 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 380749000496 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 380749000497 dimer interface [polypeptide binding]; other site 380749000498 active site 380749000499 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 380749000500 dimer interface [polypeptide binding]; other site 380749000501 active site 380749000502 Acylphosphatase; Region: Acylphosphatase; pfam00708 380749000503 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 380749000504 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 380749000505 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 380749000506 Peptidase family M23; Region: Peptidase_M23; pfam01551 380749000507 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 380749000508 dimer interface [polypeptide binding]; other site 380749000509 substrate binding site [chemical binding]; other site 380749000510 metal binding sites [ion binding]; metal-binding site 380749000511 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 380749000512 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 380749000513 putative active site [active] 380749000514 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 380749000515 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 380749000516 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 380749000517 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgC; COG1558 380749000518 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 380749000519 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 380749000520 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 380749000521 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 380749000522 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 380749000523 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 380749000524 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 380749000525 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 380749000526 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 380749000527 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 380749000528 putative substrate binding site [chemical binding]; other site 380749000529 putative ATP binding site [chemical binding]; other site 380749000530 aldolase; Validated; Region: PRK06852 380749000531 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 380749000532 catalytic residue [active] 380749000533 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 380749000534 mce related protein; Region: MCE; pfam02470 380749000535 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 380749000536 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 380749000537 Walker A/P-loop; other site 380749000538 ATP binding site [chemical binding]; other site 380749000539 Q-loop/lid; other site 380749000540 ABC transporter signature motif; other site 380749000541 Walker B; other site 380749000542 D-loop; other site 380749000543 H-loop/switch region; other site 380749000544 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 380749000545 Permease; Region: Permease; pfam02405 380749000546 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 380749000547 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 380749000548 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 380749000549 Family description; Region: DsbD_2; pfam13386 380749000550 Helix-turn-helix domain; Region: HTH_17; pfam12728 380749000551 Type III pantothenate kinase; Region: Pan_kinase; cl17198 380749000552 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 380749000553 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 380749000554 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 380749000555 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 380749000556 active site 380749000557 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 380749000558 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 380749000559 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 380749000560 Response regulator receiver domain; Region: Response_reg; pfam00072 380749000561 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 380749000562 active site 380749000563 phosphorylation site [posttranslational modification] 380749000564 intermolecular recognition site; other site 380749000565 dimerization interface [polypeptide binding]; other site 380749000566 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 380749000567 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 380749000568 dimer interface [polypeptide binding]; other site 380749000569 putative CheW interface [polypeptide binding]; other site 380749000570 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 380749000571 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 380749000572 putative CheW interface [polypeptide binding]; other site 380749000573 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 380749000574 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 380749000575 Response regulator receiver domain; Region: Response_reg; pfam00072 380749000576 active site 380749000577 phosphorylation site [posttranslational modification] 380749000578 intermolecular recognition site; other site 380749000579 dimerization interface [polypeptide binding]; other site 380749000580 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 380749000581 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 380749000582 putative binding surface; other site 380749000583 active site 380749000584 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 380749000585 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 380749000586 ATP binding site [chemical binding]; other site 380749000587 Mg2+ binding site [ion binding]; other site 380749000588 G-X-G motif; other site 380749000589 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 380749000590 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 380749000591 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 380749000592 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 380749000593 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 380749000594 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 380749000595 trimer interface [polypeptide binding]; other site 380749000596 active site 380749000597 UDP-GlcNAc binding site [chemical binding]; other site 380749000598 lipid binding site [chemical binding]; lipid-binding site 380749000599 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 380749000600 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 380749000601 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 380749000602 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 380749000603 active site 380749000604 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 380749000605 DNA polymerase III subunit delta'; Validated; Region: PRK08485 380749000606 YceG-like family; Region: YceG; pfam02618 380749000607 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 380749000608 dimerization interface [polypeptide binding]; other site 380749000609 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 380749000610 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 380749000611 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 380749000612 PAS domain S-box; Region: sensory_box; TIGR00229 380749000613 PAS domain S-box; Region: sensory_box; TIGR00229 380749000614 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 380749000615 putative active site [active] 380749000616 heme pocket [chemical binding]; other site 380749000617 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 380749000618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749000619 metal binding site [ion binding]; metal-binding site 380749000620 active site 380749000621 I-site; other site 380749000622 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 380749000623 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 380749000624 GAF domain; Region: GAF; pfam01590 380749000625 PAS domain; Region: PAS_9; pfam13426 380749000626 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 380749000627 putative active site [active] 380749000628 heme pocket [chemical binding]; other site 380749000629 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 380749000630 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749000631 metal binding site [ion binding]; metal-binding site 380749000632 active site 380749000633 I-site; other site 380749000634 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 380749000635 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 380749000636 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 380749000637 N-acetyl-D-glucosamine binding site [chemical binding]; other site 380749000638 catalytic residue [active] 380749000639 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 380749000640 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 380749000641 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 380749000642 active site 380749000643 homodimer interface [polypeptide binding]; other site 380749000644 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749000645 metal binding site [ion binding]; metal-binding site 380749000646 active site 380749000647 I-site; other site 380749000648 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 380749000649 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 380749000650 putative dimer interface [polypeptide binding]; other site 380749000651 [2Fe-2S] cluster binding site [ion binding]; other site 380749000652 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 380749000653 SLBB domain; Region: SLBB; pfam10531 380749000654 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 380749000655 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 380749000656 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 380749000657 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 380749000658 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 380749000659 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 380749000660 active site 380749000661 catalytic residue [active] 380749000662 dimer interface [polypeptide binding]; other site 380749000663 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 380749000664 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 380749000665 Tetramer interface [polypeptide binding]; other site 380749000666 active site 380749000667 FMN-binding site [chemical binding]; other site 380749000668 putative fimbrial chaperone protein StfD; Provisional; Region: PRK15285 380749000669 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 380749000670 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 380749000671 trimer interface [polypeptide binding]; other site 380749000672 putative metal binding site [ion binding]; other site 380749000673 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 380749000674 Dyggve-Melchior-Clausen syndrome protein; Region: Dymeclin; cl15483 380749000675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 380749000676 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 380749000677 NAD(P) binding site [chemical binding]; other site 380749000678 active site 380749000679 cysteine synthase B; Region: cysM; TIGR01138 380749000680 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 380749000681 dimer interface [polypeptide binding]; other site 380749000682 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749000683 catalytic residue [active] 380749000684 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 380749000685 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 380749000686 putative phosphate acyltransferase; Provisional; Region: PRK05331 380749000687 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 380749000688 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 380749000689 dimer interface [polypeptide binding]; other site 380749000690 active site 380749000691 CoA binding pocket [chemical binding]; other site 380749000692 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 380749000693 Moco binding site; other site 380749000694 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 380749000695 metal coordination site [ion binding]; other site 380749000696 exopolyphosphatase; Region: exo_poly_only; TIGR03706 380749000697 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 380749000698 MoxR-like ATPases [General function prediction only]; Region: COG0714 380749000699 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 380749000700 Walker A motif; other site 380749000701 ATP binding site [chemical binding]; other site 380749000702 Walker B motif; other site 380749000703 arginine finger; other site 380749000704 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 380749000705 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749000706 metal binding site [ion binding]; metal-binding site 380749000707 active site 380749000708 I-site; other site 380749000709 recombination protein RecR; Region: recR; TIGR00615 380749000710 RecR protein; Region: RecR; pfam02132 380749000711 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 380749000712 putative active site [active] 380749000713 putative metal-binding site [ion binding]; other site 380749000714 tetramer interface [polypeptide binding]; other site 380749000715 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 380749000716 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 380749000717 Walker A motif; other site 380749000718 ATP binding site [chemical binding]; other site 380749000719 Walker B motif; other site 380749000720 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 380749000721 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 380749000722 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 380749000723 Walker A motif; other site 380749000724 ATP binding site [chemical binding]; other site 380749000725 Walker B motif; other site 380749000726 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 380749000727 active site 380749000728 elongation factor Tu; Reviewed; Region: PRK00049 380749000729 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 380749000730 G1 box; other site 380749000731 GEF interaction site [polypeptide binding]; other site 380749000732 GTP/Mg2+ binding site [chemical binding]; other site 380749000733 Switch I region; other site 380749000734 G2 box; other site 380749000735 G3 box; other site 380749000736 Switch II region; other site 380749000737 G4 box; other site 380749000738 G5 box; other site 380749000739 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 380749000740 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 380749000741 Antibiotic Binding Site [chemical binding]; other site 380749000742 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 380749000743 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 380749000744 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 380749000745 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 380749000746 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 380749000747 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 380749000748 heterodimer interface [polypeptide binding]; other site 380749000749 homodimer interface [polypeptide binding]; other site 380749000750 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 380749000751 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 380749000752 23S rRNA interface [nucleotide binding]; other site 380749000753 L7/L12 interface [polypeptide binding]; other site 380749000754 putative thiostrepton binding site; other site 380749000755 L25 interface [polypeptide binding]; other site 380749000756 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 380749000757 mRNA/rRNA interface [nucleotide binding]; other site 380749000758 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 380749000759 23S rRNA interface [nucleotide binding]; other site 380749000760 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 380749000761 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 380749000762 core dimer interface [polypeptide binding]; other site 380749000763 peripheral dimer interface [polypeptide binding]; other site 380749000764 L10 interface [polypeptide binding]; other site 380749000765 L11 interface [polypeptide binding]; other site 380749000766 putative EF-Tu interaction site [polypeptide binding]; other site 380749000767 putative EF-G interaction site [polypeptide binding]; other site 380749000768 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 380749000769 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 380749000770 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 380749000771 RPB12 interaction site [polypeptide binding]; other site 380749000772 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 380749000773 RPB11 interaction site [polypeptide binding]; other site 380749000774 RPB12 interaction site [polypeptide binding]; other site 380749000775 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 380749000776 RPB1 interaction site [polypeptide binding]; other site 380749000777 RNA polymerase Rpb2, domain 7; Region: RNA_pol_Rpb2_7; pfam04560 380749000778 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 380749000779 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 380749000780 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 380749000781 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 380749000782 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 380749000783 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 380749000784 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 380749000785 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 380749000786 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 380749000787 DNA binding site [nucleotide binding] 380749000788 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 380749000789 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 380749000790 S17 interaction site [polypeptide binding]; other site 380749000791 S8 interaction site; other site 380749000792 16S rRNA interaction site [nucleotide binding]; other site 380749000793 streptomycin interaction site [chemical binding]; other site 380749000794 23S rRNA interaction site [nucleotide binding]; other site 380749000795 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 380749000796 30S ribosomal protein S7; Validated; Region: PRK05302 380749000797 elongation factor G; Reviewed; Region: PRK00007 380749000798 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 380749000799 G1 box; other site 380749000800 putative GEF interaction site [polypeptide binding]; other site 380749000801 GTP/Mg2+ binding site [chemical binding]; other site 380749000802 Switch I region; other site 380749000803 G2 box; other site 380749000804 G3 box; other site 380749000805 Switch II region; other site 380749000806 G4 box; other site 380749000807 G5 box; other site 380749000808 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 380749000809 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 380749000810 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 380749000811 elongation factor Tu; Reviewed; Region: PRK00049 380749000812 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 380749000813 G1 box; other site 380749000814 GEF interaction site [polypeptide binding]; other site 380749000815 GTP/Mg2+ binding site [chemical binding]; other site 380749000816 Switch I region; other site 380749000817 G2 box; other site 380749000818 G3 box; other site 380749000819 Switch II region; other site 380749000820 G4 box; other site 380749000821 G5 box; other site 380749000822 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 380749000823 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 380749000824 Antibiotic Binding Site [chemical binding]; other site 380749000825 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 380749000826 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 380749000827 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 380749000828 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 380749000829 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 380749000830 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 380749000831 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 380749000832 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 380749000833 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 380749000834 putative translocon binding site; other site 380749000835 protein-rRNA interface [nucleotide binding]; other site 380749000836 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 380749000837 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 380749000838 G-X-X-G motif; other site 380749000839 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 380749000840 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 380749000841 23S rRNA interface [nucleotide binding]; other site 380749000842 5S rRNA interface [nucleotide binding]; other site 380749000843 putative antibiotic binding site [chemical binding]; other site 380749000844 L25 interface [polypeptide binding]; other site 380749000845 L27 interface [polypeptide binding]; other site 380749000846 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 380749000847 L23 interface [polypeptide binding]; other site 380749000848 trigger factor interaction site; other site 380749000849 23S rRNA interface [nucleotide binding]; other site 380749000850 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 380749000851 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 380749000852 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 380749000853 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 380749000854 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 380749000855 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 380749000856 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 380749000857 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 380749000858 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 380749000859 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 380749000860 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 380749000861 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 380749000862 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 380749000863 5S rRNA interface [nucleotide binding]; other site 380749000864 L27 interface [polypeptide binding]; other site 380749000865 23S rRNA interface [nucleotide binding]; other site 380749000866 L5 interface [polypeptide binding]; other site 380749000867 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 380749000868 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 380749000869 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 380749000870 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 380749000871 23S rRNA binding site [nucleotide binding]; other site 380749000872 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 380749000873 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 380749000874 SecY translocase; Region: SecY; pfam00344 380749000875 adenylate kinase; Reviewed; Region: adk; PRK00279 380749000876 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 380749000877 AMP-binding site [chemical binding]; other site 380749000878 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 380749000879 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 380749000880 active site 380749000881 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 380749000882 rRNA binding site [nucleotide binding]; other site 380749000883 predicted 30S ribosome binding site; other site 380749000884 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 380749000885 30S ribosomal protein S13; Region: bact_S13; TIGR03631 380749000886 30S ribosomal protein S11; Validated; Region: PRK05309 380749000887 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 380749000888 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 380749000889 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 380749000890 RNA binding surface [nucleotide binding]; other site 380749000891 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 380749000892 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 380749000893 alphaNTD homodimer interface [polypeptide binding]; other site 380749000894 alphaNTD - beta interaction site [polypeptide binding]; other site 380749000895 alphaNTD - beta' interaction site [polypeptide binding]; other site 380749000896 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 380749000897 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 380749000898 YGGT family; Region: YGGT; pfam02325 380749000899 signal recognition particle protein; Provisional; Region: PRK10867 380749000900 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 380749000901 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 380749000902 P loop; other site 380749000903 GTP binding site [chemical binding]; other site 380749000904 Signal peptide binding domain; Region: SRP_SPB; pfam02978 380749000905 ribosomal protein S16; Region: S16; TIGR00002 380749000906 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 380749000907 hypothetical protein; Provisional; Region: PRK00468 380749000908 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 380749000909 DEAD-like helicases superfamily; Region: DEXDc; smart00487 380749000910 ATP binding site [chemical binding]; other site 380749000911 Mg++ binding site [ion binding]; other site 380749000912 motif III; other site 380749000913 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 380749000914 nucleotide binding region [chemical binding]; other site 380749000915 ATP-binding site [chemical binding]; other site 380749000916 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 380749000917 dimer interface [polypeptide binding]; other site 380749000918 substrate binding site [chemical binding]; other site 380749000919 ATP binding site [chemical binding]; other site 380749000920 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 380749000921 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 380749000922 Walker A/P-loop; other site 380749000923 ATP binding site [chemical binding]; other site 380749000924 Q-loop/lid; other site 380749000925 ABC transporter signature motif; other site 380749000926 Walker B; other site 380749000927 D-loop; other site 380749000928 H-loop/switch region; other site 380749000929 NosL; Region: NosL; cl01769 380749000930 SapC; Region: SapC; pfam07277 380749000931 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 380749000932 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 380749000933 Methyltransferase domain; Region: Methyltransf_23; pfam13489 380749000934 Methyltransferase domain; Region: Methyltransf_18; pfam12847 380749000935 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 380749000936 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 380749000937 catalytic loop [active] 380749000938 iron binding site [ion binding]; other site 380749000939 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 380749000940 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 380749000941 active site 380749000942 (T/H)XGH motif; other site 380749000943 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 380749000944 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 380749000945 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 380749000946 molybdopterin cofactor binding site; other site 380749000947 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 380749000948 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 380749000949 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 380749000950 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 380749000951 putative molybdopterin cofactor binding site; other site 380749000952 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 380749000953 4Fe-4S binding domain; Region: Fer4; pfam00037 380749000954 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 380749000955 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 380749000956 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 380749000957 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 380749000958 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 380749000959 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 380749000960 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 380749000961 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 380749000962 dimer interface [polypeptide binding]; other site 380749000963 putative CheW interface [polypeptide binding]; other site 380749000964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2380 380749000965 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 380749000966 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 380749000967 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 380749000968 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 380749000969 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 380749000970 Ligand binding site; other site 380749000971 oligomer interface; other site 380749000972 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 380749000973 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 380749000974 Cytochrome c; Region: Cytochrom_C; cl11414 380749000975 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 380749000976 active site residue [active] 380749000977 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 380749000978 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 380749000979 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 380749000980 PSP1 C-terminal conserved region; Region: PSP1; cl00770 380749000981 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 380749000982 threonine synthase; Reviewed; Region: PRK06721 380749000983 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 380749000984 homodimer interface [polypeptide binding]; other site 380749000985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749000986 catalytic residue [active] 380749000987 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 380749000988 Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]; Region: MobB; COG1763 380749000989 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 380749000990 feedback inhibition sensing region; other site 380749000991 homohexameric interface [polypeptide binding]; other site 380749000992 nucleotide binding site [chemical binding]; other site 380749000993 N-acetyl-L-glutamate binding site [chemical binding]; other site 380749000994 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 380749000995 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 380749000996 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 380749000997 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 380749000998 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 380749000999 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 380749001000 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 380749001001 Tetratricopeptide repeat; Region: TPR_16; pfam13432 380749001002 TPR motif; other site 380749001003 binding surface 380749001004 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 380749001005 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 380749001006 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 380749001007 Heme-binding domain of bacterial ethylbenzene dehydrogenase; Region: DOMON_EBDH; cd09623 380749001008 heme binding site [chemical binding]; other site 380749001009 beta subunit binding site [polypeptide binding]; other site 380749001010 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 380749001011 putative ligand binding site [chemical binding]; other site 380749001012 DMSO reductase family type II enzyme, iron-sulfur subunit; Region: DMSO_red_II_bet; TIGR03478 380749001013 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 380749001014 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 380749001015 molybdopterin cofactor binding site; other site 380749001016 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 380749001017 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 380749001018 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 380749001019 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 380749001020 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 380749001021 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 380749001022 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 380749001023 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 380749001024 Cytochrome c; Region: Cytochrom_C; pfam00034 380749001025 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 380749001026 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 380749001027 FeS/SAM binding site; other site 380749001028 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 380749001029 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 380749001030 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 380749001031 active site 380749001032 SAM binding site [chemical binding]; other site 380749001033 homodimer interface [polypeptide binding]; other site 380749001034 