-- dump date 20140620_020749 -- class Genbank::misc_feature -- table misc_feature_note -- id note 259536000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 259536000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 259536000003 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 259536000004 Walker A motif; other site 259536000005 ATP binding site [chemical binding]; other site 259536000006 Walker B motif; other site 259536000007 arginine finger; other site 259536000008 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 259536000009 DnaA box-binding interface [nucleotide binding]; other site 259536000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 259536000011 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 259536000012 putative DNA binding surface [nucleotide binding]; other site 259536000013 dimer interface [polypeptide binding]; other site 259536000014 beta-clamp/clamp loader binding surface; other site 259536000015 beta-clamp/translesion DNA polymerase binding surface; other site 259536000016 recombination protein F; Reviewed; Region: recF; PRK00064 259536000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536000018 Walker A/P-loop; other site 259536000019 ATP binding site [chemical binding]; other site 259536000020 Q-loop/lid; other site 259536000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536000022 ABC transporter signature motif; other site 259536000023 Walker B; other site 259536000024 D-loop; other site 259536000025 H-loop/switch region; other site 259536000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 259536000027 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 259536000028 Mg2+ binding site [ion binding]; other site 259536000029 G-X-G motif; other site 259536000030 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 259536000031 anchoring element; other site 259536000032 dimer interface [polypeptide binding]; other site 259536000033 ATP binding site [chemical binding]; other site 259536000034 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 259536000035 active site 259536000036 putative metal-binding site [ion binding]; other site 259536000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 259536000038 Predicted membrane protein [Function unknown]; Region: COG1971 259536000039 Domain of unknown function DUF; Region: DUF204; pfam02659 259536000040 Domain of unknown function DUF; Region: DUF204; pfam02659 259536000041 putative transposase OrfB; Reviewed; Region: PHA02517 259536000042 HTH-like domain; Region: HTH_21; pfam13276 259536000043 Integrase core domain; Region: rve; pfam00665 259536000044 Integrase core domain; Region: rve_2; pfam13333 259536000045 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 259536000046 Helix-turn-helix domain; Region: HTH_28; pfam13518 259536000047 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 259536000048 Helix-turn-helix domain; Region: HTH_28; pfam13518 259536000049 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 259536000050 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 259536000051 S-adenosylmethionine binding site [chemical binding]; other site 259536000052 GMP synthase; Reviewed; Region: guaA; PRK00074 259536000053 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 259536000054 AMP/PPi binding site [chemical binding]; other site 259536000055 candidate oxyanion hole; other site 259536000056 catalytic triad [active] 259536000057 potential glutamine specificity residues [chemical binding]; other site 259536000058 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 259536000059 ATP Binding subdomain [chemical binding]; other site 259536000060 Ligand Binding sites [chemical binding]; other site 259536000061 Dimerization subdomain; other site 259536000062 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 259536000063 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 259536000064 NADP binding site [chemical binding]; other site 259536000065 dimer interface [polypeptide binding]; other site 259536000066 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 259536000067 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 259536000068 putative NAD(P) binding site [chemical binding]; other site 259536000069 putative dimer interface [polypeptide binding]; other site 259536000070 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 259536000071 Nitronate monooxygenase; Region: NMO; pfam03060 259536000072 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 259536000073 FMN binding site [chemical binding]; other site 259536000074 substrate binding site [chemical binding]; other site 259536000075 putative catalytic residue [active] 259536000076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 259536000077 Transposase; Region: HTH_Tnp_1; pfam01527 259536000078 putative transposase OrfB; Reviewed; Region: PHA02517 259536000079 HTH-like domain; Region: HTH_21; pfam13276 259536000080 Integrase core domain; Region: rve; pfam00665 259536000081 Integrase core domain; Region: rve_3; pfam13683 259536000082 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536000083 Walker A/P-loop; other site 259536000084 ATP binding site [chemical binding]; other site 259536000085 Restriction endonuclease; Region: Mrr_cat; pfam04471 259536000086 DsrE/DsrF-like family; Region: DrsE; pfam02635 259536000087 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 259536000088 Uncharacterized conserved protein [Function unknown]; Region: COG1739 259536000089 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 259536000090 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 259536000091 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 259536000092 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 259536000093 RNA binding surface [nucleotide binding]; other site 259536000094 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 259536000095 active site 259536000096 uracil binding [chemical binding]; other site 259536000097 Disulfide bond isomerase protein N-terminus; Region: DsbC_N; pfam10411 259536000098 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 259536000099 dimerization domain [polypeptide binding]; other site 259536000100 dimer interface [polypeptide binding]; other site 259536000101 catalytic residues [active] 259536000102 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 259536000103 chaperone protein DnaJ; Provisional; Region: PRK10767 259536000104 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 