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 380749001035 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 380749001036 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 380749001037 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 380749001038 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 380749001039 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 380749001040 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 380749001041 ligand binding site [chemical binding]; other site 380749001042 flexible hinge region; other site 380749001043 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 380749001044 non-specific DNA interactions [nucleotide binding]; other site 380749001045 DNA binding site [nucleotide binding] 380749001046 sequence specific DNA binding site [nucleotide binding]; other site 380749001047 putative cAMP binding site [chemical binding]; other site 380749001048 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 380749001049 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 380749001050 Putative water exit pathway; other site 380749001051 K-pathway; other site 380749001052 Binuclear center (active site) [active] 380749001053 Putative proton exit pathway; other site 380749001054 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 380749001055 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 380749001056 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 380749001057 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 380749001058 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 380749001059 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 380749001060 carboxyltransferase (CT) interaction site; other site 380749001061 biotinylation site [posttranslational modification]; other site 380749001062 elongation factor P; Validated; Region: PRK00529 380749001063 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 380749001064 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 380749001065 RNA binding site [nucleotide binding]; other site 380749001066 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 380749001067 RNA binding site [nucleotide binding]; other site 380749001068 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 380749001069 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 380749001070 dihydrodipicolinate synthase; Region: dapA; TIGR00674 380749001071 dimer interface [polypeptide binding]; other site 380749001072 active site 380749001073 catalytic residue [active] 380749001074 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 380749001075 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 380749001076 active site 380749001077 HIGH motif; other site 380749001078 KMSKS motif; other site 380749001079 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 380749001080 tRNA binding surface [nucleotide binding]; other site 380749001081 anticodon binding site; other site 380749001082 Protein of unknown function (DUF503); Region: DUF503; pfam04456 380749001083 TPR repeat; Region: TPR_11; pfam13414 380749001084 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 380749001085 binding surface 380749001086 TPR motif; other site 380749001087 TPR repeat; Region: TPR_11; pfam13414 380749001088 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 380749001089 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 380749001090 Ligand Binding Site [chemical binding]; other site 380749001091 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 380749001092 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 380749001093 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 380749001094 Permease; Region: Permease; pfam02405 380749001095 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 380749001096 heme-binding site [chemical binding]; other site 380749001097 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 380749001098 EamA-like transporter family; Region: EamA; pfam00892 380749001099 EamA-like transporter family; Region: EamA; pfam00892 380749001100 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 380749001101 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 380749001102 NAD binding site [chemical binding]; other site 380749001103 homodimer interface [polypeptide binding]; other site 380749001104 active site 380749001105 substrate binding site [chemical binding]; other site 380749001106 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 380749001107 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 380749001108 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 380749001109 GatB domain; Region: GatB_Yqey; smart00845 380749001110 DNA gyrase subunit A; Validated; Region: PRK05560 380749001111 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 380749001112 CAP-like domain; other site 380749001113 active site 380749001114 primary dimer interface [polypeptide binding]; other site 380749001115 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 380749001116 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 380749001117 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 380749001118 seryl-tRNA synthetase; Provisional; Region: PRK05431 380749001119 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 380749001120 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 380749001121 dimer interface [polypeptide binding]; other site 380749001122 active site 380749001123 motif 1; other site 380749001124 motif 2; other site 380749001125 motif 3; other site 380749001126 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 380749001127 putative active site pocket [active] 380749001128 4-fold oligomerization interface [polypeptide binding]; other site 380749001129 metal binding residues [ion binding]; metal-binding site 380749001130 3-fold/trimer interface [polypeptide binding]; other site 380749001131 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 380749001132 rod shape-determining protein MreB; Provisional; Region: PRK13927 380749001133 MreB and similar proteins; Region: MreB_like; cd10225 380749001134 nucleotide binding site [chemical binding]; other site 380749001135 Mg binding site [ion binding]; other site 380749001136 putative protofilament interaction site [polypeptide binding]; other site 380749001137 RodZ interaction site [polypeptide binding]; other site 380749001138 rod shape-determining protein MreC; Provisional; Region: PRK13922 380749001139 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 380749001140 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 380749001141 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 380749001142 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 380749001143 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 380749001144 Cu(I) binding site [ion binding]; other site 380749001145 Putative motility protein; Region: YjfB_motility; pfam14070 380749001146 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 380749001147 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 380749001148 active site 380749001149 phosphorylation site [posttranslational modification] 380749001150 intermolecular recognition site; other site 380749001151 dimerization interface [polypeptide binding]; other site 380749001152 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 380749001153 DNA binding site [nucleotide binding] 380749001154 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 380749001155 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 380749001156 dimer interface [polypeptide binding]; other site 380749001157 phosphorylation site [posttranslational modification] 380749001158 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 380749001159 ATP binding site [chemical binding]; other site 380749001160 Mg2+ binding site [ion binding]; other site 380749001161 G-X-G motif; other site 380749001162 Domain of unknown function DUF20; Region: UPF0118; pfam01594 380749001163 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 380749001164 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 380749001165 G1 box; other site 380749001166 GTP/Mg2+ binding site [chemical binding]; other site 380749001167 Switch I region; other site 380749001168 G2 box; other site 380749001169 G3 box; other site 380749001170 Switch II region; other site 380749001171 G4 box; other site 380749001172 G5 box; other site 380749001173 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 380749001174 HIGH motif; other site 380749001175 dimer interface [polypeptide binding]; other site 380749001176 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 380749001177 active site 380749001178 KMSKS motif; other site 380749001179 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 380749001180 Peptidase family M50; Region: Peptidase_M50; pfam02163 380749001181 active site 380749001182 putative substrate binding region [chemical binding]; other site 380749001183 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 380749001184 Putative zinc ribbon domain; Region: DUF164; pfam02591 380749001185 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 380749001186 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 380749001187 FeS/SAM binding site; other site 380749001188 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 380749001189 CoenzymeA binding site [chemical binding]; other site 380749001190 subunit interaction site [polypeptide binding]; other site 380749001191 PHB binding site; other site 380749001192 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 380749001193 dimer interface [polypeptide binding]; other site 380749001194 putative CheW interface [polypeptide binding]; other site 380749001195 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 380749001196 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 380749001197 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 380749001198 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 380749001199 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 380749001200 FeS/SAM binding site; other site 380749001201 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 380749001202 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 380749001203 active site 380749001204 phosphorylation site [posttranslational modification] 380749001205 intermolecular recognition site; other site 380749001206 dimerization interface [polypeptide binding]; other site 380749001207 CheB methylesterase; Region: CheB_methylest; pfam01339 380749001208 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 380749001209 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 380749001210 OstA-like protein; Region: OstA; pfam03968 380749001211 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 380749001212 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 380749001213 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 380749001214 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 380749001215 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 380749001216 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 380749001217 NifU-like domain; Region: NifU; cl00484 380749001218 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 380749001219 CPxP motif; other site 380749001220 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 380749001221 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 380749001222 Ligand Binding Site [chemical binding]; other site 380749001223 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 380749001224 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 380749001225 trimerization site [polypeptide binding]; other site 380749001226 active site 380749001227 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 380749001228 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 380749001229 dimerization interface [polypeptide binding]; other site 380749001230 putative ATP binding site [chemical binding]; other site 380749001231 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 380749001232 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 380749001233 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 380749001234 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 380749001235 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 380749001236 Protein of unknown function (DUF523); Region: DUF523; pfam04463 380749001237 Uncharacterized conserved protein [Function unknown]; Region: COG3272 380749001238 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 380749001239 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 380749001240 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 380749001241 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 380749001242 active site 380749001243 HIGH motif; other site 380749001244 KMSK motif region; other site 380749001245 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 380749001246 tRNA binding surface [nucleotide binding]; other site 380749001247 anticodon binding site; other site 380749001248 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 380749001249 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 380749001250 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 380749001251 active site 380749001252 catalytic site [active] 380749001253 substrate binding site [chemical binding]; other site 380749001254 SurA N-terminal domain; Region: SurA_N; pfam09312 380749001255 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 380749001256 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 380749001257 active site 380749001258 (T/H)XGH motif; other site 380749001259 Protein of unknown function DUF72; Region: DUF72; pfam01904 380749001260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 380749001261 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 380749001262 catalytic loop [active] 380749001263 iron binding site [ion binding]; other site 380749001264 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 380749001265 4Fe-4S binding domain; Region: Fer4; pfam00037 380749001266 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 380749001267 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 380749001268 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 380749001269 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 380749001270 active site 380749001271 dimer interface [polypeptide binding]; other site 380749001272 Uncharacterized conserved protein [Function unknown]; Region: COG2445 380749001273 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 380749001274 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 380749001275 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 380749001276 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 380749001277 aspartate aminotransferase; Provisional; Region: PRK05764 380749001278 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 380749001279 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749001280 homodimer interface [polypeptide binding]; other site 380749001281 catalytic residue [active] 380749001282 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 380749001283 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 380749001284 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 380749001285 putative ADP-binding pocket [chemical binding]; other site 380749001286 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 380749001287 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 380749001288 putative acyl-acceptor binding pocket; other site 380749001289 UPF0126 domain; Region: UPF0126; pfam03458 380749001290 Predicted membrane protein [Function unknown]; Region: COG2860 380749001291 UPF0126 domain; Region: UPF0126; pfam03458 380749001292 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 380749001293 Glucose inhibited division protein A; Region: GIDA; pfam01134 380749001294 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 380749001295 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 380749001296 motif 1; other site 380749001297 dimer interface [polypeptide binding]; other site 380749001298 active site 380749001299 motif 2; other site 380749001300 motif 3; other site 380749001301 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 380749001302 Organic solvent tolerance protein; Region: OstA_C; pfam04453 380749001303 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 380749001304 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 380749001305 active site 380749001306 motif I; other site 380749001307 motif II; other site 380749001308 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 380749001309 Protein of unknown function (DUF465); Region: DUF465; pfam04325 380749001310 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 380749001311 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 380749001312 substrate binding site [chemical binding]; other site 380749001313 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 380749001314 active site 380749001315 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 380749001316 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 380749001317 RNA binding surface [nucleotide binding]; other site 380749001318 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 380749001319 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 380749001320 Transglycosylase; Region: Transgly; pfam00912 380749001321 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 380749001322 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 380749001323 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 380749001324 substrate binding site [chemical binding]; other site 380749001325 glutamase interaction surface [polypeptide binding]; other site 380749001326 Bacterial PH domain; Region: DUF304; pfam03703 380749001327 Copper resistance protein D; Region: CopD; cl00563 380749001328 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 380749001329 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 380749001330 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 380749001331 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 380749001332 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 380749001333 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 380749001334 dimer interface [polypeptide binding]; other site 380749001335 ssDNA binding site [nucleotide binding]; other site 380749001336 tetramer (dimer of dimers) interface [polypeptide binding]; other site 380749001337 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 380749001338 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 380749001339 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 380749001340 putative active site [active] 380749001341 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 380749001342 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 380749001343 FtsX-like permease family; Region: FtsX; pfam02687 380749001344 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 380749001345 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 380749001346 Walker A/P-loop; other site 380749001347 ATP binding site [chemical binding]; other site 380749001348 Q-loop/lid; other site 380749001349 ABC transporter signature motif; other site 380749001350 Walker B; other site 380749001351 D-loop; other site 380749001352 H-loop/switch region; other site 380749001353 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 380749001354 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 380749001355 active site residue [active] 380749001356 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 380749001357 arsenical pump membrane protein; Provisional; Region: PRK15445 380749001358 transmembrane helices; other site 380749001359 gamma-glutamyl kinase; Provisional; Region: PRK05429 380749001360 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 380749001361 nucleotide binding site [chemical binding]; other site 380749001362 homotetrameric interface [polypeptide binding]; other site 380749001363 putative phosphate binding site [ion binding]; other site 380749001364 putative allosteric binding site; other site 380749001365 PUA domain; Region: PUA; pfam01472 380749001366 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 380749001367 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 380749001368 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 380749001369 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 380749001370 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 380749001371 ATP binding site [chemical binding]; other site 380749001372 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 380749001373 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 380749001374 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 380749001375 dimer interface [polypeptide binding]; other site 380749001376 anticodon binding site; other site 380749001377 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 380749001378 homodimer interface [polypeptide binding]; other site 380749001379 motif 1; other site 380749001380 active site 380749001381 motif 2; other site 380749001382 GAD domain; Region: GAD; pfam02938 380749001383 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 380749001384 active site 380749001385 motif 3; other site 380749001386 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 380749001387 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 380749001388 iron-sulfur cluster [ion binding]; other site 380749001389 [2Fe-2S] cluster binding site [ion binding]; other site 380749001390 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 380749001391 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 380749001392 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 380749001393 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 380749001394 GTPase CgtA; Reviewed; Region: obgE; PRK12299 380749001395 GTP1/OBG; Region: GTP1_OBG; pfam01018 380749001396 Obg GTPase; Region: Obg; cd01898 380749001397 G1 box; other site 380749001398 GTP/Mg2+ binding site [chemical binding]; other site 380749001399 Switch I region; other site 380749001400 G2 box; other site 380749001401 G3 box; other site 380749001402 Switch II region; other site 380749001403 G4 box; other site 380749001404 G5 box; other site 380749001405 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 380749001406 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 380749001407 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 380749001408 Protein of unknown function (DUF554); Region: DUF554; pfam04474 380749001409 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 380749001410 nucleotide binding site/active site [active] 380749001411 HIT family signature motif; other site 380749001412 catalytic residue [active] 380749001413 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 380749001414 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 380749001415 thiamine-monophosphate kinase; Region: thiL; TIGR01379 380749001416 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 380749001417 ATP binding site [chemical binding]; other site 380749001418 dimerization interface [polypeptide binding]; other site 380749001419 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 380749001420 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 380749001421 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 380749001422 Protein of unknown function DUF58; Region: DUF58; pfam01882 380749001423 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 380749001424 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 380749001425 dimer interface [polypeptide binding]; other site 380749001426 conserved gate region; other site 380749001427 putative PBP binding loops; other site 380749001428 ABC-ATPase subunit interface; other site 380749001429 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 380749001430 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 380749001431 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 380749001432 AAA domain; Region: AAA_23; pfam13476 380749001433 Walker A/P-loop; other site 380749001434 ATP binding site [chemical binding]; other site 380749001435 Q-loop/lid; other site 380749001436 Violaxanthin de-epoxidase (VDE); Region: VDE; cl06253 380749001437 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 380749001438 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 380749001439 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 380749001440 ABC transporter signature motif; other site 380749001441 Walker B; other site 380749001442 D-loop; other site 380749001443 H-loop/switch region; other site 380749001444 argininosuccinate synthase; Provisional; Region: PRK13820 380749001445 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 380749001446 ANP binding site [chemical binding]; other site 380749001447 Substrate Binding Site II [chemical binding]; other site 380749001448 Substrate Binding Site I [chemical binding]; other site 380749001449 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 380749001450 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 380749001451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749001452 homodimer interface [polypeptide binding]; other site 380749001453 catalytic residue [active] 380749001454 Uncharacterized conserved protein [Function unknown]; Region: COG2835 380749001455 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 380749001456 FAD binding domain; Region: FAD_binding_4; pfam01565 380749001457 GTP-binding protein Der; Reviewed; Region: PRK00093 380749001458 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 380749001459 G1 box; other site 380749001460 GTP/Mg2+ binding site [chemical binding]; other site 380749001461 Switch I region; other site 380749001462 G2 box; other site 380749001463 Switch II region; other site 380749001464 G3 box; other site 380749001465 G4 box; other site 380749001466 G5 box; other site 380749001467 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 380749001468 G1 box; other site 380749001469 GTP/Mg2+ binding site [chemical binding]; other site 380749001470 Switch I region; other site 380749001471 G2 box; other site 380749001472 G3 box; other site 380749001473 Switch II region; other site 380749001474 G4 box; other site 380749001475 G5 box; other site 380749001476 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 380749001477 heterotetramer interface [polypeptide binding]; other site 380749001478 active site pocket [active] 380749001479 cleavage site 380749001480 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 380749001481 active site 380749001482 catalytic residues [active] 380749001483 metal binding site [ion binding]; metal-binding site 380749001484 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 380749001485 ACT domain; Region: ACT_6; pfam13740 380749001486 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 380749001487 fumarate hydratase; Reviewed; Region: fumC; PRK00485 380749001488 Class II fumarases; Region: Fumarase_classII; cd01362 380749001489 active site 380749001490 tetramer interface [polypeptide binding]; other site 380749001491 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 380749001492 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 380749001493 inhibitor-cofactor binding pocket; inhibition site 380749001494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749001495 catalytic residue [active] 380749001496 EVE domain; Region: EVE; pfam01878 380749001497 Protein of unknown function (DUF996); Region: DUF996; cl00970 380749001498 Uncharacterized protein conserved in archaea (DUF2250); Region: DUF2250; pfam10007 380749001499 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 380749001500 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 380749001501 dimer interface [polypeptide binding]; other site 380749001502 active site 380749001503 glycine-pyridoxal phosphate binding site [chemical binding]; other site 380749001504 folate binding site [chemical binding]; other site 380749001505 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 380749001506 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 380749001507 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 380749001508 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 380749001509 hypothetical protein; Validated; Region: PRK00110 380749001510 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 380749001511 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 380749001512 putative DNA binding site [nucleotide binding]; other site 380749001513 putative Zn2+ binding site [ion binding]; other site 380749001514 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 380749001515 Ligand Binding Site [chemical binding]; other site 380749001516 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 380749001517 catalytic motif [active] 380749001518 Zn binding site [ion binding]; other site 380749001519 RibD C-terminal domain; Region: RibD_C; cl17279 380749001520 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 380749001521 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 380749001522 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 380749001523 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 380749001524 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 380749001525 NAD(P) binding site [chemical binding]; other site 380749001526 homotetramer interface [polypeptide binding]; other site 380749001527 homodimer interface [polypeptide binding]; other site 380749001528 active site 380749001529 acyl carrier protein; Provisional; Region: acpP; PRK00982 380749001530 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 380749001531 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 380749001532 dimer interface [polypeptide binding]; other site 380749001533 active site 380749001534 ribonuclease III; Reviewed; Region: rnc; PRK00102 380749001535 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 380749001536 dimerization interface [polypeptide binding]; other site 380749001537 active site 380749001538 metal binding site [ion binding]; metal-binding site 380749001539 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 380749001540 dsRNA binding site [nucleotide binding]; other site 380749001541 Domain of unknown function (DUF1886); Region: DUF1886; cl01666 380749001542 GTP-binding protein YchF; Reviewed; Region: PRK09601 380749001543 YchF GTPase; Region: YchF; cd01900 380749001544 G1 box; other site 380749001545 GTP/Mg2+ binding site [chemical binding]; other site 380749001546 Switch I region; other site 380749001547 G2 box; other site 380749001548 Switch II region; other site 380749001549 G3 box; other site 380749001550 G4 box; other site 380749001551 G5 box; other site 380749001552 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 380749001553 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 380749001554 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 380749001555 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 380749001556 active site 380749001557 dimer interface [polypeptide binding]; other site 380749001558 motif 1; other site 380749001559 motif 2; other site 380749001560 motif 3; other site 380749001561 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 380749001562 anticodon binding site; other site 380749001563 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 380749001564 AAA domain; Region: AAA_26; pfam13500 380749001565 FtsH Extracellular; Region: FtsH_ext; pfam06480 380749001566 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 380749001567 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 380749001568 Walker A motif; other site 380749001569 ATP binding site [chemical binding]; other site 380749001570 Walker B motif; other site 380749001571 arginine finger; other site 380749001572 Peptidase family M41; Region: Peptidase_M41; pfam01434 380749001573 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 380749001574 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 380749001575 substrate binding site [chemical binding]; other site 380749001576 ligand binding site [chemical binding]; other site 380749001577 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 380749001578 Phosphopantetheinyl transferase (holo-ACP synthase) [Lipid metabolism]; Region: AcpS; COG0736 380749001579 diaminopimelate decarboxylase; Region: lysA; TIGR01048 380749001580 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 380749001581 active site 380749001582 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 380749001583 substrate binding site [chemical binding]; other site 380749001584 catalytic residues [active] 380749001585 dimer interface [polypeptide binding]; other site 380749001586 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 380749001587 V4R domain; Region: V4R; pfam02830 380749001588 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 380749001589 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 380749001590 homotetramer interface [polypeptide binding]; other site 380749001591 ligand binding site [chemical binding]; other site 380749001592 catalytic site [active] 380749001593 NAD binding site [chemical binding]; other site 380749001594 FAD binding domain; Region: FAD_binding_4; pfam01565 380749001595 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 380749001596 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 380749001597 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 380749001598 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 380749001599 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 380749001600 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 380749001601 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 380749001602 TPP-binding site [chemical binding]; other site 380749001603 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 380749001604 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 380749001605 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 380749001606 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 380749001607 catalytic residue [active] 380749001608 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 380749001609 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 380749001610 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 380749001611 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 380749001612 dimer interface [polypeptide binding]; other site 380749001613 conserved gate region; other site 380749001614 putative PBP binding loops; other site 380749001615 ABC-ATPase subunit interface; other site 380749001616 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional; Region: PRK14975 380749001617 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 380749001618 active site 380749001619 catalytic site [active] 380749001620 substrate binding site [chemical binding]; other site 380749001621 Phylum Aquificae Pol A is different from Escherichia coli Pol A by three signature sequences; Region: DNA_pol_A_Aquificae_like; cd08639 380749001622 active site 380749001623 DNA binding site [nucleotide binding] 380749001624 catalytic site [active] 380749001625 amino acid transporter; Region: 2A0306; TIGR00909 380749001626 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 380749001627 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 380749001628 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 380749001629 NAD(P) binding site [chemical binding]; other site 380749001630 catalytic residues [active] 380749001631 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 380749001632 dimer interface [polypeptide binding]; other site 380749001633 active site 380749001634 Schiff base residues; other site 380749001635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 380749001636 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 380749001637 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 380749001638 catalytic center binding site [active] 380749001639 ATP binding site [chemical binding]; other site 380749001640 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 380749001641 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 380749001642 active site 380749001643 putative substrate binding pocket [chemical binding]; other site 380749001644 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 380749001645 homopentamer interface [polypeptide binding]; other site 380749001646 active site 380749001647 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 380749001648 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 380749001649 Walker A motif; other site 380749001650 ATP binding site [chemical binding]; other site 380749001651 Walker B motif; other site 380749001652 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 380749001653 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 380749001654 putative substrate translocation pore; other site 380749001655 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 380749001656 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 380749001657 ATP-grasp domain; Region: ATP-grasp_4; cl17255 380749001658 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 380749001659 IMP binding site; other site 380749001660 dimer interface [polypeptide binding]; other site 380749001661 interdomain contacts; other site 380749001662 partial ornithine binding site; other site 380749001663 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 380749001664 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 380749001665 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 380749001666 Predicted Ser/Thr protein kinase [Signal transduction mechanisms]; Region: COG2112 380749001667 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 380749001668 active site 380749001669 substrate binding site [chemical binding]; other site 380749001670 ATP binding site [chemical binding]; other site 380749001671 Putative sterol carrier protein [Lipid metabolism]; Region: COG3255 380749001672 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 380749001673 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 380749001674 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 380749001675 putative active site [active] 380749001676 catalytic triad [active] 380749001677 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 380749001678 Found in ATP-dependent protease La (LON); Region: LON; smart00464 380749001679 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 380749001680 Walker A motif; other site 380749001681 ATP binding site [chemical binding]; other site 380749001682 Walker B motif; other site 380749001683 arginine finger; other site 380749001684 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 380749001685 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 380749001686 trimer interface [polypeptide binding]; other site 380749001687 active site 380749001688 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 380749001689 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 380749001690 N-acetyl-D-glucosamine binding site [chemical binding]; other site 380749001691 catalytic residue [active] 380749001692 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 380749001693 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 380749001694 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749001695 metal binding site [ion binding]; metal-binding site 380749001696 active site 380749001697 I-site; other site 380749001698 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 380749001699 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 380749001700 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 380749001701 dimer interface [polypeptide binding]; other site 380749001702 motif 1; other site 380749001703 active site 380749001704 motif 2; other site 380749001705 motif 3; other site 380749001706 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 380749001707 anticodon binding site; other site 380749001708 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 380749001709 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 380749001710 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 380749001711 multifunctional aminopeptidase A; Provisional; Region: PRK00913 380749001712 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 380749001713 interface (dimer of trimers) [polypeptide binding]; other site 380749001714 Substrate-binding/catalytic site; other site 380749001715 Zn-binding sites [ion binding]; other site 380749001716 aminotransferase; Validated; Region: PRK08175 380749001717 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 380749001718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749001719 homodimer interface [polypeptide binding]; other site 380749001720 catalytic residue [active] 380749001721 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 380749001722 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; cl01054 380749001723 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 380749001724 dimer interface [polypeptide binding]; other site 380749001725 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 380749001726 putative CheW interface [polypeptide binding]; other site 380749001727 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 380749001728 MarC family integral membrane protein; Region: MarC; pfam01914 380749001729 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 380749001730 Protein export membrane protein; Region: SecD_SecF; cl14618 380749001731 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 380749001732 HlyD family secretion protein; Region: HlyD_3; pfam13437 380749001733 Outer membrane efflux protein; Region: OEP; pfam02321 380749001734 Outer membrane efflux protein; Region: OEP; pfam02321 380749001735 Low molecular weight phosphatase family; Region: LMWPc; cd00115 380749001736 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 380749001737 active site 380749001738 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 380749001739 dimerization interface [polypeptide binding]; other site 380749001740 putative DNA binding site [nucleotide binding]; other site 380749001741 putative Zn2+ binding site [ion binding]; other site 380749001742 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 380749001743 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 380749001744 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 380749001745 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 380749001746 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 380749001747 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 380749001748 S-adenosylmethionine binding site [chemical binding]; other site 380749001749 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 380749001750 HEAT repeats; Region: HEAT_2; pfam13646 380749001751 pyruvate kinase; Provisional; Region: PRK05826 380749001752 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 380749001753 domain interfaces; other site 380749001754 active site 380749001755 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 380749001756 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 380749001757 Cl- selectivity filter; other site 380749001758 Cl- binding residues [ion binding]; other site 380749001759 pore gating glutamate residue; other site 380749001760 dimer interface [polypeptide binding]; other site 380749001761 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 380749001762 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 380749001763 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 380749001764 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 380749001765 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 380749001766 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 380749001767 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 380749001768 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 380749001769 putative metal binding site; other site 380749001770 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 380749001771 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 380749001772 HSP70 interaction site [polypeptide binding]; other site 380749001773 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 380749001774 substrate binding site [polypeptide binding]; other site 380749001775 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 380749001776 Zn binding sites [ion binding]; other site 380749001777 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 380749001778 dimer interface [polypeptide binding]; other site 380749001779 Rod binding protein; Region: Rod-binding; pfam10135 380749001780 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 380749001781 Flagellar P-ring protein; Region: FlgI; pfam02119 380749001782 Biotin synthase-related enzyme [General function prediction only]; Region: COG2516 380749001783 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 380749001784 FeS/SAM binding site; other site 380749001785 L-aspartate oxidase; Provisional; Region: PRK06175 380749001786 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 380749001787 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 380749001788 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 380749001789 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 380749001790 phosphate binding site [ion binding]; other site 380749001791 putative substrate binding pocket [chemical binding]; other site 380749001792 dimer interface [polypeptide binding]; other site 380749001793 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 380749001794 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 380749001795 homoserine kinase; Provisional; Region: PRK01212 380749001796 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 380749001797 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 380749001798 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 380749001799 CPxP motif; other site 380749001800 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 380749001801 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 380749001802 Protein of unknown function (DUF1641); Region: DUF1641; pfam07849 380749001803 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 380749001804 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 380749001805 dimer interface [polypeptide binding]; other site 380749001806 decamer (pentamer of dimers) interface [polypeptide binding]; other site 380749001807 catalytic triad [active] 380749001808 peroxidatic and resolving cysteines [active] 380749001809 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 380749001810 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 380749001811 Walker A motif; other site 380749001812 ATP binding site [chemical binding]; other site 380749001813 Walker B motif; other site 380749001814 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 380749001815 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 380749001816 active site 380749001817 catalytic residues [active] 380749001818 DNA binding site [nucleotide binding] 380749001819 Int/Topo IB signature motif; other site 380749001820 malate dehydrogenase; Reviewed; Region: PRK06223 380749001821 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 380749001822 NAD(P) binding site [chemical binding]; other site 380749001823 dimer interface [polypeptide binding]; other site 380749001824 tetramer (dimer of dimers) interface [polypeptide binding]; other site 380749001825 substrate binding site [chemical binding]; other site 380749001826 aconitate hydratase; Validated; Region: PRK07229 380749001827 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 380749001828 substrate binding site [chemical binding]; other site 380749001829 ligand binding site [chemical binding]; other site 380749001830 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 380749001831 substrate binding site [chemical binding]; other site 380749001832 Fructose-1,6-bisphosphatase; Region: FBPase_3; pfam01950 380749001833 Predicted membrane protein [Function unknown]; Region: COG3431 380749001834 Major Facilitator Superfamily; Region: MFS_1; pfam07690 380749001835 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 380749001836 putative substrate translocation pore; other site 380749001837 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 380749001838 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 380749001839 active site 380749001840 tetramer interface; other site 380749001841 glycogen branching enzyme; Provisional; Region: PRK12313 380749001842 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 380749001843 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 380749001844 active site 380749001845 catalytic site [active] 380749001846 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 380749001847 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 380749001848 binding surface 380749001849 TPR motif; other site 380749001850 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 380749001851 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 380749001852 P loop; other site 380749001853 GTP binding site [chemical binding]; other site 380749001854 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 380749001855 metal binding site 2 [ion binding]; metal-binding site 380749001856 putative DNA binding helix; other site 380749001857 metal binding site 1 [ion binding]; metal-binding site 380749001858 dimer interface [polypeptide binding]; other site 380749001859 structural Zn2+ binding site [ion binding]; other site 380749001860 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 380749001861 catalytic motif [active] 380749001862 Catalytic residue [active] 380749001863 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 380749001864 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 380749001865 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 380749001866 dimerization interface [polypeptide binding]; other site 380749001867 putative DNA binding site [nucleotide binding]; other site 380749001868 putative Zn2+ binding site [ion binding]; other site 380749001869 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 380749001870 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 380749001871 catalytic residues [active] 380749001872 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 380749001873 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 380749001874 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 380749001875 PilZ domain; Region: PilZ; pfam07238 380749001876 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 380749001877 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 380749001878 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 380749001879 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 380749001880 homodimer interface [polypeptide binding]; other site 380749001881 oligonucleotide binding site [chemical binding]; other site 380749001882 threonine synthase; Validated; Region: PRK07591 380749001883 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 380749001884 homodimer interface [polypeptide binding]; other site 380749001885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749001886 catalytic residue [active] 380749001887 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 380749001888 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 380749001889 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 380749001890 Cl- selectivity filter; other site 380749001891 Cl- binding residues [ion binding]; other site 380749001892 pore gating glutamate residue; other site 380749001893 dimer interface [polypeptide binding]; other site 380749001894 pyruvate carboxylase subunit B; Validated; Region: PRK09282 380749001895 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 380749001896 active site 380749001897 catalytic residues [active] 380749001898 metal binding site [ion binding]; metal-binding site 380749001899 homodimer binding site [polypeptide binding]; other site 380749001900 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 380749001901 carboxyltransferase (CT) interaction site; other site 380749001902 biotinylation site [posttranslational modification]; other site 380749001903 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 380749001904 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 380749001905 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 380749001906 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 380749001907 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 380749001908 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 380749001909 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 380749001910 ligand binding site [chemical binding]; other site 380749001911 L-aspartate oxidase; Provisional; Region: PRK06175 380749001912 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 380749001913 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 380749001914 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 380749001915 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 380749001916 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 380749001917 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 380749001918 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 380749001919 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 380749001920 Surface antigen; Region: Bac_surface_Ag; pfam01103 380749001921 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 380749001922 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 380749001923 active site 380749001924 HIGH motif; other site 380749001925 dimer interface [polypeptide binding]; other site 380749001926 KMSKS motif; other site 380749001927 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 380749001928 RNA binding surface [nucleotide binding]; other site 380749001929 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 380749001930 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 380749001931 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 380749001932 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 380749001933 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 380749001934 putative RNA binding site [nucleotide binding]; other site 380749001935 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 380749001936 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 380749001937 active site 380749001938 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 380749001939 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 380749001940 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 380749001941 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 380749001942 dimerization domain [polypeptide binding]; other site 380749001943 dimer interface [polypeptide binding]; other site 380749001944 catalytic residues [active] 380749001945 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 380749001946 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 380749001947 active site 380749001948 Zn binding site [ion binding]; other site 380749001949 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 380749001950 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 380749001951 ligand binding site [chemical binding]; other site 380749001952 flexible hinge region; other site 380749001953 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 380749001954 putative switch regulator; other site 380749001955 non-specific DNA interactions [nucleotide binding]; other site 380749001956 DNA binding site [nucleotide binding] 380749001957 sequence specific DNA binding site [nucleotide binding]; other site 380749001958 putative cAMP binding site [chemical binding]; other site 380749001959 GMP synthase; Reviewed; Region: guaA; PRK00074 380749001960 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 380749001961 AMP/PPi binding site [chemical binding]; other site 380749001962 candidate oxyanion hole; other site 380749001963 catalytic triad [active] 380749001964 potential glutamine specificity residues [chemical binding]; other site 380749001965 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 380749001966 ATP Binding subdomain [chemical binding]; other site 380749001967 Ligand Binding sites [chemical binding]; other site 380749001968 Dimerization subdomain; other site 380749001969 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 380749001970 active site 380749001971 hydrophilic channel; other site 380749001972 dimerization interface [polypeptide binding]; other site 380749001973 catalytic residues [active] 380749001974 active site lid [active] 380749001975 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 380749001976 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 380749001977 MgtE intracellular N domain; Region: MgtE_N; cl15244 380749001978 MgtE intracellular N domain; Region: MgtE_N; cl15244 380749001979 FliG C-terminal domain; Region: FliG_C; pfam01706 380749001980 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 380749001981 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 380749001982 Walker A motif; other site 380749001983 ATP binding site [chemical binding]; other site 380749001984 Walker B motif; other site 380749001985 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 380749001986 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 380749001987 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 380749001988 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 380749001989 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 380749001990 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 380749001991 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 380749001992 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 380749001993 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 380749001994 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 380749001995 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 380749001996 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 380749001997 FeS/SAM binding site; other site 380749001998 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 380749001999 RNA/DNA hybrid binding site [nucleotide binding]; other site 380749002000 active site 380749002001 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 380749002002 TPR motif; other site 380749002003 binding surface 380749002004 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 380749002005 binding surface 380749002006 TPR motif; other site 380749002007 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 380749002008 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 380749002009 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 380749002010 Uncharacterized conserved protein (DUF2203); Region: DUF2203; pfam09969 380749002011 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 380749002012 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 380749002013 putative active site [active] 380749002014 Ubiquitin-like proteins; Region: UBQ; cl00155 380749002015 charged pocket; other site 380749002016 hydrophobic patch; other site 380749002017 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 380749002018 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 380749002019 active site 380749002020 HIGH motif; other site 380749002021 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 380749002022 active site 380749002023 KMSKS motif; other site 380749002024 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 380749002025 Clp amino terminal domain; Region: Clp_N; pfam02861 380749002026 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 380749002027 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 380749002028 Walker A motif; other site 380749002029 ATP binding site [chemical binding]; other site 380749002030 Walker B motif; other site 380749002031 arginine finger; other site 380749002032 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 380749002033 Walker A motif; other site 380749002034 ATP binding site [chemical binding]; other site 380749002035 Walker B motif; other site 380749002036 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 380749002037 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 380749002038 Peptidase family U32; Region: Peptidase_U32; pfam01136 380749002039 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 380749002040 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 380749002041 putative catalytic cysteine [active] 380749002042 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 380749002043 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 380749002044 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 380749002045 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 380749002046 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 380749002047 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 380749002048 CoA-binding site [chemical binding]; other site 380749002049 ATP-binding [chemical binding]; other site 380749002050 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 380749002051 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 380749002052 G1 box; other site 380749002053 putative GEF interaction site [polypeptide binding]; other site 380749002054 GTP/Mg2+ binding site [chemical binding]; other site 380749002055 Switch I region; other site 380749002056 G2 box; other site 380749002057 G3 box; other site 380749002058 Switch II region; other site 380749002059 G4 box; other site 380749002060 G5 box; other site 380749002061 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 380749002062 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 380749002063 transcription termination factor Rho; Provisional; Region: rho; PRK09376 380749002064 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 380749002065 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 380749002066 RNA binding site [nucleotide binding]; other site 380749002067 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 380749002068 multimer interface [polypeptide binding]; other site 380749002069 Walker A motif; other site 380749002070 ATP binding site [chemical binding]; other site 380749002071 Walker B motif; other site 380749002072 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 380749002073 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 380749002074 trmE is a tRNA modification GTPase; Region: trmE; cd04164 380749002075 G1 box; other site 380749002076 GTP/Mg2+ binding site [chemical binding]; other site 380749002077 Switch I region; other site 380749002078 G2 box; other site 380749002079 Switch II region; other site 380749002080 G3 box; other site 380749002081 G4 box; other site 380749002082 G5 box; other site 380749002083 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 380749002084 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 380749002085 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 380749002086 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 380749002087 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 380749002088 Coenzyme A binding pocket [chemical binding]; other site 380749002089 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 380749002090 AsnC family; Region: AsnC_trans_reg; pfam01037 380749002091 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 380749002092 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 380749002093 tRNA; other site 380749002094 putative tRNA binding site [nucleotide binding]; other site 380749002095 putative NADP binding site [chemical binding]; other site 380749002096 prolyl-tRNA synthetase; Provisional; Region: PRK09194 380749002097 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 380749002098 dimer interface [polypeptide binding]; other site 380749002099 motif 1; other site 380749002100 active site 380749002101 motif 2; other site 380749002102 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 380749002103 putative deacylase active site [active] 380749002104 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 380749002105 active site 380749002106 motif 3; other site 380749002107 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 380749002108 anticodon binding site; other site 380749002109 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 380749002110 Integrase core domain; Region: rve; pfam00665 380749002111 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 380749002112 Integrase core domain; Region: rve_3; pfam13683 380749002113 UGMP family protein; Validated; Region: PRK09604 380749002114 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 380749002115 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 380749002116 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 380749002117 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 380749002118 protein binding site [polypeptide binding]; other site 380749002119 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 380749002120 Catalytic dyad [active] 380749002121 phosphate:H+ symporter; Region: 2A0109; TIGR00887 380749002122 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 380749002123 putative substrate translocation pore; other site 380749002124 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 380749002125 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 380749002126 putative acyl-acceptor binding pocket; other site 380749002127 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 380749002128 putative active site [active] 380749002129 putative Zn binding site [ion binding]; other site 380749002130 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 380749002131 active site 380749002132 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 380749002133 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 380749002134 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 380749002135 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 380749002136 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 380749002137 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749002138 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 380749002139 metal binding site [ion binding]; metal-binding site 380749002140 active site 380749002141 I-site; other site 380749002142 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 380749002143 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 380749002144 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 380749002145 