259536000105 HSP70 interaction site [polypeptide binding]; other site 259536000106 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 259536000107 substrate binding site [polypeptide binding]; other site 259536000108 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 259536000109 Zn binding sites [ion binding]; other site 259536000110 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 259536000111 dimer interface [polypeptide binding]; other site 259536000112 dihydrodipicolinate reductase; Provisional; Region: PRK00048 259536000113 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 259536000114 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 259536000115 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 259536000116 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 259536000117 dimer interface [polypeptide binding]; other site 259536000118 active site 259536000119 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 259536000120 catalytic residues [active] 259536000121 substrate binding site [chemical binding]; other site 259536000122 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 259536000123 active site 259536000124 catalytic residues [active] 259536000125 metal binding site [ion binding]; metal-binding site 259536000126 Predicted membrane protein [Function unknown]; Region: COG2261 259536000127 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 259536000128 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 259536000129 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 259536000130 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 259536000131 NlpE N-terminal domain; Region: NlpE; pfam04170 259536000132 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 259536000133 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 259536000134 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 259536000135 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 259536000136 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536000137 Walker A/P-loop; other site 259536000138 ATP binding site [chemical binding]; other site 259536000139 Q-loop/lid; other site 259536000140 ABC transporter signature motif; other site 259536000141 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 259536000142 ABC transporter; Region: ABC_tran_2; pfam12848 259536000143 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 259536000144 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 259536000145 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 259536000146 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 259536000147 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 259536000148 HSP70 interaction site [polypeptide binding]; other site 259536000149 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 259536000150 substrate binding site [polypeptide binding]; other site 259536000151 dimer interface [polypeptide binding]; other site 259536000152 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 259536000153 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 259536000154 serine/threonine transporter SstT; Provisional; Region: PRK13628 259536000155 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 259536000156 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 259536000157 multifunctional aminopeptidase A; Provisional; Region: PRK00913 259536000158 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 259536000159 interface (dimer of trimers) [polypeptide binding]; other site 259536000160 Substrate-binding/catalytic site; other site 259536000161 Zn-binding sites [ion binding]; other site 259536000162 Isochorismatase family; Region: Isochorismatase; pfam00857 259536000163 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 259536000164 catalytic triad [active] 259536000165 conserved cis-peptide bond; other site 259536000166 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 259536000167 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 259536000168 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 259536000169 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 259536000170 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 259536000171 S-adenosylmethionine binding site [chemical binding]; other site 259536000172 Protein of unknown function, DUF606; Region: DUF606; pfam04657 259536000173 Protein of unknown function, DUF606; Region: DUF606; pfam04657 259536000174 Transcriptional regulator [Transcription]; Region: LysR; COG0583 259536000175 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 259536000176 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 259536000177 putative effector binding pocket; other site 259536000178 dimerization interface [polypeptide binding]; other site 259536000179 Fic/DOC family; Region: Fic; pfam02661 259536000180 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 259536000181 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 259536000182 active site 259536000183 Int/Topo IB signature motif; other site 259536000184 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 259536000185 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 259536000186 S-adenosylmethionine binding site [chemical binding]; other site 259536000187 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 259536000188 CPxP motif; other site 259536000189 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 259536000190 Putative transcriptional regulator [Transcription]; Region: COG1678 259536000191 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 259536000192 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 259536000193 Walker A/P-loop; other site 259536000194 ATP binding site [chemical binding]; other site 259536000195 Q-loop/lid; other site 259536000196 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 259536000197 ABC transporter signature motif; other site 259536000198 Walker B; other site 259536000199 D-loop; other site 259536000200 H-loop/switch region; other site 259536000201 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 259536000202 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 259536000203 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 259536000204 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 259536000205 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 259536000206 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 259536000207 CoA-binding site [chemical binding]; other site 259536000208 ATP-binding [chemical binding]; other site 259536000209 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 259536000210 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 259536000211 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 259536000212 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 259536000213 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 259536000214 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 259536000215 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 259536000216 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 259536000217 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 259536000218 Walker A motif; other site 259536000219 ATP binding site [chemical binding]; other site 259536000220 Walker B motif; other site 259536000221 triosephosphate isomerase; Provisional; Region: PRK14567 259536000222 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 259536000223 substrate binding site [chemical binding]; other site 259536000224 dimer interface [polypeptide binding]; other site 259536000225 catalytic triad [active] 259536000226 Preprotein translocase SecG subunit; Region: SecG; pfam03840 259536000227 ribosome maturation protein RimP; Reviewed; Region: PRK00092 259536000228 Sm and related proteins; Region: Sm_like; cl00259 259536000229 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 259536000230 putative oligomer interface [polypeptide binding]; other site 259536000231 putative RNA binding site [nucleotide binding]; other site 259536000232 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 259536000233 NusA N-terminal domain; Region: NusA_N; pfam08529 259536000234 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 259536000235 RNA binding site [nucleotide binding]; other site 259536000236 homodimer interface [polypeptide binding]; other site 259536000237 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 259536000238 G-X-X-G motif; other site 259536000239 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 259536000240 G-X-X-G motif; other site 259536000241 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 259536000242 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 259536000243 translation initiation factor IF-2; Region: IF-2; TIGR00487 259536000244 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 259536000245 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 259536000246 G1 box; other site 259536000247 putative GEF interaction site [polypeptide binding]; other site 259536000248 GTP/Mg2+ binding site [chemical binding]; other site 259536000249 Switch I region; other site 259536000250 G2 box; other site 259536000251 G3 box; other site 259536000252 Switch II region; other site 259536000253 G4 box; other site 259536000254 G5 box; other site 259536000255 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 259536000256 Translation-initiation factor 2; Region: IF-2; pfam11987 259536000257 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 259536000258 ribosome-binding factor A; Provisional; Region: PRK13816 259536000259 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 259536000260 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 259536000261 RNA binding site [nucleotide binding]; other site 259536000262 active site 259536000263 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 259536000264 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 259536000265 16S/18S rRNA binding site [nucleotide binding]; other site 259536000266 S13e-L30e interaction site [polypeptide binding]; other site 259536000267 25S rRNA binding site [nucleotide binding]; other site 259536000268 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 259536000269 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 259536000270 RNase E interface [polypeptide binding]; other site 259536000271 trimer interface [polypeptide binding]; other site 259536000272 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 259536000273 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 259536000274 RNase E interface [polypeptide binding]; other site 259536000275 trimer interface [polypeptide binding]; other site 259536000276 active site 259536000277 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 259536000278 putative nucleic acid binding region [nucleotide binding]; other site 259536000279 G-X-X-G motif; other site 259536000280 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 259536000281 RNA binding site [nucleotide binding]; other site 259536000282 domain interface; other site 259536000283 hypothetical protein; Validated; Region: PRK09039 259536000284 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 259536000285 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 259536000286 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 259536000287 active site 259536000288 Zn binding site [ion binding]; other site 259536000289 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 259536000290 putative catalytic site [active] 259536000291 putative metal binding site [ion binding]; other site 259536000292 putative phosphate binding site [ion binding]; other site 259536000293 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 259536000294 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 259536000295 putative NAD(P) binding site [chemical binding]; other site 259536000296 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 259536000297 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 259536000298 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 259536000299 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 259536000300 Walker A/P-loop; other site 259536000301 ATP binding site [chemical binding]; other site 259536000302 Q-loop/lid; other site 259536000303 ABC transporter signature motif; other site 259536000304 Walker B; other site 259536000305 D-loop; other site 259536000306 H-loop/switch region; other site 259536000307 Fructose-1.6-bisphosphate aldolase found in gram +/- bacteria; Region: FBP_aldolase_I_bact; cd00949 259536000308 putative active site [active] 259536000309 catalytic residue [active] 259536000310 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 259536000311 ThiC-associated domain; Region: ThiC-associated; pfam13667 259536000312 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 259536000313 oxidative damage protection protein; Provisional; Region: PRK05408 259536000314 argininosuccinate lyase; Provisional; Region: PRK00855 259536000315 