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 380749002146 N-terminal plug; other site 380749002147 ligand-binding site [chemical binding]; other site 380749002148 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 380749002149 active site 380749002150 NTP binding site [chemical binding]; other site 380749002151 metal binding triad [ion binding]; metal-binding site 380749002152 antibiotic binding site [chemical binding]; other site 380749002153 Protein of unknown function DUF86; Region: DUF86; cl01031 380749002154 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 380749002155 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 380749002156 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 380749002157 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 380749002158 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 380749002159 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 380749002160 Phosphoesterase family; Region: Phosphoesterase; pfam04185 380749002161 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 380749002162 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 380749002163 Soluble P-type ATPase [General function prediction only]; Region: COG4087 380749002164 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 380749002165 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 380749002166 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 380749002167 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 380749002168 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 380749002169 K+-transporting ATPase, c chain; Region: KdpC; cl00944 380749002170 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 380749002171 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 380749002172 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 380749002173 Ligand Binding Site [chemical binding]; other site 380749002174 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 380749002175 GAF domain; Region: GAF_3; pfam13492 380749002176 Vitamin-D-receptor interacting Mediator subunit 4; Region: Med4; pfam10018 380749002177 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 380749002178 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 380749002179 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 380749002180 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 380749002181 ATP binding site [chemical binding]; other site 380749002182 Walker B motif; other site 380749002183 Predicted membrane protein [Function unknown]; Region: COG1238 380749002184 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 380749002185 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 380749002186 putative dimer interface [polypeptide binding]; other site 380749002187 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 380749002188 dimer interface [polypeptide binding]; other site 380749002189 FMN binding site [chemical binding]; other site 380749002190 putative carbohydrate kinase; Provisional; Region: PRK10565 380749002191 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 380749002192 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 380749002193 putative substrate binding site [chemical binding]; other site 380749002194 putative ATP binding site [chemical binding]; other site 380749002195 Phosphoglycerate kinase; Region: PGK; pfam00162 380749002196 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 380749002197 substrate binding site [chemical binding]; other site 380749002198 hinge regions; other site 380749002199 ADP binding site [chemical binding]; other site 380749002200 catalytic site [active] 380749002201 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 380749002202 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 380749002203 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 380749002204 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 380749002205 catalytic loop [active] 380749002206 iron binding site [ion binding]; other site 380749002207 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 380749002208 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 380749002209 nucleotide binding site/active site [active] 380749002210 HIT family signature motif; other site 380749002211 catalytic residue [active] 380749002212 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 380749002213 S-adenosylmethionine synthetase; Provisional; Region: PRK04439 380749002214 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 380749002215 NADH dehydrogenase subunit B; Validated; Region: PRK06411 380749002216 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 380749002217 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 380749002218 NADH dehydrogenase subunit D; Validated; Region: PRK06075 380749002219 NADH:ubiquinone oxidoreductase subunit 1 (chain H) [Energy production and conversion]; Region: NuoH; COG1005 380749002220 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 380749002221 4Fe-4S binding domain; Region: Fer4; cl02805 380749002222 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; pfam00499 380749002223 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 380749002224 NADH:ubiquinone oxidoreductase subunit 11 or 4L (chain K) [Energy production and conversion]; Region: NuoK; COG0713 380749002225 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 380749002226 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 380749002227 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 380749002228 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 380749002229 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 380749002230 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 380749002231 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 380749002232 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 380749002233 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 380749002234 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 380749002235 NADH dehydrogenase subunit D; Validated; Region: PRK06075 380749002236 NADH:ubiquinone oxidoreductase subunit 1 (chain H) [Energy production and conversion]; Region: NuoH; COG1005 380749002237 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 380749002238 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 380749002239 4Fe-4S binding domain; Region: Fer4; pfam00037 380749002240 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 380749002241 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 380749002242 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 380749002243 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 380749002244 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 380749002245 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 380749002246 NADH:ubiquinone oxidoreductase subunit 4 (chain M) [Energy production and conversion]; Region: NuoM; COG1008 380749002247 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 380749002248 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 380749002249 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 380749002250 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 380749002251 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 380749002252 catalytic site [active] 380749002253 G-X2-G-X-G-K; other site 380749002254 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 380749002255 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 380749002256 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 380749002257 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 380749002258 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 380749002259 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 380749002260 Beta-Casp domain; Region: Beta-Casp; smart01027 380749002261 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 380749002262 Predicted integral membrane protein [Function unknown]; Region: COG5542 380749002263 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 380749002264 AAA domain; Region: AAA_23; pfam13476 380749002265 Walker A/P-loop; other site 380749002266 ATP binding site [chemical binding]; other site 380749002267 Q-loop/lid; other site 380749002268 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 380749002269 ABC transporter signature motif; other site 380749002270 Walker B; other site 380749002271 D-loop; other site 380749002272 H-loop/switch region; other site 380749002273 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 380749002274 active site residue [active] 380749002275 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 380749002276 tetramerization interface [polypeptide binding]; other site 380749002277 active site 380749002278 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 380749002279 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 380749002280 active site 380749002281 HIGH motif; other site 380749002282 nucleotide binding site [chemical binding]; other site 380749002283 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 380749002284 active site 380749002285 KMSKS motif; other site 380749002286 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 380749002287 tRNA binding surface [nucleotide binding]; other site 380749002288 anticodon binding site; other site 380749002289 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 380749002290 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 380749002291 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 380749002292 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 380749002293 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 380749002294 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 380749002295 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 380749002296 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 380749002297 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 380749002298 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 380749002299 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 380749002300 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 380749002301 Walker A/P-loop; other site 380749002302 ATP binding site [chemical binding]; other site 380749002303 Q-loop/lid; other site 380749002304 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 380749002305 ABC transporter signature motif; other site 380749002306 Walker B; other site 380749002307 D-loop; other site 380749002308 H-loop/switch region; other site 380749002309 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 380749002310 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 380749002311 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 380749002312 Protein export membrane protein; Region: SecD_SecF; cl14618 380749002313 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 380749002314 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 380749002315 S-adenosylmethionine binding site [chemical binding]; other site 380749002316 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 380749002317 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 380749002318 acyl-activating enzyme (AAE) consensus motif; other site 380749002319 putative AMP binding site [chemical binding]; other site 380749002320 putative active site [active] 380749002321 putative CoA binding site [chemical binding]; other site 380749002322 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 380749002323 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 380749002324 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 380749002325 putative acyl-acceptor binding pocket; other site 380749002326 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 380749002327 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 380749002328 ligand binding site [chemical binding]; other site 380749002329 NAD binding site [chemical binding]; other site 380749002330 dimerization interface [polypeptide binding]; other site 380749002331 catalytic site [active] 380749002332 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 380749002333 putative L-serine binding site [chemical binding]; other site 380749002334 aspartate kinase; Reviewed; Region: PRK06635 380749002335 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 380749002336 putative catalytic residues [active] 380749002337 putative nucleotide binding site [chemical binding]; other site 380749002338 putative aspartate binding site [chemical binding]; other site 380749002339 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 380749002340 putative allosteric regulatory site; other site 380749002341 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 380749002342 putative allosteric regulatory residue; other site 380749002343 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 380749002344 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 380749002345 putative ribose interaction site [chemical binding]; other site 380749002346 putative ADP binding site [chemical binding]; other site 380749002347 Outer membrane efflux protein; Region: OEP; pfam02321 380749002348 Outer membrane efflux protein; Region: OEP; pfam02321 380749002349 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 380749002350 HlyD family secretion protein; Region: HlyD_3; pfam13437 380749002351 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 380749002352 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 380749002353 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 380749002354 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 380749002355 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 380749002356 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 380749002357 putative substrate translocation pore; other site 380749002358 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 380749002359 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 380749002360 aromatic arch; other site 380749002361 DCoH dimer interaction site [polypeptide binding]; other site 380749002362 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 380749002363 DCoH tetramer interaction site [polypeptide binding]; other site 380749002364 substrate binding site [chemical binding]; other site 380749002365 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 380749002366 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 380749002367 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 380749002368 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 380749002369 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 380749002370 catalytic residues [active] 380749002371 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 380749002372 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 380749002373 inhibitor-cofactor binding pocket; inhibition site 380749002374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749002375 catalytic residue [active] 380749002376 N-terminal catalytic domain of 4-alpha-glucanotransferase; glycoside hydrolase family 57 (GH57); Region: GH57N_TLGT_like; cd10793 380749002377 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 380749002378 active site 380749002379 catalytic site [active] 380749002380 homodimer interface [polypeptide binding]; other site 380749002381 Lid 1; other site 380749002382 Domain of unknown function (DUF1925); Region: DUF1925; pfam09094 380749002383 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 380749002384 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 380749002385 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 380749002386 dimer interface [polypeptide binding]; other site 380749002387 phosphorylation site [posttranslational modification] 380749002388 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 380749002389 ATP binding site [chemical binding]; other site 380749002390 G-X-G motif; other site 380749002391 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 380749002392 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 380749002393 Walker A motif; other site 380749002394 ATP binding site [chemical binding]; other site 380749002395 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 380749002396 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 380749002397 Preprotein translocase subunit; Region: YajC; pfam02699 380749002398 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 380749002399 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 380749002400 IHF - DNA interface [nucleotide binding]; other site 380749002401 IHF dimer interface [polypeptide binding]; other site 380749002402 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 380749002403 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 380749002404 glutaminase active site [active] 380749002405 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 380749002406 dimer interface [polypeptide binding]; other site 380749002407 active site 380749002408 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 380749002409 dimer interface [polypeptide binding]; other site 380749002410 active site 380749002411 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 380749002412 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 380749002413 FeS/SAM binding site; other site 380749002414 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 380749002415 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 380749002416 S-adenosylmethionine binding site [chemical binding]; other site 380749002417 Preprotein translocase SecG subunit; Region: SecG; pfam03840 380749002418 6-carboxyhexanoate--CoA ligase; Provisional; Region: PRK01322 380749002419 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 380749002420 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 380749002421 dimer interface [polypeptide binding]; other site 380749002422 putative CheW interface [polypeptide binding]; other site 380749002423 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 380749002424 active site 380749002425 intersubunit interactions; other site 380749002426 catalytic residue [active] 380749002427 dihydroorotase; Validated; Region: pyrC; PRK09357 380749002428 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 380749002429 active site 380749002430 Predicted transcriptional regulator [Transcription]; Region: COG2932 380749002431 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 380749002432 non-specific DNA binding site [nucleotide binding]; other site 380749002433 salt bridge; other site 380749002434 sequence-specific DNA binding site [nucleotide binding]; other site 380749002435 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 380749002436 Catalytic site [active] 380749002437 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 380749002438 active site 380749002439 KMSKS motif; other site 380749002440 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 380749002441 tRNA binding surface [nucleotide binding]; other site 380749002442 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 380749002443 GAF domain; Region: GAF_2; pfam13185 380749002444 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 380749002445 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749002446 metal binding site [ion binding]; metal-binding site 380749002447 active site 380749002448 I-site; other site 380749002449 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 380749002450 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 380749002451 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 380749002452 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 380749002453 Low-spin heme binding site [chemical binding]; other site 380749002454 D-pathway; other site 380749002455 Putative water exit pathway; other site 380749002456 Binuclear center (active site) [active] 380749002457 K-pathway; other site 380749002458 Putative proton exit pathway; other site 380749002459 Cytochrome c; Region: Cytochrom_C; pfam00034 380749002460 Cytochrome c; Region: Cytochrom_C; pfam00034 380749002461 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 380749002462 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 380749002463 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 380749002464 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 380749002465 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 380749002466 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 380749002467 pantoate--beta-alanine ligase; Region: panC; TIGR00018 380749002468 Pantoate-beta-alanine ligase; Region: PanC; cd00560 380749002469 active site 380749002470 ATP-binding site [chemical binding]; other site 380749002471 pantoate-binding site; other site 380749002472 HXXH motif; other site 380749002473 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 380749002474 Bacterial sugar transferase; Region: Bac_transf; pfam02397 380749002475 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 380749002476 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 380749002477 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 380749002478 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 380749002479 Walker A motif; other site 380749002480 ATP binding site [chemical binding]; other site 380749002481 Walker B motif; other site 380749002482 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 380749002483 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 380749002484 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 380749002485 Substrate binding site; other site 380749002486 Cupin domain; Region: Cupin_2; cl17218 380749002487 Predicted methyltransferases [General function prediction only]; Region: COG1568 380749002488 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 380749002489 S-adenosylmethionine binding site [chemical binding]; other site 380749002490 excinuclease ABC subunit B; Provisional; Region: PRK05298 380749002491 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 380749002492 ATP binding site [chemical binding]; other site 380749002493 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 380749002494 nucleotide binding region [chemical binding]; other site 380749002495 ATP-binding site [chemical binding]; other site 380749002496 Ultra-violet resistance protein B; Region: UvrB; pfam12344 380749002497 UvrB/uvrC motif; Region: UVR; pfam02151 380749002498 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 380749002499 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 380749002500 active site 380749002501 motif I; other site 380749002502 motif II; other site 380749002503 D-Lactate and related Dehydrogenase like proteins, NAD-binding and catalytic domains; Region: LDH_like_1; cd12187 380749002504 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 380749002505 ligand binding site [chemical binding]; other site 380749002506 NAD binding site [chemical binding]; other site 380749002507 homodimer interface [polypeptide binding]; other site 380749002508 catalytic site [active] 380749002509 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 380749002510 mce related protein; Region: MCE; pfam02470 380749002511 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 380749002512 metal binding triad; other site 380749002513 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 380749002514 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 380749002515 metal binding triad; other site 380749002516 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 380749002517 active site 380749002518 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 380749002519 metal binding site 2 [ion binding]; metal-binding site 380749002520 putative DNA binding helix; other site 380749002521 metal binding site 1 [ion binding]; metal-binding site 380749002522 dimer interface [polypeptide binding]; other site 380749002523 structural Zn2+ binding site [ion binding]; other site 380749002524 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 380749002525 active site 380749002526 dimerization interface [polypeptide binding]; other site 380749002527 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 380749002528 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 380749002529 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 380749002530 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749002531 metal binding site [ion binding]; metal-binding site 380749002532 active site 380749002533 I-site; other site 380749002534 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 380749002535 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 380749002536 Lumazine binding domain; Region: Lum_binding; pfam00677 380749002537 Lumazine binding domain; Region: Lum_binding; pfam00677 380749002538 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 380749002539 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 380749002540 Outer membrane efflux protein; Region: OEP; pfam02321 380749002541 Outer membrane efflux protein; Region: OEP; pfam02321 380749002542 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 380749002543 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 380749002544 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 380749002545 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14331 380749002546 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 380749002547 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 380749002548 FeS/SAM binding site; other site 380749002549 TRAM domain; Region: TRAM; cl01282 380749002550 Competence-damaged protein; Region: CinA; pfam02464 380749002551 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 380749002552 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 380749002553 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 380749002554 MraW methylase family; Region: Methyltransf_5; cl17771 380749002555 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 380749002556 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 380749002557 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 380749002558 active site 380749002559 Zn binding site [ion binding]; other site 380749002560 ribonuclease PH; Reviewed; Region: rph; PRK00173 380749002561 Ribonuclease PH; Region: RNase_PH_bact; cd11362 380749002562 hexamer interface [polypeptide binding]; other site 380749002563 active site 380749002564 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 380749002565 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 380749002566 oligomerisation interface [polypeptide binding]; other site 380749002567 mobile loop; other site 380749002568 roof hairpin; other site 380749002569 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 380749002570 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 380749002571 ring oligomerisation interface [polypeptide binding]; other site 380749002572 ATP/Mg binding site [chemical binding]; other site 380749002573 stacking interactions; other site 380749002574 hinge regions; other site 380749002575 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 380749002576 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 380749002577 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 380749002578 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 380749002579 Zn2+ binding site [ion binding]; other site 380749002580 Mg2+ binding site [ion binding]; other site 380749002581 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 380749002582 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 380749002583 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 380749002584 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 380749002585 metal binding site [ion binding]; metal-binding site 380749002586 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 380749002587 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 380749002588 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 380749002589 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 380749002590 Coenzyme A binding pocket [chemical binding]; other site 380749002591 Flagellar protein FliS; Region: FliS; cl00654 380749002592 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 380749002593 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 380749002594 FlaG protein; Region: FlaG; pfam03646 380749002595 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 380749002596 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 380749002597 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 380749002598 putative tRNA-binding site [nucleotide binding]; other site 380749002599 B3/4 domain; Region: B3_4; pfam03483 380749002600 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 380749002601 motif 1; other site 380749002602 dimer interface [polypeptide binding]; other site 380749002603 active site 380749002604 motif 2; other site 380749002605 motif 3; other site 380749002606 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 380749002607 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 380749002608 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 380749002609 phosphodiesterase; Provisional; Region: PRK12704 380749002610 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 380749002611 Zn2+ binding site [ion binding]; other site 380749002612 Mg2+ binding site [ion binding]; other site 380749002613 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 380749002614 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 380749002615 FeS/SAM binding site; other site 380749002616 HemN C-terminal domain; Region: HemN_C; pfam06969 380749002617 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 380749002618 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 380749002619 ATP synthase subunit C; Region: ATP-synt_C; cl00466 380749002620 hypothetical protein; Provisional; Region: PRK14382 380749002621 membrane protein insertase; Provisional; Region: PRK01318 380749002622 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 380749002623 SurA N-terminal domain; Region: SurA_N_3; pfam13624 380749002624 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 380749002625 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]; Region: COG1465 380749002626 3-dehydroquinate synthase; Provisional; Region: PRK02290 380749002627 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 380749002628 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 380749002629 substrate binding site [chemical binding]; other site 380749002630 hexamer interface [polypeptide binding]; other site 380749002631 metal binding site [ion binding]; metal-binding site 380749002632 hypothetical protein; Provisional; Region: PRK08960 380749002633 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 380749002634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749002635 homodimer interface [polypeptide binding]; other site 380749002636 catalytic residue [active] 380749002637 spermidine synthase; Provisional; Region: PRK00811 380749002638 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 380749002639 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 380749002640 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 380749002641 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 380749002642 minor groove reading motif; other site 380749002643 helix-hairpin-helix signature motif; other site 380749002644 substrate binding pocket [chemical binding]; other site 380749002645 active site 380749002646 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 380749002647 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 380749002648 Na binding site [ion binding]; other site 380749002649 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 380749002650 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 380749002651 histidinol dehydrogenase; Region: hisD; TIGR00069 380749002652 NAD binding site [chemical binding]; other site 380749002653 dimerization interface [polypeptide binding]; other site 380749002654 product binding site; other site 380749002655 substrate binding site [chemical binding]; other site 380749002656 zinc binding site [ion binding]; other site 380749002657 catalytic residues [active] 380749002658 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 380749002659 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 380749002660 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 380749002661 homodimer interface [polypeptide binding]; other site 380749002662 NADP binding site [chemical binding]; other site 380749002663 substrate binding site [chemical binding]; other site 380749002664 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 380749002665 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 380749002666 nucleotide binding pocket [chemical binding]; other site 380749002667 K-X-D-G motif; other site 380749002668 catalytic site [active] 380749002669 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 380749002670 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 380749002671 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 380749002672 Dimer interface [polypeptide binding]; other site 380749002673 BRCT sequence motif; other site 380749002674 DsrE/DsrF-like family; Region: DrsE; pfam02635 380749002675 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 380749002676 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 380749002677 Cysteine-rich domain; Region: CCG; pfam02754 380749002678 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 380749002679 Ferritin-like domain; Region: Ferritin; pfam00210 380749002680 binuclear metal center [ion binding]; other site 380749002681 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 380749002682 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 380749002683 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 380749002684 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 380749002685 active site 380749002686 metal binding site [ion binding]; metal-binding site 380749002687 HerA helicase [Replication, recombination, and repair]; Region: COG0433 380749002688 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 380749002689 Walker A motif; other site 380749002690 ATP binding site [chemical binding]; other site 380749002691 Walker B motif; other site 380749002692 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 380749002693 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 380749002694 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 380749002695 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 380749002696 substrate binding pocket [chemical binding]; other site 380749002697 chain length determination region; other site 380749002698 substrate-Mg2+ binding site; other site 380749002699 catalytic residues [active] 380749002700 aspartate-rich region 1; other site 380749002701 active site lid residues [active] 380749002702 aspartate-rich region 2; other site 380749002703 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 380749002704 Domain of unknown function DUF21; Region: DUF21; pfam01595 380749002705 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 380749002706 Transporter associated domain; Region: CorC_HlyC; smart01091 380749002707 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 380749002708 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 380749002709 4Fe-4S binding domain; Region: Fer4; cl02805 380749002710 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 380749002711 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 380749002712 tetrathionate reductase subunit A; Provisional; Region: PRK14991 380749002713 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 380749002714 putative [Fe4-S4] binding site [ion binding]; other site 380749002715 putative molybdopterin cofactor binding site [chemical binding]; other site 380749002716 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 380749002717 putative molybdopterin cofactor binding site; other site 380749002718 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 380749002719 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 380749002720 putative active site [active] 380749002721 putative metal binding site [ion binding]; other site 380749002722 hypothetical protein; Provisional; Region: PRK10621 380749002723 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 380749002724 Amino acid permease; Region: AA_permease_2; pfam13520 380749002725 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 380749002726 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 380749002727 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 380749002728 CoA binding domain; Region: CoA_binding; smart00881 380749002729 CoA-ligase; Region: Ligase_CoA; pfam00549 380749002730 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 380749002731 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 380749002732 CoA-ligase; Region: Ligase_CoA; pfam00549 380749002733 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 380749002734 DNA-binding site [nucleotide binding]; DNA binding site 380749002735 RNA-binding motif; other site 380749002736 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 380749002737 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 380749002738 RNA binding site [nucleotide binding]; other site 380749002739 active site 380749002740 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 380749002741 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 380749002742 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 380749002743 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 380749002744 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 380749002745 DNA binding residues [nucleotide binding] 380749002746 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 380749002747 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 380749002748 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 380749002749 protein binding site [polypeptide binding]; other site 380749002750 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 380749002751 protein binding site [polypeptide binding]; other site 380749002752 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 380749002753 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 380749002754 S-adenosylmethionine binding site [chemical binding]; other site 380749002755 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 380749002756 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 380749002757 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 380749002758 putative ligand binding pocket/active site [active] 380749002759 putative metal binding site [ion binding]; other site 380749002760 AAA domain; Region: AAA_33; pfam13671 380749002761 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 380749002762 active site 380749002763 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 380749002764 Nitrogen regulatory protein P-II; Region: P-II; smart00938 380749002765 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 380749002766 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 380749002767 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; cl00290 380749002768 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 380749002769 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 380749002770 molybdenum-pterin binding domain; Region: Mop; TIGR00638 380749002771 molybdenum-pterin binding domain; Region: Mop; TIGR00638 380749002772 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 380749002773 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 380749002774 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 380749002775 dimer interface [polypeptide binding]; other site 380749002776 conserved gate region; other site 380749002777 putative PBP binding loops; other site 380749002778 ABC-ATPase subunit interface; other site 380749002779 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 380749002780 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 380749002781 Walker A/P-loop; other site 380749002782 ATP binding site [chemical binding]; other site 380749002783 Q-loop/lid; other site 380749002784 ABC transporter signature motif; other site 380749002785 Walker B; other site 380749002786 D-loop; other site 380749002787 H-loop/switch region; other site 380749002788 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 380749002789 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 380749002790 FeS/SAM binding site; other site 380749002791 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes 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 as part of...; Region: NifB; cd00852 380749002792 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 380749002793 Nitrogen fixation protein NifW; Region: NifW; pfam03206 380749002794 NifZ domain; Region: NifZ; pfam04319 380749002795 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 380749002796 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 380749002797 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 380749002798 dimerization interface [polypeptide binding]; other site 380749002799 active site 380749002800 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 380749002801 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 380749002802 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 380749002803 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 380749002804 catalytic site [active] 380749002805 subunit interface [polypeptide binding]; other site 380749002806 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 380749002807 Major Facilitator Superfamily; Region: MFS_1; pfam07690 380749002808 putative substrate translocation pore; other site 380749002809 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 380749002810 putative active site [active] 380749002811 catalytic residue [active] 380749002812 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 380749002813 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 380749002814 5S rRNA interface [nucleotide binding]; other site 380749002815 CTC domain interface [polypeptide binding]; other site 380749002816 L16 interface [polypeptide binding]; other site 380749002817 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 380749002818 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 380749002819 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 380749002820 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 380749002821 NlpC/P60 family; Region: NLPC_P60; pfam00877 380749002822 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 380749002823 DNA repair protein RadA; Provisional; Region: PRK11823 380749002824 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 380749002825 Walker A motif/ATP binding site; other site 380749002826 ATP binding site [chemical binding]; other site 380749002827 Walker B motif; other site 380749002828 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 380749002829 Uncharacterized conserved protein [Function unknown]; Region: COG1434 380749002830 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 380749002831 putative active site [active] 380749002832 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 380749002833 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 380749002834 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 380749002835 TPR motif; other site 380749002836 binding surface 380749002837 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 380749002838 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 380749002839 catalytic core [active] 380749002840 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 380749002841 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 380749002842 catalytic residue [active] 380749002843 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 380749002844 active site 380749002845 multimer interface [polypeptide binding]; other site 380749002846 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 380749002847 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 380749002848 minor groove reading motif; other site 380749002849 helix-hairpin-helix signature motif; other site 380749002850 substrate binding pocket [chemical binding]; other site 380749002851 active site 380749002852 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 380749002853 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 380749002854 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 380749002855 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 380749002856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 380749002857 NAD(P) binding site [chemical binding]; other site 380749002858 active site 380749002859 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 380749002860 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 380749002861 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 380749002862 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 380749002863 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 380749002864 peptide chain release factor 1; Validated; Region: prfA; PRK00591 380749002865 This domain is found in peptide chain release factors; Region: PCRF; smart00937 380749002866 RF-1 domain; Region: RF-1; pfam00472 380749002867 Domain of unknown function (DUF202); Region: DUF202; cl09954 380749002868 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 380749002869 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 380749002870 hinge; other site 380749002871 active site 380749002872 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 380749002873 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 380749002874 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 380749002875 DNA binding residues [nucleotide binding] 380749002876 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 380749002877 Major Facilitator Superfamily; Region: MFS_1; pfam07690 380749002878 putative substrate translocation pore; other site 380749002879 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 380749002880 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 380749002881 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 380749002882 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 380749002883 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 380749002884 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 380749002885 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 380749002886 active site 380749002887 substrate binding site [chemical binding]; other site 380749002888 metal binding site [ion binding]; metal-binding site 380749002889 Uncharacterized conserved protein [Function unknown]; Region: COG1432 380749002890 LabA_like proteins; Region: LabA_like/DUF88; cl10034 380749002891 putative metal binding site [ion binding]; other site 380749002892 hypothetical protein; Provisional; Region: PRK04358 380749002893 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 380749002894 putative active site [active] 380749002895 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 380749002896 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 380749002897 dimer interface [polypeptide binding]; other site 380749002898 putative anticodon binding site; other site 380749002899 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 380749002900 motif 1; other site 380749002901 active site 380749002902 motif 2; other site 380749002903 motif 3; other site 380749002904 biotin synthase; Region: bioB; TIGR00433 380749002905 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 380749002906 FeS/SAM binding site; other site 380749002907 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 380749002908 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 380749002909 nucleoside/Zn binding site; other site 380749002910 dimer interface [polypeptide binding]; other site 380749002911 catalytic motif [active] 380749002912 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 380749002913 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 380749002914 RIP metalloprotease RseP; Region: TIGR00054 380749002915 active site 380749002916 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 380749002917 protein binding site [polypeptide binding]; other site 380749002918 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 380749002919 protein binding site [polypeptide binding]; other site 380749002920 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 380749002921 putative substrate binding region [chemical binding]; other site 380749002922 ornithine carbamoyltransferase; Provisional; Region: PRK00779 380749002923 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 380749002924 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 380749002925 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 380749002926 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 380749002927 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 380749002928 Walker A/P-loop; other site 380749002929 ATP binding site [chemical binding]; other site 380749002930 Q-loop/lid; other site 380749002931 ABC transporter signature motif; other site 380749002932 Walker B; other site 380749002933 D-loop; other site 380749002934 H-loop/switch region; other site 380749002935 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 380749002936 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 380749002937 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 380749002938 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 380749002939 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 380749002940 23S rRNA interface [nucleotide binding]; other site 380749002941 L3 interface [polypeptide binding]; other site 380749002942 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 380749002943 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 380749002944 active site 380749002945 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 380749002946 dimer interface [polypeptide binding]; other site 380749002947 substrate binding site [chemical binding]; other site 380749002948 catalytic residues [active] 380749002949 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 380749002950 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 380749002951 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 380749002952 dimerization interface [polypeptide binding]; other site 380749002953 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 380749002954 dimer interface [polypeptide binding]; other site 380749002955 phosphorylation site [posttranslational modification] 380749002956 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 380749002957 ATP binding site [chemical binding]; other site 380749002958 Mg2+ binding site [ion binding]; other site 380749002959 G-X-G motif; other site 380749002960 translation initiation factor IF-2; Region: IF-2; TIGR00487 380749002961 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 380749002962 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 380749002963 G1 box; other site 380749002964 putative GEF interaction site [polypeptide binding]; other site 380749002965 GTP/Mg2+ binding site [chemical binding]; other site 380749002966 Switch I region; other site 380749002967 G2 box; other site 380749002968 G3 box; other site 380749002969 Switch II region; other site 380749002970 G4 box; other site 380749002971 G5 box; other site 380749002972 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 380749002973 Translation-initiation factor 2; Region: IF-2; pfam11987 380749002974 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 380749002975 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 380749002976 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 380749002977 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 380749002978 beta subunit interaction interface [polypeptide binding]; other site 380749002979 Walker A motif; other site 380749002980 ATP binding site [chemical binding]; other site 380749002981 Walker B motif; other site 380749002982 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 380749002983 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 380749002984 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 380749002985 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 380749002986 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 380749002987 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 380749002988 SmpB-tmRNA interface; other site 380749002989 ribonuclease R; Region: RNase_R; TIGR02063 380749002990 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 380749002991 RNB domain; Region: RNB; pfam00773 380749002992 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 380749002993 RNA binding site [nucleotide binding]; other site 380749002994 Cytochrome c; Region: Cytochrom_C; cl11414 380749002995 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 380749002996 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 380749002997 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 380749002998 alpha subunit interaction interface [polypeptide binding]; other site 380749002999 Walker A motif; other site 380749003000 ATP binding site [chemical binding]; other site 380749003001 Walker B motif; other site 380749003002 inhibitor binding site; inhibition site 380749003003 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 380749003004 Predicted integral membrane protein [Function unknown]; Region: COG5616 380749003005 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 380749003006 ATP-grasp domain; Region: ATP-grasp_4; cl17255 380749003007 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 380749003008 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 380749003009 active site 380749003010 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 380749003011 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 380749003012 DNA topoisomerase III; Provisional; Region: PRK07726 380749003013 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 380749003014 active site 380749003015 putative interdomain interaction site [polypeptide binding]; other site 380749003016 putative metal-binding site [ion binding]; other site 380749003017 putative nucleotide binding site [chemical binding]; other site 380749003018 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 380749003019 domain I; other site 380749003020 phosphate binding site [ion binding]; other site 380749003021 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 380749003022 domain II; other site 380749003023 domain III; other site 380749003024 nucleotide binding site [chemical binding]; other site 380749003025 DNA binding groove [nucleotide binding] 380749003026 catalytic site [active] 380749003027 domain IV; other site 380749003028 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 380749003029 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 380749003030 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 380749003031 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 380749003032 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 380749003033 N-acetyl-D-glucosamine binding site [chemical binding]; other site 380749003034 catalytic residue [active] 380749003035 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 380749003036 binding surface 380749003037 TPR motif; other site 380749003038 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 380749003039 binding surface 380749003040 Tetratricopeptide repeat; Region: TPR_16; pfam13432 380749003041 TPR motif; other site 380749003042 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 380749003043 TPR motif; other site 380749003044 TPR repeat; Region: TPR_11; pfam13414 380749003045 binding surface 380749003046 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 380749003047 binding surface 380749003048 TPR motif; other site 380749003049 TPR repeat; Region: TPR_11; pfam13414 380749003050 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 380749003051 binding surface 380749003052 TPR motif; other site 380749003053 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 380749003054 Ligand Binding Site [chemical binding]; other site 380749003055 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 380749003056 Ligand Binding Site [chemical binding]; other site 380749003057 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 380749003058 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 380749003059 active site 380749003060 dimerization interface [polypeptide binding]; other site 380749003061 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 380749003062 intersubunit interface [polypeptide binding]; other site 380749003063 active site 380749003064 Zn2+ binding site [ion binding]; other site 380749003065 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 380749003066 UbiA prenyltransferase family; Region: UbiA; pfam01040 380749003067 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 380749003068 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 380749003069 ADP binding site [chemical binding]; other site 380749003070 magnesium binding site [ion binding]; other site 380749003071 putative shikimate binding site; other site 380749003072 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 380749003073 Sporulation related domain; Region: SPOR; cl10051 380749003074 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 380749003075 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 380749003076 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 380749003077 dimer interface [polypeptide binding]; other site 380749003078 motif 1; other site 380749003079 active site 380749003080 motif 2; other site 380749003081 motif 3; other site 380749003082 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 380749003083 23S rRNA binding site [nucleotide binding]; other site 380749003084 L21 binding site [polypeptide binding]; other site 380749003085 L13 binding site [polypeptide binding]; other site 380749003086 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 380749003087 RNA/DNA hybrid binding site [nucleotide binding]; other site 380749003088 active site 380749003089 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 380749003090 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 380749003091 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 380749003092 gating phenylalanine in ion channel; other site 380749003093 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 380749003094 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 380749003095 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 380749003096 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 380749003097 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 380749003098 dimerization interface [polypeptide binding]; other site 380749003099 active site 380749003100 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 380749003101 IHF - DNA interface [nucleotide binding]; other site 380749003102 IHF dimer interface [polypeptide binding]; other site 380749003103 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 380749003104 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 380749003105 S-adenosylmethionine binding site [chemical binding]; other site 380749003106 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 380749003107 DNA binding site [nucleotide binding] 380749003108 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 380749003109 active site 380749003110 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 380749003111 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 380749003112 HIGH motif; other site 380749003113 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 380749003114 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 380749003115 DJ-1 family protein; Region: not_thiJ; TIGR01383 380749003116 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 380749003117 conserved cys residue [active] 380749003118 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]; Region: COG1144 380749003119 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 380749003120 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 380749003121 TPP-binding site; other site 380749003122 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 380749003123 PYR/PP interface [polypeptide binding]; other site 380749003124 dimer interface [polypeptide binding]; other site 380749003125 TPP binding site [chemical binding]; other site 380749003126 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 380749003127 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 380749003128 active site 380749003129 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 380749003130 Catalytic domain of Protein Kinases; Region: PKc; cd00180 380749003131 active site 380749003132 ATP binding site [chemical binding]; other site 380749003133 substrate binding site [chemical binding]; other site 380749003134 activation loop (A-loop); other site 380749003135 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 380749003136 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 380749003137 dimerization interface 3.5A [polypeptide binding]; other site 380749003138 active site 380749003139 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 380749003140 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 380749003141 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 380749003142 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 380749003143 dimerization domain [polypeptide binding]; other site 380749003144 dimer interface [polypeptide binding]; other site 380749003145 catalytic residues [active] 380749003146 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 380749003147 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 380749003148 putative active site [active] 380749003149 glutamate synthase (NADPH), homotetrameric; Region: gltA; TIGR01316 380749003150 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 380749003151 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 380749003152 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 380749003153 FAD binding pocket [chemical binding]; other site 380749003154 FAD binding motif [chemical binding]; other site 380749003155 phosphate binding motif [ion binding]; other site 380749003156 beta-alpha-beta structure motif; other site 380749003157 NAD binding pocket [chemical binding]; other site 380749003158 Iron coordination center [ion binding]; other site 380749003159 Uncharacterized homolog of biotin synthetase [Function unknown]; Region: COG1856 380749003160 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 380749003161 FeS/SAM binding site; other site 380749003162 DsrE/DsrF-like family; Region: DrsE; pfam02635 380749003163 glycine cleavage system protein H; Provisional; Region: PRK13380 380749003164 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 380749003165 lipoyl attachment site [posttranslational modification]; other site 380749003166 Predicted peroxiredoxins [General function prediction only]; Region: COG2044 380749003167 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 380749003168 glycine cleavage system protein H; Provisional; Region: PRK13380 380749003169 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 380749003170 lipoyl attachment site [posttranslational modification]; other site 380749003171 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 380749003172 Cysteine-rich domain; Region: CCG; pfam02754 380749003173 Cysteine-rich domain; Region: CCG; pfam02754 380749003174 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 380749003175 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 380749003176 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 380749003177 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 380749003178 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 380749003179 Cysteine-rich domain; Region: CCG; pfam02754 380749003180 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 380749003181 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 380749003182 Predicted peroxiredoxins [General function prediction only]; Region: COG2044 380749003183 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 380749003184 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 380749003185 CPxP motif; other site 380749003186 Protein of unknown function (DUF507); Region: DUF507; pfam04368 380749003187 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 380749003188 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 380749003189 gamma subunit interface [polypeptide binding]; other site 380749003190 epsilon subunit interface [polypeptide binding]; other site 380749003191 LBP interface [polypeptide binding]; other site 380749003192 DNA polymerase III subunit beta; Validated; Region: PRK05643 380749003193 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 380749003194 putative DNA binding surface [nucleotide binding]; other site 380749003195 dimer interface [polypeptide binding]; other site 380749003196 beta-clamp/clamp loader binding surface; other site 380749003197 beta-clamp/translesion DNA polymerase binding surface; other site 380749003198 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 380749003199 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 380749003200 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 380749003201 active site 380749003202 metal binding site [ion binding]; metal-binding site 380749003203 DNA binding site [nucleotide binding] 380749003204 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 380749003205 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 380749003206 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 380749003207 Dienelactone hydrolase family; Region: DLH; pfam01738 380749003208 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 380749003209 Protein of unknown function, DUF488; Region: DUF488; cl01246 380749003210 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 380749003211 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 380749003212 Coenzyme A binding pocket [chemical binding]; other site 380749003213 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 380749003214 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 380749003215 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 380749003216 Domain of unknown function DUF77; Region: DUF77; pfam01910 380749003217 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 380749003218 active site 380749003219 hypothetical protein; Provisional; Region: PRK11820 380749003220 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 