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 259536000316 active sites [active] 259536000317 tetramer interface [polypeptide binding]; other site 259536000318 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 259536000319 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 259536000320 domain interfaces; other site 259536000321 active site 259536000322 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 259536000323 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 259536000324 active site 259536000325 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 259536000326 active site 259536000327 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 259536000328 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 259536000329 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 259536000330 dimerization interface [polypeptide binding]; other site 259536000331 active site 259536000332 recombination factor protein RarA; Reviewed; Region: PRK13342 259536000333 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 259536000334 Walker A motif; other site 259536000335 ATP binding site [chemical binding]; other site 259536000336 Walker B motif; other site 259536000337 arginine finger; other site 259536000338 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 259536000339 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 259536000340 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 259536000341 dimer interface [polypeptide binding]; other site 259536000342 active site 259536000343 citrylCoA binding site [chemical binding]; other site 259536000344 NADH binding [chemical binding]; other site 259536000345 cationic pore residues; other site 259536000346 oxalacetate/citrate binding site [chemical binding]; other site 259536000347 coenzyme A binding site [chemical binding]; other site 259536000348 catalytic triad [active] 259536000349 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 259536000350 Iron-sulfur protein interface; other site 259536000351 proximal quinone binding site [chemical binding]; other site 259536000352 SdhD (CybS) interface [polypeptide binding]; other site 259536000353 proximal heme binding site [chemical binding]; other site 259536000354 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 259536000355 SdhC subunit interface [polypeptide binding]; other site 259536000356 proximal heme binding site [chemical binding]; other site 259536000357 cardiolipin binding site; other site 259536000358 Iron-sulfur protein interface; other site 259536000359 proximal quinone binding site [chemical binding]; other site 259536000360 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 259536000361 L-aspartate oxidase; Provisional; Region: PRK06175 259536000362 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 259536000363 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 259536000364 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 259536000365 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 259536000366 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 259536000367 TPP-binding site [chemical binding]; other site 259536000368 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 259536000369 dimer interface [polypeptide binding]; other site 259536000370 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 259536000371 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 259536000372 E3 interaction surface; other site 259536000373 lipoyl attachment site [posttranslational modification]; other site 259536000374 e3 binding domain; Region: E3_binding; pfam02817 259536000375 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 259536000376 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 259536000377 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 259536000378 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 259536000379 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 259536000380 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 259536000381 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 259536000382 CoA-ligase; Region: Ligase_CoA; pfam00549 259536000383 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 259536000384 CoA binding domain; Region: CoA_binding; smart00881 259536000385 CoA-ligase; Region: Ligase_CoA; pfam00549 259536000386 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 259536000387 UDP-glucose 4-epimerase; Region: PLN02240 259536000388 NAD binding site [chemical binding]; other site 259536000389 homodimer interface [polypeptide binding]; other site 259536000390 active site 259536000391 substrate binding site [chemical binding]; other site 259536000392 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 259536000393 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 259536000394 active site 259536000395 tetramer interface; other site 259536000396 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 259536000397 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 259536000398 active site 259536000399 dimer interface [polypeptide binding]; other site 259536000400 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 259536000401 dimer interface [polypeptide binding]; other site 259536000402 active site 259536000403 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 259536000404 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 259536000405 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 259536000406 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 259536000407 phosphomannomutase CpsG; Provisional; Region: PRK15414 259536000408 active site 259536000409 substrate binding site [chemical binding]; other site 259536000410 metal binding site [ion binding]; metal-binding site 259536000411 MazG family protein; Region: mazG; TIGR00444 259536000412 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 259536000413 homodimer interface [polypeptide binding]; other site 259536000414 metal binding site [ion binding]; metal-binding site 259536000415 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 259536000416 homodimer interface [polypeptide binding]; other site 259536000417 active site 259536000418 putative chemical substrate binding site [chemical binding]; other site 259536000419 metal binding site [ion binding]; metal-binding site 259536000420 minor groove reading motif; other site 259536000421 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 259536000422 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 259536000423 