380749003221 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 380749003222 ThiC family; Region: ThiC; pfam01964 380749003223 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 380749003224 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 380749003225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 380749003226 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 380749003227 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 380749003228 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 380749003229 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 380749003230 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 380749003231 binding surface 380749003232 TPR motif; other site 380749003233 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 380749003234 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 380749003235 active site 380749003236 HIGH motif; other site 380749003237 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 380749003238 KMSKS motif; other site 380749003239 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 380749003240 tRNA binding surface [nucleotide binding]; other site 380749003241 anticodon binding site; other site 380749003242 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 380749003243 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 380749003244 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 380749003245 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 380749003246 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 380749003247 nudix motif; other site 380749003248 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 380749003249 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 380749003250 30S subunit binding site; other site 380749003251 protein-export membrane protein SecD; Region: secD; TIGR01129 380749003252 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 380749003253 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 380749003254 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 380749003255 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 380749003256 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 380749003257 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 380749003258 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 380749003259 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 380749003260 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 380749003261 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 380749003262 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 380749003263 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 380749003264 Sel1-like repeats; Region: SEL1; smart00671 380749003265 Sel1-like repeats; Region: SEL1; smart00671 380749003266 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 380749003267 Sel1-like repeats; Region: SEL1; smart00671 380749003268 Sel1-like repeats; Region: SEL1; smart00671 380749003269 Sel1-like repeats; Region: SEL1; smart00671 380749003270 Sel1-like repeats; Region: SEL1; smart00671 380749003271 Sel1-like repeats; Region: SEL1; smart00671 380749003272 Sel1-like repeats; Region: SEL1; smart00671 380749003273 Sel1-like repeats; Region: SEL1; smart00671 380749003274 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 380749003275 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 380749003276 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 380749003277 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 380749003278 ATP binding site [chemical binding]; other site 380749003279 active site 380749003280 substrate binding site [chemical binding]; other site 380749003281 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 380749003282 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 380749003283 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 380749003284 GDP-binding site [chemical binding]; other site 380749003285 ACT binding site; other site 380749003286 IMP binding site; other site 380749003287 Predicted transcriptional regulators [Transcription]; Region: COG1733 380749003288 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 380749003289 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 380749003290 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 380749003291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749003292 homodimer interface [polypeptide binding]; other site 380749003293 catalytic residue [active] 380749003294 AIR carboxylase; Region: AIRC; pfam00731 380749003295 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 380749003296 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 380749003297 ATP binding site [chemical binding]; other site 380749003298 Mg2+ binding site [ion binding]; other site 380749003299 G-X-G motif; other site 380749003300 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 380749003301 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 380749003302 Catalytic site [active] 380749003303 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 380749003304 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 380749003305 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 380749003306 dimer interface [polypeptide binding]; other site 380749003307 putative functional site; other site 380749003308 putative MPT binding site; other site 380749003309 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 380749003310 thiS-thiF/thiG interaction site; other site 380749003311 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 380749003312 ThiS interaction site; other site 380749003313 putative active site [active] 380749003314 tetramer interface [polypeptide binding]; other site 380749003315 protoporphyrinogen oxidase; Region: PLN02576 380749003316 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 380749003317 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 380749003318 S-adenosylmethionine binding site [chemical binding]; other site 380749003319 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 380749003320 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 380749003321 putative active site [active] 380749003322 metal binding site [ion binding]; metal-binding site 380749003323 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 380749003324 active site 380749003325 NTP binding site [chemical binding]; other site 380749003326 metal binding triad [ion binding]; metal-binding site 380749003327 antibiotic binding site [chemical binding]; other site 380749003328 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 380749003329 Oligomerisation domain; Region: Oligomerisation; pfam02410 380749003330 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 380749003331 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 380749003332 active site 380749003333 phosphorylation site [posttranslational modification] 380749003334 intermolecular recognition site; other site 380749003335 dimerization interface [polypeptide binding]; other site 380749003336 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 380749003337 DNA binding site [nucleotide binding] 380749003338 MutS2 family protein; Region: mutS2; TIGR01069 380749003339 MutS domain III; Region: MutS_III; pfam05192 380749003340 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 380749003341 Walker A/P-loop; other site 380749003342 ATP binding site [chemical binding]; other site 380749003343 Q-loop/lid; other site 380749003344 ABC transporter signature motif; other site 380749003345 Walker B; other site 380749003346 D-loop; other site 380749003347 H-loop/switch region; other site 380749003348 Smr domain; Region: Smr; pfam01713 380749003349 Mechanosensitive ion channel; Region: MS_channel; pfam00924 380749003350 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 380749003351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 380749003352 NAD(P) binding site [chemical binding]; other site 380749003353 active site 380749003354 hypothetical protein; Provisional; Region: PRK07233 380749003355 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 380749003356 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 380749003357 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 380749003358 GAF domain; Region: GAF; pfam01590 380749003359 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 380749003360 Walker A motif; other site 380749003361 ATP binding site [chemical binding]; other site 380749003362 Walker B motif; other site 380749003363 arginine finger; other site 380749003364 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 380749003365 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 380749003366 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 380749003367 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 380749003368 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 380749003369 NlpC/P60 family; Region: NLPC_P60; pfam00877 380749003370 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 380749003371 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 380749003372 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 380749003373 homotrimer interaction site [polypeptide binding]; other site 380749003374 zinc binding site [ion binding]; other site 380749003375 CDP-binding sites; other site 380749003376 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 380749003377 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 380749003378 active site 380749003379 nucleophile elbow; other site 380749003380 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 380749003381 Cytochrome c; Region: Cytochrom_C; cl11414 380749003382 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 380749003383 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 380749003384 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 380749003385 protein binding site [polypeptide binding]; other site 380749003386 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 380749003387 protein binding site [polypeptide binding]; other site 380749003388 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 380749003389 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 380749003390 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 380749003391 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 380749003392 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 380749003393 Cysteine-rich domain; Region: CCG; pfam02754 380749003394 Cysteine-rich domain; Region: CCG; pfam02754 380749003395 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 380749003396 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 380749003397 tetramer interfaces [polypeptide binding]; other site 380749003398 binuclear metal-binding site [ion binding]; other site 380749003399 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 380749003400 FOG: CBS domain [General function prediction only]; Region: COG0517 380749003401 FOG: CBS domain [General function prediction only]; Region: COG0517 380749003402 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 380749003403 PAS domain; Region: PAS_9; pfam13426 380749003404 PAS domain S-box; Region: sensory_box; TIGR00229 380749003405 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 380749003406 putative active site [active] 380749003407 heme pocket [chemical binding]; other site 380749003408 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 380749003409 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 380749003410 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749003411 metal binding site [ion binding]; metal-binding site 380749003412 active site 380749003413 I-site; other site 380749003414 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 380749003415 thiamine phosphate binding site [chemical binding]; other site 380749003416 active site 380749003417 pyrophosphate binding site [ion binding]; other site 380749003418 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 380749003419 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 380749003420 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 380749003421 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 380749003422 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 380749003423 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 380749003424 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 380749003425 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 380749003426 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 380749003427 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 380749003428 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 380749003429 2-isopropylmalate synthase; Validated; Region: PRK00915 380749003430 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 380749003431 active site 380749003432 catalytic residues [active] 380749003433 metal binding site [ion binding]; metal-binding site 380749003434 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 380749003435 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 380749003436 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 380749003437 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 380749003438 shikimate binding site; other site 380749003439 NAD(P) binding site [chemical binding]; other site 380749003440 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 380749003441 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 380749003442 Mg++ binding site [ion binding]; other site 380749003443 putative catalytic motif [active] 380749003444 putative substrate binding site [chemical binding]; other site 380749003445 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 380749003446 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 380749003447 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 380749003448 PLD-like domain; Region: PLDc_2; pfam13091 380749003449 putative active site [active] 380749003450 catalytic site [active] 380749003451 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 380749003452 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 380749003453 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 380749003454 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 380749003455 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 380749003456 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 380749003457 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 380749003458 PilZ domain; Region: PilZ; pfam07238 380749003459 PilZ domain; Region: PilZ; pfam07238 380749003460 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 380749003461 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 380749003462 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 380749003463 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 380749003464 Uncharacterized conserved protein [Function unknown]; Region: COG1432 380749003465 LabA_like proteins; Region: LabA; cd10911 380749003466 putative metal binding site [ion binding]; other site 380749003467 GrpE; Region: GrpE; pfam01025 380749003468 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 380749003469 dimer interface [polypeptide binding]; other site 380749003470 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 380749003471 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 380749003472 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 380749003473 tandem repeat interface [polypeptide binding]; other site 380749003474 oligomer interface [polypeptide binding]; other site 380749003475 active site residues [active] 380749003476 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 380749003477 active site 380749003478 ribulose/triose binding site [chemical binding]; other site 380749003479 phosphate binding site [ion binding]; other site 380749003480 substrate (anthranilate) binding pocket [chemical binding]; other site 380749003481 product (indole) binding pocket [chemical binding]; other site 380749003482 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 380749003483 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 380749003484 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 380749003485 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 380749003486 substrate binding site [chemical binding]; other site 380749003487 active site 380749003488 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 380749003489 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 380749003490 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 380749003491 putative valine binding site [chemical binding]; other site 380749003492 dimer interface [polypeptide binding]; other site 380749003493 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 380749003494 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 380749003495 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 380749003496 PYR/PP interface [polypeptide binding]; other site 380749003497 dimer interface [polypeptide binding]; other site 380749003498 TPP binding site [chemical binding]; other site 380749003499 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 380749003500 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 380749003501 TPP-binding site [chemical binding]; other site 380749003502 dimer interface [polypeptide binding]; other site 380749003503 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 380749003504 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 380749003505 active site 380749003506 catalytic residues [active] 380749003507 metal binding site [ion binding]; metal-binding site 380749003508 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 380749003509 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 380749003510 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 380749003511 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 380749003512 active site 380749003513 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 380749003514 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 380749003515 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 380749003516 DNA binding site [nucleotide binding] 380749003517 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 380749003518 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 380749003519 active site 380749003520 dimer interface [polypeptide binding]; other site 380749003521 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 380749003522 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 380749003523 active site 380749003524 FMN binding site [chemical binding]; other site 380749003525 substrate binding site [chemical binding]; other site 380749003526 3Fe-4S cluster binding site [ion binding]; other site 380749003527 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 380749003528 domain interface; other site 380749003529 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 380749003530 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 380749003531 putative homodimer interface [polypeptide binding]; other site 380749003532 putative homotetramer interface [polypeptide binding]; other site 380749003533 putative allosteric switch controlling residues; other site 380749003534 putative metal binding site [ion binding]; other site 380749003535 putative homodimer-homodimer interface [polypeptide binding]; other site 380749003536 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 380749003537 metal-binding site [ion binding] 380749003538 mercuric reductase; Region: MerA; TIGR02053 380749003539 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 380749003540 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 380749003541 tRNA synthetases class I (I, L, M and V); Region: tRNA-synt_1; pfam00133 380749003542 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 380749003543 active site 380749003544 HIGH motif; other site 380749003545 nucleotide binding site [chemical binding]; other site 380749003546 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 380749003547 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 380749003548 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 380749003549 active site 380749003550 KMSKS motif; other site 380749003551 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 380749003552 tRNA binding surface [nucleotide binding]; other site 380749003553 anticodon binding site; other site 380749003554 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 380749003555 Peptidase family M23; Region: Peptidase_M23; pfam01551 380749003556 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 380749003557 Caspase domain; Region: Peptidase_C14; pfam00656 380749003558 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 380749003559 binding surface 380749003560 Tetratricopeptide repeat; Region: TPR_16; pfam13432 380749003561 TPR motif; other site 380749003562 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 380749003563 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 380749003564 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional; Region: PRK04338 380749003565 Methyltransferase domain; Region: Methyltransf_18; pfam12847 380749003566 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 380749003567 putative active site [active] 380749003568 putative metal binding site [ion binding]; other site 380749003569 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 380749003570 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 380749003571 dimer interface [polypeptide binding]; other site 380749003572 putative radical transfer pathway; other site 380749003573 diiron center [ion binding]; other site 380749003574 tyrosyl radical; other site 380749003575 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 380749003576 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 380749003577 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 380749003578 bacterial Hfq-like; Region: Hfq; cd01716 380749003579 hexamer interface [polypeptide binding]; other site 380749003580 Sm1 motif; other site 380749003581 RNA binding site [nucleotide binding]; other site 380749003582 Sm2 motif; other site 380749003583 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 380749003584 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 380749003585 HflX GTPase family; Region: HflX; cd01878 380749003586 G1 box; other site 380749003587 GTP/Mg2+ binding site [chemical binding]; other site 380749003588 Switch I region; other site 380749003589 G2 box; other site 380749003590 G3 box; other site 380749003591 Switch II region; other site 380749003592 G4 box; other site 380749003593 G5 box; other site 380749003594 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 380749003595 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 380749003596 active site 380749003597 catalytic tetrad [active] 380749003598 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 380749003599 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 380749003600 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 380749003601 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 380749003602 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 380749003603 MPN+ (JAMM) motif; other site 380749003604 Zinc-binding site [ion binding]; other site 380749003605 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 380749003606 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 380749003607 domain interfaces; other site 380749003608 active site 380749003609 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 380749003610 active site 380749003611 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 380749003612 active site 380749003613 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 380749003614 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 380749003615 FeS/SAM binding site; other site 380749003616 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 380749003617 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 380749003618 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 380749003619 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 380749003620 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 380749003621 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 380749003622 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 380749003623 substrate binding pocket [chemical binding]; other site 380749003624 chain length determination region; other site 380749003625 substrate-Mg2+ binding site; other site 380749003626 catalytic residues [active] 380749003627 aspartate-rich region 1; other site 380749003628 active site lid residues [active] 380749003629 aspartate-rich region 2; other site 380749003630 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 380749003631 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 380749003632 heterodimer interface [polypeptide binding]; other site 380749003633 active site 380749003634 FMN binding site [chemical binding]; other site 380749003635 homodimer interface [polypeptide binding]; other site 380749003636 substrate binding site [chemical binding]; other site 380749003637 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14667 380749003638 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 380749003639 GIY-YIG motif/motif A; other site 380749003640 active site 380749003641 catalytic site [active] 380749003642 putative DNA binding site [nucleotide binding]; other site 380749003643 metal binding site [ion binding]; metal-binding site 380749003644 UvrB/uvrC motif; Region: UVR; pfam02151 380749003645 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 380749003646 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 380749003647 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 380749003648 ATP binding site [chemical binding]; other site 380749003649 Mg2+ binding site [ion binding]; other site 380749003650 G-X-G motif; other site 380749003651 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 380749003652 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 380749003653 active site 380749003654 phosphorylation site [posttranslational modification] 380749003655 intermolecular recognition site; other site 380749003656 dimerization interface [polypeptide binding]; other site 380749003657 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 380749003658 DNA binding site [nucleotide binding] 380749003659 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 380749003660 substrate binding site [chemical binding]; other site 380749003661 active site 380749003662 catalytic residues [active] 380749003663 heterodimer interface [polypeptide binding]; other site 380749003664 ribosome recycling factor; Reviewed; Region: frr; PRK00083 380749003665 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 380749003666 hinge region; other site 380749003667 bacterial Hfq-like; Region: Hfq; cd01716 380749003668 hexamer interface [polypeptide binding]; other site 380749003669 Sm1 motif; other site 380749003670 RNA binding site [nucleotide binding]; other site 380749003671 Sm2 motif; other site 380749003672 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 380749003673 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 380749003674 catalytic residue [active] 380749003675 putative FPP diphosphate binding site; other site 380749003676 putative FPP binding hydrophobic cleft; other site 380749003677 dimer interface [polypeptide binding]; other site 380749003678 putative IPP diphosphate binding site; other site 380749003679 enolase; Provisional; Region: eno; PRK00077 380749003680 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 380749003681 dimer interface [polypeptide binding]; other site 380749003682 metal binding site [ion binding]; metal-binding site 380749003683 substrate binding pocket [chemical binding]; other site 380749003684 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 380749003685 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 380749003686 dimerization interface [polypeptide binding]; other site 380749003687 ATP binding site [chemical binding]; other site 380749003688 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 380749003689 dimerization interface [polypeptide binding]; other site 380749003690 ATP binding site [chemical binding]; other site 380749003691 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 380749003692 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 380749003693 active site 380749003694 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 380749003695 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 380749003696 active site 380749003697 substrate binding site [chemical binding]; other site 380749003698 cosubstrate binding site; other site 380749003699 catalytic site [active] 380749003700 tartrate dehydrogenase; Region: TTC; TIGR02089 380749003701 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 380749003702 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 380749003703 catalytic residues [active] 380749003704 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 380749003705 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 380749003706 ssDNA binding site; other site 380749003707 generic binding surface II; other site 380749003708 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 380749003709 ATP binding site [chemical binding]; other site 380749003710 putative Mg++ binding site [ion binding]; other site 380749003711 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 380749003712 nucleotide binding region [chemical binding]; other site 380749003713 ATP-binding site [chemical binding]; other site 380749003714 Family of unknown function (DUF490); Region: DUF490; pfam04357 380749003715 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 380749003716 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 380749003717 CoA binding domain; Region: CoA_binding; pfam02629 380749003718 CoA-ligase; Region: Ligase_CoA; pfam00549 380749003719 Succinyl-CoA synthetase, beta subunit [Energy production and conversion]; Region: SucC; COG0045 380749003720 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 380749003721 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 380749003722 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 380749003723 active site 380749003724 phosphorylation site [posttranslational modification] 380749003725 intermolecular recognition site; other site 380749003726 dimerization interface [polypeptide binding]; other site 380749003727 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 380749003728 DNA binding site [nucleotide binding] 380749003729 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 380749003730 RimM N-terminal domain; Region: RimM; pfam01782 380749003731 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 380749003732 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 380749003733 flagellin; Reviewed; Region: PRK08869 380749003734 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 380749003735 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 380749003736 active site 380749003737 Riboflavin kinase; Region: Flavokinase; smart00904 380749003738 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 380749003739 putative nucleotide binding site [chemical binding]; other site 380749003740 uridine monophosphate binding site [chemical binding]; other site 380749003741 homohexameric interface [polypeptide binding]; other site 380749003742 elongation factor Ts; Provisional; Region: tsf; PRK09377 380749003743 UBA/TS-N domain; Region: UBA; pfam00627 380749003744 Elongation factor TS; Region: EF_TS; pfam00889 380749003745 Elongation factor TS; Region: EF_TS; pfam00889 380749003746 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 380749003747 rRNA interaction site [nucleotide binding]; other site 380749003748 S8 interaction site; other site 380749003749 putative laminin-1 binding site; other site 380749003750 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 380749003751 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 380749003752 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 380749003753 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 380749003754 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 380749003755 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 380749003756 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 380749003757 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 380749003758 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 380749003759 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 380749003760 Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase; Region: Glucosamine_iso; pfam01182 380749003761 active site 380749003762 TPR repeat; Region: TPR_11; pfam13414 380749003763 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 380749003764 binding surface 380749003765 TPR motif; other site 380749003766 HDOD domain; Region: HDOD; pfam08668 380749003767 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 380749003768 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 380749003769 substrate binding site; other site 380749003770 dimer interface; other site 380749003771 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 380749003772 active site 380749003773 DsrH like protein; Region: DsrH; cl17347 380749003774 DsrE/DsrF-like family; Region: DrsE; cl00672 380749003775 DsrE/DsrF-like family; Region: DrsE; pfam02635 380749003776 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 380749003777 CPxP motif; other site 380749003778 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 380749003779 AAA domain; Region: AAA_14; pfam13173 380749003780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 380749003781 pteridine reductase; Provisional; Region: PRK09135 380749003782 NAD(P) binding site [chemical binding]; other site 380749003783 active site 380749003784 glutamate racemase; Provisional; Region: PRK00865 380749003785 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 380749003786 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 380749003787 sequence-specific DNA binding site [nucleotide binding]; other site 380749003788 salt bridge; other site 380749003789 HipA N-terminal domain; Region: Couple_hipA; pfam13657 380749003790 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 380749003791 HipA-like N-terminal domain; Region: HipA_N; pfam07805 380749003792 HipA-like C-terminal domain; Region: HipA_C; pfam07804 380749003793 Protein of unknown function (DUF511); Region: DUF511; cl01114 380749003794 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 380749003795 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 380749003796 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 380749003797 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 380749003798 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 380749003799 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 380749003800 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 380749003801 NADH dehydrogenase; Region: NADHdh; cl00469 380749003802 hydrogenase 4 subunit B; Validated; Region: PRK06521 380749003803 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 380749003804 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 380749003805 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 380749003806 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 380749003807 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 380749003808 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 380749003809 active site 380749003810 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 380749003811 active site 380749003812 HslU subunit interaction site [polypeptide binding]; other site 380749003813 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 380749003814 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 380749003815 TPP-binding site [chemical binding]; other site 380749003816 dimer interface [polypeptide binding]; other site 380749003817 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 380749003818 PYR/PP interface [polypeptide binding]; other site 380749003819 dimer interface [polypeptide binding]; other site 380749003820 TPP binding site [chemical binding]; other site 380749003821 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 380749003822 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 380749003823 active site residue [active] 380749003824 Ferritin-like domain; Region: Ferritin; pfam00210 380749003825 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 380749003826 dinuclear metal binding motif [ion binding]; other site 380749003827 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 380749003828 dinuclear metal binding motif [ion binding]; other site 380749003829 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 380749003830 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 380749003831 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 380749003832 PAS domain S-box; Region: sensory_box; TIGR00229 380749003833 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 380749003834 putative active site [active] 380749003835 heme pocket [chemical binding]; other site 380749003836 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 380749003837 PAS domain; Region: PAS_9; pfam13426 380749003838 putative active site [active] 380749003839 heme pocket [chemical binding]; other site 380749003840 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749003841 metal binding site [ion binding]; metal-binding site 380749003842 active site 380749003843 I-site; other site 380749003844 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 380749003845 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 380749003846 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 380749003847 dimer interface [polypeptide binding]; other site 380749003848 FMN binding site [chemical binding]; other site 380749003849 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 380749003850 PAS domain; Region: PAS_9; pfam13426 380749003851 putative active site [active] 380749003852 heme pocket [chemical binding]; other site 380749003853 PAS domain S-box; Region: sensory_box; TIGR00229 380749003854 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 380749003855 putative active site [active] 380749003856 heme pocket [chemical binding]; other site 380749003857 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 380749003858 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749003859 metal binding site [ion binding]; metal-binding site 380749003860 active site 380749003861 I-site; other site 380749003862 TQO small subunit DoxD; Region: DoxD; pfam04173 380749003863 TQO small subunit DoxA; Region: DoxA; pfam07680 380749003864 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 380749003865 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 380749003866 N-acetyl-D-glucosamine binding site [chemical binding]; other site 380749003867 catalytic residue [active] 380749003868 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 380749003869 metal ion-dependent adhesion site (MIDAS); other site 380749003870 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 380749003871 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 380749003872 dimer interface [polypeptide binding]; other site 380749003873 putative CheW interface [polypeptide binding]; other site 380749003874 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 380749003875 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 380749003876 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 380749003877 Ribosome-binding factor A; Region: RBFA; pfam02033 380749003878 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 380749003879 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 380749003880 active site 380749003881 phosphorylation site [posttranslational modification] 380749003882 intermolecular recognition site; other site 380749003883 dimerization interface [polypeptide binding]; other site 380749003884 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 380749003885 Walker A motif; other site 380749003886 ATP binding site [chemical binding]; other site 380749003887 Walker B motif; other site 380749003888 arginine finger; other site 380749003889 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 380749003890 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 380749003891 DNA polymerase III subunit delta'; Validated; Region: PRK08485 380749003892 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 380749003893 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 380749003894 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 380749003895 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 380749003896 DHH family; Region: DHH; pfam01368 380749003897 DHHA1 domain; Region: DHHA1; pfam02272 380749003898 Uncharacterized metal-binding protein (DUF2227); Region: DUF2227; cl01017 380749003899 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 380749003900 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 380749003901 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 380749003902 homodimer interface [polypeptide binding]; other site 380749003903 substrate-cofactor binding pocket; other site 380749003904 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749003905 catalytic residue [active] 380749003906 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 380749003907 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 380749003908 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 380749003909 dimerization interface [polypeptide binding]; other site 380749003910 active site 380749003911 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 380749003912 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 380749003913 putative active site [active] 380749003914 catalytic triad [active] 380749003915 putative dimer interface [polypeptide binding]; other site 380749003916 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 380749003917 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 380749003918 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 380749003919 Walker A motif; other site 380749003920 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 380749003921 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 380749003922 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 380749003923 catalytic residue [active] 380749003924 Transcriptional regulator [Transcription]; Region: LysR; COG0583 380749003925 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 380749003926 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 380749003927 putative dimerization interface [polypeptide binding]; other site 380749003928 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 380749003929 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 380749003930 motif II; other site 380749003931 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 380749003932 HSP70 interaction site [polypeptide binding]; other site 380749003933 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 380749003934 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 380749003935 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 380749003936 Walker A/P-loop; other site 380749003937 ATP binding site [chemical binding]; other site 380749003938 Q-loop/lid; other site 380749003939 ABC transporter signature motif; other site 380749003940 Walker B; other site 380749003941 D-loop; other site 380749003942 H-loop/switch region; other site 380749003943 Septum formation topological specificity factor MinE; Region: MinE; cl00538 380749003944 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 380749003945 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 380749003946 P-loop; other site 380749003947 ADP binding residues [chemical binding]; other site 380749003948 Switch I; other site 380749003949 Switch II; other site 380749003950 septum site-determining protein MinC; Region: minC; TIGR01222 380749003951 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 380749003952 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 380749003953 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 380749003954 S-adenosylmethionine binding site [chemical binding]; other site 380749003955 triosephosphate isomerase; Provisional; Region: PRK14565 380749003956 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 380749003957 substrate binding site [chemical binding]; other site 380749003958 dimer interface [polypeptide binding]; other site 380749003959 catalytic triad [active] 380749003960 PAS domain S-box; Region: sensory_box; TIGR00229 380749003961 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 380749003962 putative active site [active] 380749003963 heme pocket [chemical binding]; other site 380749003964 PAS domain S-box; Region: sensory_box; TIGR00229 380749003965 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 380749003966 putative active site [active] 380749003967 heme pocket [chemical binding]; other site 380749003968 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 380749003969 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749003970 metal binding site [ion binding]; metal-binding site 380749003971 active site 380749003972 I-site; other site 380749003973 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 380749003974 AAA domain; Region: AAA_14; pfam13173 380749003975 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 380749003976 Uncharacterized conserved protein [Function unknown]; Region: COG3334 380749003977 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 380749003978 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 380749003979 Zn2+ binding site [ion binding]; other site 380749003980 Mg2+ binding site [ion binding]; other site 380749003981 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 380749003982 synthetase active site [active] 380749003983 NTP binding site [chemical binding]; other site 380749003984 metal binding site [ion binding]; metal-binding site 380749003985 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 380749003986 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 380749003987 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 380749003988 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 380749003989 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 380749003990 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 380749003991 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 380749003992 lipoyl attachment site [posttranslational modification]; other site 380749003993 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 380749003994 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 380749003995 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 380749003996 homodimer interface [polypeptide binding]; other site 380749003997 substrate-cofactor binding pocket; other site 380749003998 catalytic residue [active] 380749003999 phosphoglycolate phosphatase; Provisional; Region: PRK13222 380749004000 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 380749004001 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 380749004002 motif II; other site 380749004003 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 380749004004 S-adenosylmethionine binding site [chemical binding]; other site 380749004005 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 380749004006 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 380749004007 dimer interface [polypeptide binding]; other site 380749004008 active site 380749004009 Competence protein; Region: Competence; cl00471 380749004010 acetylornithine aminotransferase; Provisional; Region: PRK02627 380749004011 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 380749004012 inhibitor-cofactor binding pocket; inhibition site 380749004013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749004014 catalytic residue [active] 380749004015 recombinase A; Provisional; Region: recA; PRK09354 380749004016 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 380749004017 hexamer interface [polypeptide binding]; other site 380749004018 Walker A motif; other site 380749004019 ATP binding site [chemical binding]; other site 380749004020 Walker B motif; other site 380749004021 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 380749004022 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 380749004023 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 380749004024 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 380749004025 Soluble P-type ATPase [General function prediction only]; Region: COG4087 380749004026 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 380749004027 Flagellar L-ring protein; Region: FlgH; pfam02107 380749004028 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 380749004029 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 380749004030 ATP-grasp domain; Region: ATP-grasp_4; cl17255 380749004031 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 380749004032 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 380749004033 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 380749004034 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 380749004035 active site 380749004036 citrylCoA binding site [chemical binding]; other site 380749004037 oxalacetate binding site [chemical binding]; other site 380749004038 coenzyme A binding site [chemical binding]; other site 380749004039 catalytic triad [active] 380749004040 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 380749004041 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 380749004042 ATP binding site [chemical binding]; other site 380749004043 substrate interface [chemical binding]; other site 380749004044 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 380749004045 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 380749004046 inhibitor-cofactor binding pocket; inhibition site 380749004047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 380749004048 catalytic residue [active] 380749004049 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 380749004050 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 380749004051 putative active site [active] 380749004052 oxyanion strand; other site 380749004053 catalytic triad [active] 380749004054 Protein of unknown function (DUF328); Region: DUF328; cl01143 380749004055 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 380749004056 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 380749004057 Ligand binding site; other site 380749004058 Putative Catalytic site; other site 380749004059 DXD motif; other site 380749004060 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 380749004061 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 380749004062 active site 380749004063 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 380749004064 Protein export membrane protein; Region: SecD_SecF; cl14618 380749004065 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 380749004066 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 380749004067 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 380749004068 HlyD family secretion protein; Region: HlyD_3; pfam13437 380749004069 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 380749004070 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 380749004071 ATP-NAD kinase; Region: NAD_kinase; pfam01513 380749004072 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14467 380749004073 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 380749004074 FeS/SAM binding site; other site 380749004075 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 380749004076 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 380749004077 catalytic triad [active] 380749004078 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 380749004079 dimer interface [polypeptide binding]; other site 380749004080 [2Fe-2S] cluster binding site [ion binding]; other site 380749004081 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 380749004082 High-affinity nickel-transport protein; Region: NicO; cl00964 380749004083 nickel responsive regulator; Provisional; Region: PRK00630 380749004084 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 380749004085 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 380749004086 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 380749004087 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 380749004088 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 380749004089 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 380749004090 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 380749004091 ATP cone domain; Region: ATP-cone; pfam03477 380749004092 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 380749004093 Class III ribonucleotide reductase; Region: RNR_III; cd01675 380749004094 effector binding site; other site 380749004095 active site 380749004096 Zn binding site [ion binding]; other site 380749004097 glycine loop; other site 380749004098 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 380749004099 Radical SAM superfamily; Region: Radical_SAM; pfam04055 380749004100 FeS/SAM binding site; other site 380749004101 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 380749004102 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 380749004103 nucleotide binding site [chemical binding]; other site 380749004104 NEF interaction site [polypeptide binding]; other site 380749004105 SBD interface [polypeptide binding]; other site 380749004106 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 380749004107 PAS domain; Region: PAS_9; pfam13426 380749004108 putative active site [active] 380749004109 heme pocket [chemical binding]; other site 380749004110 PAS domain; Region: PAS_9; pfam13426 380749004111 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 380749004112 putative active site [active] 380749004113 heme pocket [chemical binding]; other site 380749004114 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 380749004115 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749004116 metal binding site [ion binding]; metal-binding site 380749004117 active site 380749004118 I-site; other site 380749004119 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 380749004120 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 380749004121 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 380749004122 catalytic triad [active] 380749004123 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 380749004124 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 380749004125 FeS/SAM binding site; other site 380749004126 NAD synthetase; Provisional; Region: PRK13981 380749004127 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 380749004128 multimer interface [polypeptide binding]; other site 380749004129 active site 380749004130 catalytic triad [active] 380749004131 protein interface 1 [polypeptide binding]; other site 380749004132 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 380749004133 homodimer interface [polypeptide binding]; other site 380749004134 NAD binding pocket [chemical binding]; other site 380749004135 ATP binding pocket [chemical binding]; other site 380749004136 Mg binding site [ion binding]; other site 380749004137 active-site loop [active] 380749004138 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 380749004139 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749004140 metal binding site [ion binding]; metal-binding site 380749004141 active site 380749004142 I-site; other site 380749004143 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 380749004144 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 380749004145 catalytic residues [active] 380749004146 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 380749004147 cell division protein FtsA; Region: ftsA; TIGR01174 380749004148 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 380749004149 nucleotide binding site [chemical binding]; other site 380749004150 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 380749004151 Cell division protein FtsA; Region: FtsA; pfam14450 380749004152 homoserine dehydrogenase; Provisional; Region: PRK06349 380749004153 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 380749004154 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 380749004155 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 380749004156 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14611 380749004157 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 380749004158 PhoH-like protein; Region: PhoH; pfam02562 380749004159 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 380749004160 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 380749004161 Cation efflux family; Region: Cation_efflux; pfam01545 380749004162 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 380749004163 Uncharacterized conserved protein [Function unknown]; Region: COG4095 380749004164 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 380749004165 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 380749004166 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 380749004167 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 380749004168 nucleotide binding site [chemical binding]; other site 380749004169 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 380749004170 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 380749004171 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 380749004172 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 380749004173 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 380749004174 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 380749004175 PLD-like domain; Region: PLDc_2; pfam13091 380749004176 putative homodimer interface [polypeptide binding]; other site 380749004177 putative active site [active] 380749004178 catalytic site [active] 380749004179 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 380749004180 ATP binding site [chemical binding]; other site 380749004181 putative Mg++ binding site [ion binding]; other site 380749004182 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 380749004183 nucleotide binding region [chemical binding]; other site 380749004184 ATP-binding site [chemical binding]; other site 380749004185 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 380749004186 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 380749004187 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 380749004188 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 380749004189 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 380749004190 G1 box; other site 380749004191 GTP/Mg2+ binding site [chemical binding]; other site 380749004192 Switch I region; other site 380749004193 G2 box; other site 380749004194 G3 box; other site 380749004195 Switch II region; other site 380749004196 G4 box; other site 380749004197 G5 box; other site 380749004198 Nucleoside recognition; Region: Gate; pfam07670 380749004199 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 380749004200 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 380749004201 heme binding pocket [chemical binding]; other site 380749004202 heme ligand [chemical binding]; other site 380749004203 isocitrate dehydrogenase; Validated; Region: PRK06451 380749004204 Isocitrate dehydrogenases [Energy production and conversion]; Region: Icd; COG0538 380749004205 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 380749004206 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 380749004207 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 380749004208 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 380749004209 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 380749004210 pyruvate carboxylase subunit B; Validated; Region: PRK09282 380749004211 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 380749004212 active site 380749004213 catalytic residues [active] 380749004214 metal binding site [ion binding]; metal-binding site 380749004215 homodimer binding site [polypeptide binding]; other site 380749004216 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 380749004217 carboxyltransferase (CT) interaction site; other site 380749004218 biotinylation site [posttranslational modification]; other site 380749004219 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 380749004220 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 380749004221 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 380749004222 dimer interface [polypeptide binding]; other site 380749004223 PYR/PP interface [polypeptide binding]; other site 380749004224 TPP binding site [chemical binding]; other site 380749004225 substrate binding site [chemical binding]; other site 380749004226 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 380749004227 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 380749004228 TPP-binding site [chemical binding]; other site 380749004229 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 380749004230 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 380749004231 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 380749004232 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 380749004233 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 380749004234 hypothetical protein; Provisional; Region: PRK08609 380749004235 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 380749004236 active site 380749004237 primer binding site [nucleotide binding]; other site 380749004238 NTP binding site [chemical binding]; other site 380749004239 metal binding triad [ion binding]; metal-binding site 380749004240 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 380749004241 active site 380749004242 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 380749004243 FOG: CBS domain [General function prediction only]; Region: COG0517 380749004244 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 380749004245 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 380749004246 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 380749004247 active site 380749004248 NTP binding site [chemical binding]; other site 380749004249 metal binding triad [ion binding]; metal-binding site 380749004250 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 380749004251 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 380749004252 active site 380749004253 FMN binding site [chemical binding]; other site 380749004254 substrate binding site [chemical binding]; other site 380749004255 homotetramer interface [polypeptide binding]; other site 380749004256 catalytic residue [active] 380749004257 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 380749004258 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 380749004259 metal binding site [ion binding]; metal-binding site 380749004260 active site 380749004261 I-site; other site 380749004262 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 380749004263 adenylosuccinate lyase; Provisional; Region: PRK07492 380749004264 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 380749004265 tetramer interface [polypeptide binding]; other site 380749004266 active site 380749004267 Adenylosuccinate lyase C-terminus; Region: ADSL_C; pfam10397 380749004268 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 380749004269 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 380749004270 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 380749004271 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 380749004272 catalytic residues [active] 380749004273 Hemerythrin; Region: Hemerythrin; cd12107 380749004274 Fe binding site [ion binding]; other site 380749004275 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 380749004276 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 380749004277 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 380749004278 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 380749004279 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 380749004280 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 380749004281 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 380749004282 Part of AAA domain; Region: AAA_19; pfam13245 380749004283 Family description; Region: UvrD_C_2; pfam13538 380749004284 Ion channel; Region: Ion_trans_2; pfam07885 380749004285 TrkA-N domain; Region: TrkA_N; pfam02254 380749004286 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 380749004287 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 380749004288 putative NAD(P) binding site [chemical binding]; other site 380749004289 active site 380749004290 putative substrate binding site [chemical binding]; other site 380749004291 Protein of unknown function (DUF461); Region: DUF461; pfam04314 380749004292 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 380749004293 TPR motif; other site 380749004294 benzoate transport; Region: 2A0115; TIGR00895 380749004295 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 380749004296 putative substrate translocation pore; other site 380749004297 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 380749004298 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 380749004299 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 380749004300 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 380749004301 putative active site [active] 380749004302 metal binding site [ion binding]; metal-binding site 380749004303 homodimer binding site [polypeptide binding]; other site 380749004304 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 380749004305 TPR motif; other site 380749004306 binding surface 380749004307 Tetratricopeptide repeat; Region: TPR_12; pfam13424 380749004308 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 380749004309 binding surface 380749004310 TPR motif; other site 380749004311 Tetratricopeptide repeat; Region: TPR_12; pfam13424 380749004312 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 380749004313 binding surface 380749004314 TPR motif; other site 380749004315 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 380749004316 UbiA prenyltransferase family; Region: UbiA; pfam01040 380749004317 Domain of unknown function DUF302; Region: DUF302; pfam03625 380749004318 Domain of unknown function DUF302; Region: DUF302; pfam03625 380749004319 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 380749004320 active site 380749004321 