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 259536000424 helix-hairpin-helix signature motif; other site 259536000425 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 259536000426 poly(A) polymerase; Region: pcnB; TIGR01942 259536000427 active site 259536000428 NTP binding site [chemical binding]; other site 259536000429 metal binding triad [ion binding]; metal-binding site 259536000430 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 259536000431 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 259536000432 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 259536000433 catalytic center binding site [active] 259536000434 ATP binding site [chemical binding]; other site 259536000435 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 259536000436 oligomerization interface [polypeptide binding]; other site 259536000437 active site 259536000438 metal binding site [ion binding]; metal-binding site 259536000439 pantoate--beta-alanine ligase; Region: panC; TIGR00018 259536000440 Pantoate-beta-alanine ligase; Region: PanC; cd00560 259536000441 active site 259536000442 ATP-binding site [chemical binding]; other site 259536000443 pantoate-binding site; other site 259536000444 HXXH motif; other site 259536000445 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 259536000446 Protein of unknown function (DUF615); Region: DUF615; pfam04751 259536000447 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 259536000448 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 259536000449 catalytic residues [active] 259536000450 hinge region; other site 259536000451 alpha helical domain; other site 259536000452 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 259536000453 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 259536000454 S-adenosylmethionine binding site [chemical binding]; other site 259536000455 phosphoglycolate phosphatase; Provisional; Region: PRK13222 259536000456 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 259536000457 motif II; other site 259536000458 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 259536000459 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 259536000460 NAD(P) binding site [chemical binding]; other site 259536000461 active site 259536000462 hypothetical protein; Provisional; Region: PRK11019 259536000463 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 259536000464 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 259536000465 osmolarity response regulator; Provisional; Region: ompR; PRK09468 259536000466 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 259536000467 active site 259536000468 phosphorylation site [posttranslational modification] 259536000469 intermolecular recognition site; other site 259536000470 dimerization interface [polypeptide binding]; other site 259536000471 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 259536000472 DNA binding site [nucleotide binding] 259536000473 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 259536000474 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 259536000475 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 259536000476 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 259536000477 RNA binding site [nucleotide binding]; other site 259536000478 Uncharacterized conserved protein [Function unknown]; Region: COG3268 259536000479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 259536000480 NAD(P) binding site [chemical binding]; other site 259536000481 active site 259536000482 Small integral membrane protein [Function unknown]; Region: COG5487; cl17674 259536000483 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_subfamily_b; cd00914 259536000484 aromatic arch; other site 259536000485 DCoH dimer interaction site [polypeptide binding]; other site 259536000486 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 259536000487 DCoH tetramer interaction site [polypeptide binding]; other site 259536000488 substrate binding site [chemical binding]; other site 259536000489 Predicted acetyltransferase [General function prediction only]; Region: COG2388 259536000490 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 259536000491 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 259536000492 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 259536000493 ABC transporter; Region: ABC_tran_2; pfam12848 259536000494 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 259536000495 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 259536000496 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 259536000497 putative acyl-acceptor binding pocket; other site 259536000498 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 259536000499 putative deacylase active site [active] 259536000500 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 259536000501 putative substrate binding pocket [chemical binding]; other site 259536000502 trimer interface [polypeptide binding]; other site 259536000503 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 259536000504 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 259536000505 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 259536000506 active site 259536000507 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 259536000508 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 259536000509 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 259536000510 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 259536000511 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 259536000512 shikimate binding site; other site 259536000513 NAD(P) binding site [chemical binding]; other site 259536000514 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 259536000515 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 259536000516 homodimer interface [polypeptide binding]; other site 259536000517 substrate-cofactor binding pocket; other site 259536000518 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536000519 catalytic residue [active] 259536000520 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 259536000521 Dam-replacing family; Region: DRP; pfam06044 259536000522 YceG-like family; Region: YceG; pfam02618 259536000523 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 259536000524 dimerization interface [polypeptide binding]; other site 259536000525 thymidylate kinase; Validated; Region: tmk; PRK00698 259536000526 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 259536000527 TMP-binding