metal binding site [ion binding]; metal-binding site 380749004322 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 380749004323 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 380749004324 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 380749004325 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 380749004326 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 380749004327 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 380749004328 DsrE/DsrF-like family; Region: DrsE; pfam02635 380749004329 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 380749004330 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 380749004331 glutamine binding [chemical binding]; other site 380749004332 catalytic triad [active] 380749004333 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 380749004334 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 380749004335 Walker A/P-loop; other site 380749004336 ATP binding site [chemical binding]; other site 380749004337 Q-loop/lid; other site 380749004338 ABC transporter signature motif; other site 380749004339 Walker B; other site 380749004340 D-loop; other site 380749004341 H-loop/switch region; other site 380749004342 ABC-2 type transporter; Region: ABC2_membrane; cl17235 380749004343 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 380749004344 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 380749004345 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 380749004346 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 380749004347 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 380749004348 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 380749004349 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 380749004350 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 380749004351 minor groove reading motif; other site 380749004352 helix-hairpin-helix signature motif; other site 380749004353 substrate binding pocket [chemical binding]; other site 380749004354 active site 380749004355 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 380749004356 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 380749004357 FHIPEP family; Region: FHIPEP; pfam00771 380749004358 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 380749004359 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 380749004360 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 380749004361 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 380749004362 P-loop; other site 380749004363 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 380749004364 Fe-S cluster binding site [ion binding]; other site 380749004365 active site 380749004366 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 380749004367 substrate binding site [chemical binding]; other site 380749004368 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 380749004369 Clp amino terminal domain; Region: Clp_N; pfam02861 380749004370 Clp amino terminal domain; Region: Clp_N; pfam02861 380749004371 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 380749004372 Walker A motif; other site 380749004373 ATP binding site [chemical binding]; other site 380749004374 Walker B motif; other site 380749004375 arginine finger; other site 380749004376 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 380749004377 Walker A motif; other site 380749004378 ATP binding site [chemical binding]; other site 380749004379 Walker B motif; other site 380749004380 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 380749004381 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 380749004382 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 380749004383 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 380749004384 ResB-like family; Region: ResB; pfam05140 380749004385 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 380749004386 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 380749004387 active site 380749004388 catalytic residues [active] 380749004389 metal binding site [ion binding]; metal-binding site 380749004390 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 380749004391 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 380749004392 integral membrane protein MviN; Region: mviN; TIGR01695 380749004393 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 380749004394 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 380749004395 Active_site [active] 380749004396 AMMECR1; Region: AMMECR1; pfam01871 380749004397 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 380749004398 Fic family protein [Function unknown]; Region: COG3177 380749004399 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 380749004400 Fic/DOC family; Region: Fic; pfam02661 380749004401 Short C-terminal domain; Region: SHOCT; pfam09851 380749004402 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 380749004403 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 380749004404 THF binding site; other site 380749004405 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 380749004406 substrate binding site [chemical binding]; other site 380749004407 THF binding site; other site 380749004408 zinc-binding site [ion binding]; other site 380749004409 Ferrochelatase; Region: Ferrochelatase; pfam00762 380749004410 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 380749004411 C-terminal domain interface [polypeptide binding]; other site 380749004412 active site 380749004413 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 380749004414 active site 380749004415 N-terminal domain interface [polypeptide binding]; other site 380749004416 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 380749004417 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 380749004418 active site 380749004419 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 380749004420 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 380749004421 putative active site [active] 380749004422 substrate binding site [chemical binding]; other site 380749004423 putative cosubstrate binding site; other site 380749004424 catalytic site [active] 380749004425 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 380749004426 substrate binding site [chemical binding]; other site 380749004427 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 380749004428 Flavoprotein; Region: Flavoprotein; pfam02441 380749004429 cytidylate kinase; Provisional; Region: cmk; PRK00023 380749004430 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 380749004431 CMP-binding site; other site 380749004432 The sites determining sugar specificity; other site 380749004433 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 380749004434 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 380749004435 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 380749004436 dimer interface [polypeptide binding]; other site 380749004437 active site 380749004438 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 380749004439 catalytic residues [active] 380749004440 substrate binding site [chemical binding]; other site 380749004441 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 380749004442 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 380749004443 P loop; other site 380749004444 Nucleotide binding site [chemical binding]; other site 380749004445 DTAP/Switch II; other site 380749004446 Switch I; other site 380749004447 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 380749004448 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 380749004449 Cupin domain; Region: Cupin_2; pfam07883 380749004450 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 380749004451 intersubunit interface [polypeptide binding]; other site 380749004452 active site 380749004453 Zn2+ binding site [ion binding]; other site 380749004454 UDP-N-acetylmuramoylalanine--D-glutamate ligase; Region: murD; TIGR01087 380749004455 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 380749004456 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 380749004457 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 380749004458 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 380749004459 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 380749004460 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 380749004461 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 380749004462 Surface antigen; Region: Bac_surface_Ag; pfam01103 380749004463 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 380749004464 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 380749004465 RNA binding surface [nucleotide binding]; other site 380749004466 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 380749004467 active site 380749004468 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 380749004469 catalytic core [active] 380749004470 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 380749004471 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 380749004472 CPxP motif; other site 380749004473 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 380749004474 Flavoprotein; Region: Flavoprotein; pfam02441 380749004475 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 380749004476 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 380749004477 Probable transposase; Region: OrfB_IS605; pfam01385 380749004478 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 380749004479 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 380749004480 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 380749004481 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 380749004482 Walker A motif; other site 380749004483 ATP binding site [chemical binding]; other site 380749004484 Walker B motif; other site 380749004485 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 380749004486 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 380749004487 catalytic loop [active] 380749004488 iron binding site [ion binding]; other site 380749004489 Peptidase family M48; Region: Peptidase_M48; cl12018 380749004490 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 380749004491 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 380749004492 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 380749004493 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 380749004494 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 380749004495 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 380749004496 DNA binding residues [nucleotide binding] 380749004497 DNA primase; Validated; Region: dnaG; PRK05667 380749004498 CHC2 zinc finger; Region: zf-CHC2; cl17510 380749004499 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 380749004500 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 380749004501 active site 380749004502 metal binding site [ion binding]; metal-binding site 380749004503 interdomain interaction site; other site 380749004504 MoxR-like ATPases [General function prediction only]; Region: COG0714 380749004505 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 380749004506 Walker A motif; other site 380749004507 ATP binding site [chemical binding]; other site 380749004508 Walker B motif; other site 380749004509 arginine finger; other site 380749004510 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 380749004511 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 380749004512 iron-sulfur cluster [ion binding]; other site 380749004513 [2Fe-2S] cluster binding site [ion binding]; other site 380749004514 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 380749004515 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 380749004516 Qi binding site; other site 380749004517 intrachain domain interface; other site 380749004518 interchain domain interface [polypeptide binding]; other site 380749004519 heme bH binding site [chemical binding]; other site 380749004520 heme bL binding site [chemical binding]; other site 380749004521 Qo binding site; other site 380749004522 intrachain domain interface; other site 380749004523 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 380749004524 Qo binding site; other site 380749004525 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 380749004526 Cytochrome c; Region: Cytochrom_C; cl11414 380749004527 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 380749004528 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 380749004529 motif 1; other site 380749004530 active site 380749004531 motif 2; other site 380749004532 motif 3; other site 380749004533 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 380749004534 DHHA1 domain; Region: DHHA1; pfam02272 380749004535 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 380749004536 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 380749004537 NADP binding site [chemical binding]; other site 380749004538 active site 380749004539 putative substrate binding site [chemical binding]; other site 380749004540 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 380749004541 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 380749004542 NAD binding site [chemical binding]; other site 380749004543 substrate binding site [chemical binding]; other site 380749004544 homodimer interface [polypeptide binding]; other site 380749004545 active site 380749004546 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 380749004547 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 380749004548 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 380749004549 substrate binding site; other site 380749004550 tetramer interface; other site 380749004551 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 380749004552 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 380749004553 Walker A/P-loop; other site 380749004554 ATP binding site [chemical binding]; other site 380749004555 Q-loop/lid; other site 380749004556 ABC transporter signature motif; other site 380749004557 Walker B; other site 380749004558 D-loop; other site 380749004559 H-loop/switch region; other site 380749004560 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 380749004561 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 380749004562 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 380749004563 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 380749004564 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 380749004565 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 380749004566 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 380749004567 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 380749004568 Protein of unknown function DUF116; Region: DUF116; pfam01976 380749004569 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; pfam02552 380749004570 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 380749004571 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 380749004572 Walker A/P-loop; other site 380749004573 ATP binding site [chemical binding]; other site 380749004574 Q-loop/lid; other site 380749004575 ABC transporter signature motif; other site 380749004576 Walker B; other site 380749004577 D-loop; other site 380749004578 H-loop/switch region; other site 380749004579 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 380749004580 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 380749004581 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 380749004582 active site 380749004583 NAD binding site [chemical binding]; other site 380749004584 metal binding site [ion binding]; metal-binding site 380749004585 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 380749004586 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 380749004587 FAD binding pocket [chemical binding]; other site 380749004588 FAD binding motif [chemical binding]; other site 380749004589 phosphate binding motif [ion binding]; other site 380749004590 beta-alpha-beta structure motif; other site 380749004591 NAD binding pocket [chemical binding]; other site 380749004592 Iron coordination center [ion binding]; other site 380749004593 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 380749004594 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 380749004595 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 380749004596 catalytic residue [active] 380749004597 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 380749004598 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 380749004599 Ligand Binding Site [chemical binding]; other site 380749004600 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 380749004601 core domain interface [polypeptide binding]; other site 380749004602 delta subunit interface [polypeptide binding]; other site 380749004603 epsilon subunit interface [polypeptide binding]; other site 380749004604 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 380749004605 MoaE homodimer interface [polypeptide binding]; other site 380749004606 MoaD interaction [polypeptide binding]; other site 380749004607 active site residues [active] 380749004608 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 380749004609 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 380749004610 FeS/SAM binding site; other site 380749004611 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 380749004612 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 380749004613 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 380749004614 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 380749004615 FeS/SAM binding site; other site 380749004616 CTP synthetase; Validated; Region: pyrG; PRK05380 380749004617 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 380749004618 Catalytic site [active] 380749004619 active site 380749004620 UTP binding site [chemical binding]; other site 380749004621 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 380749004622 active site 380749004623 putative oxyanion hole; other site 380749004624 catalytic triad [active] 380749004625 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 380749004626 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 380749004627 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 380749004628 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 380749004629 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 380749004630 active site 380749004631 thiamine phosphate binding site [chemical binding]; other site 380749004632 pyrophosphate binding site [ion binding]; other site 380749004633 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 380749004634 FAD binding site [chemical binding]; other site 380749004635 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 380749004636 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 380749004637 metal-binding site [ion binding] 380749004638 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 380749004639 Heavy-metal-associated domain; Region: HMA; pfam00403 380749004640 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 380749004641 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 380749004642 motif II; other site 380749004643 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 380749004644 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 380749004645 Walker A/P-loop; other site 380749004646 ATP binding site [chemical binding]; other site 380749004647 Q-loop/lid; other site 380749004648 ABC transporter signature motif; other site 380749004649 Walker B; other site 380749004650 D-loop; other site 380749004651 H-loop/switch region; other site 380749004652 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 380749004653 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 380749004654 substrate binding site; other site 380749004655 tetramer interface; other site 380749004656 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 380749004657 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 380749004658 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 380749004659 NAD binding site [chemical binding]; other site 380749004660 substrate binding site [chemical binding]; other site 380749004661 homodimer interface [polypeptide binding]; other site 380749004662 active site 380749004663 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 380749004664 ATP-sulfurylase; Region: ATPS; cd00517 380749004665 active site 380749004666 HXXH motif; other site 380749004667 flexible loop; other site 380749004668 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 380749004669 ligand-binding site [chemical binding]; other site 380749004670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 380749004671 Methyltransferase domain; Region: Methyltransf_23; pfam13489 380749004672 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 380749004673 S-adenosylmethionine binding site [chemical binding]; other site 380749004674 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 380749004675 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 380749004676 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 380749004677 Probable Catalytic site; other site 380749004678 metal-binding site 380749004679 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 380749004680 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 380749004681 Probable Catalytic site; other site 380749004682 metal-binding site 380749004683 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 380749004684 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 380749004685 Probable Catalytic site; other site 380749004686 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 380749004687 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 380749004688 active site 380749004689 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 380749004690 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 380749004691 active site 380749004692 nucleotide binding site [chemical binding]; other site 380749004693 HIGH motif; other site 380749004694 KMSKS motif; other site 380749004695 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 380749004696 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 380749004697 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 380749004698 DHH family; Region: DHH; pfam01368 380749004699 phosphoenolpyruvate synthase; Validated; Region: PRK06464 380749004700 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 380749004701 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 380749004702 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 380749004703 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 380749004704 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 380749004705 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 380749004706 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 380749004707 NAD binding site [chemical binding]; other site 380749004708 homotetramer interface [polypeptide binding]; other site 380749004709 homodimer interface [polypeptide binding]; other site 380749004710 substrate binding site [chemical binding]; other site 380749004711 active site 380749004712 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 380749004713 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 380749004714 putative active site; other site 380749004715 catalytic residue [active] 380749004716 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 380749004717 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 380749004718 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 380749004719 dimer interface [polypeptide binding]; other site 380749004720 motif 1; other site 380749004721 active site 380749004722 motif 2; other site 380749004723 motif 3; other site 380749004724 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 380749004725 active site 380749004726 NTP binding site [chemical binding]; other site 380749004727 metal binding triad [ion binding]; metal-binding site 380749004728 antibiotic binding site [chemical binding]; other site 380749004729 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 380749004730 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 380749004731 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 380749004732 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 380749004733 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 380749004734 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 380749004735 metal binding triad [ion binding]; metal-binding site 380749004736 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 380749004737 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 380749004738 Zn2+ binding site [ion binding]; other site 380749004739 Mg2+ binding site [ion binding]; other site 380749004740 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 380749004741 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 380749004742 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 380749004743 active site 380749004744 tetramer interface [polypeptide binding]; other site 380749004745 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 380749004746 active site 380749004747 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 380749004748 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1817 380749004749 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 380749004750 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 380749004751 active site 380749004752 dimer interface [polypeptide binding]; other site 380749004753 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 380749004754 Ligand Binding Site [chemical binding]; other site 380749004755 Molecular Tunnel; other site 380749004756 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 380749004757 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 380749004758 Ligand Binding Site [chemical binding]; other site 380749004759 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 380749004760 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 380749004761 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 380749004762 hypothetical protein; Provisional; Region: PRK09956 380749004763 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 380749004764 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 380749004765 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 380749004766 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 380749004767 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 380749004768 NAD binding site [chemical binding]; other site 380749004769 putative substrate binding site 2 [chemical binding]; other site 380749004770 putative substrate binding site 1 [chemical binding]; other site 380749004771 active site 380749004772 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 380749004773 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 380749004774 active site 380749004775 PHP Thumb interface [polypeptide binding]; other site 380749004776 metal binding site [ion binding]; metal-binding site 380749004777 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 380749004778 generic binding surface II; other site 380749004779 generic binding surface I; other site 380749004780 PBP superfamily domain; Region: PBP_like_2; cl17296 380749004781 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 380749004782 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 380749004783 dimer interface [polypeptide binding]; other site 380749004784 conserved gate region; other site 380749004785 putative PBP binding loops; other site 380749004786 ABC-ATPase subunit interface; other site 380749004787 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 380749004788 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 380749004789 dimer interface [polypeptide binding]; other site 380749004790 conserved gate region; other site 380749004791 putative PBP binding loops; other site 380749004792 ABC-ATPase subunit interface; other site 380749004793 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 380749004794 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 380749004795 Walker A/P-loop; other site 380749004796 ATP binding site [chemical binding]; other site 380749004797 Q-loop/lid; other site 380749004798 ABC transporter signature motif; other site 380749004799 Walker B; other site 380749004800 D-loop; other site 380749004801 H-loop/switch region; other site 380749004802 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 380749004803 catalytic core [active] 380749004804 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 380749004805 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 380749004806 Prephenate dehydrogenase; Region: PDH; pfam02153 380749004807 prephenate dehydrogenase; Validated; Region: PRK08507 380749004808 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 380749004809 Ligand Binding Site [chemical binding]; other site 380749004810 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 380749004811 Ligand Binding Site [chemical binding]; other site 380749004812 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 380749004813 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 380749004814 ATP binding site [chemical binding]; other site 380749004815 Mg2+ binding site [ion binding]; other site 380749004816 G-X-G motif; other site 380749004817 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 380749004818 anchoring element; other site 380749004819 dimer interface [polypeptide binding]; other site 380749004820 ATP binding site [chemical binding]; other site 380749004821 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 380749004822 active site 380749004823 putative metal-binding site [ion binding]; other site 380749004824 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 380749004825 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 380749004826 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 380749004827 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 380749004828 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 380749004829 motif II; other site 380749004830 Protein of unknown function (DUF996); Region: DUF996; pfam06195 380749004831 Predicted methyltransferases [General function prediction only]; Region: COG0313 380749004832 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 380749004833 putative SAM binding site [chemical binding]; other site 380749004834 putative homodimer interface [polypeptide binding]; other site 380749004835 ribosome maturation protein RimP; Reviewed; Region: PRK00092 380749004836 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 380749004837 putative oligomer interface [polypeptide binding]; other site 380749004838 putative RNA binding site [nucleotide binding]; other site 380749004839 transcription termination factor NusA; Region: NusA; TIGR01953 380749004840 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 380749004841 RNA binding site [nucleotide binding]; other site 380749004842 homodimer interface [polypeptide binding]; other site 380749004843 NusA-like KH domain; Region: KH_5; pfam13184 380749004844 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 380749004845 G-X-X-G motif; other site 380749004846 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 380749004847 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 380749004848 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 380749004849 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 380749004850 hinge; other site 380749004851 active site 380749004852 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 380749004853 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 380749004854 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 380749004855 putative NAD(P) binding site [chemical binding]; other site 380749004856 putative substrate binding site [chemical binding]; other site 380749004857 catalytic Zn binding site [ion binding]; other site 380749004858 structural Zn binding site [ion binding]; other site 380749004859 dimer interface [polypeptide binding]; other site 380749004860 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 380749004861 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 380749004862 CO dehydrogenase beta subunit/acetyl-CoA synthase epsilon subunit; Region: CO_dh; pfam02552 380749004863 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 380749004864 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 380749004865 dimer interface [polypeptide binding]; other site 380749004866 PYR/PP interface [polypeptide binding]; other site 380749004867 TPP binding site [chemical binding]; other site 380749004868 substrate binding site [chemical binding]; other site 380749004869 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 380749004870 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 380749004871 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 380749004872 TPP-binding site [chemical binding]; other site 380749004873 dimer interface [polypeptide binding]; other site 380749004874 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 380749004875 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 380749004876 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 380749004877 FeS/SAM binding site; other site 380749004878 hypothetical protein; Reviewed; Region: PRK12497 380749004879 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887