site; other site 259536000528 ATP-binding site [chemical binding]; other site 259536000529 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 259536000530 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 259536000531 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 259536000532 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 259536000533 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 259536000534 protein binding site [polypeptide binding]; other site 259536000535 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 259536000536 protein binding site [polypeptide binding]; other site 259536000537 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 259536000538 dihydrodipicolinate synthase; Region: dapA; TIGR00674 259536000539 dimer interface [polypeptide binding]; other site 259536000540 active site 259536000541 catalytic residue [active] 259536000542 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 259536000543 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 259536000544 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 259536000545 ATP binding site [chemical binding]; other site 259536000546 active site 259536000547 substrate binding site [chemical binding]; other site 259536000548 Methylpurine-DNA glycosylase is a base excision-repair protein. It is responsible for the hydrolysis of the deoxyribose N-glycosidic bond, excising 3-methyladenine and 3-methylguanine from damaged DNA.; Probable methylpurine DNA glycosylase 259536000549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 259536000550 DDE superfamily endonuclease; Region: DDE_3; pfam13358 259536000551 CsbD-like; Region: CsbD; cl17424 259536000552 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 259536000553 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 259536000554 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 259536000555 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 259536000556 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 259536000557 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 259536000558 PhnA protein; Region: PhnA; pfam03831 259536000559 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 259536000560 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 259536000561 inhibitor-cofactor binding pocket; inhibition site 259536000562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536000563 catalytic residue [active] 259536000564 exopolyphosphatase; Provisional; Region: PRK10854 259536000565 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 259536000566 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 259536000567 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 259536000568 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 259536000569 Ligand Binding Site [chemical binding]; other site 259536000570 TilS substrate binding domain; Region: TilS; pfam09179 259536000571 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 259536000572 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 259536000573 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 259536000574 YGGT family; Region: YGGT; pfam02325 259536000575 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 259536000576 dimer interface [polypeptide binding]; other site 259536000577 substrate binding site [chemical binding]; other site 259536000578 ATP binding site [chemical binding]; other site 259536000579 RDD family; Region: RDD; pfam06271 259536000580 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 259536000581 tetramerization interface [polypeptide binding]; other site 259536000582 active site 259536000583 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 259536000584 putative active site [active] 259536000585 catalytic residue [active] 259536000586 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 259536000587 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 259536000588 5S rRNA interface [nucleotide binding]; other site 259536000589 CTC domain interface [polypeptide binding]; other site 259536000590 L16 interface [polypeptide binding]; other site 259536000591 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 259536000592 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 259536000593 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 259536000594 active site 259536000595 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 259536000596 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 259536000597 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 259536000598 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 259536000599 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 259536000600 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 259536000601 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 259536000602 tRNA; other site 259536000603 putative tRNA binding site [nucleotide binding]; other site 259536000604 putative NADP binding site [chemical binding]; other site 259536000605 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 259536000606 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 259536000607 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 259536000608 catalytic residue [active] 259536000609 Predicted transporter component [General function prediction only]; Region: COG2391 259536000610 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 259536000611 Predicted transporter component [General function prediction only]; Region: COG2391 259536000612 Sulphur transport; Region: Sulf_transp; pfam04143 259536000613 acyl-CoA synthetase; Validated; Region: PRK08162 259536000614 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 259536000615 acyl-activating enzyme (AAE) consensus motif; other site 259536000616 putative active site [active] 259536000617 AMP binding site [chemical binding]; other site 259536000618 putative CoA binding site [chemical binding]; other site 259536000619 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 259536000620 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 259536000621 active site 259536000622 FMN binding site [chemical binding]; other site 259536000623 2,4-decadienoyl-CoA binding site; other site 259536000624 catalytic residue [active] 259536000625 4Fe-4S cluster binding site [ion binding]; other site 259536000626 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 259536000627 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 259536000628 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 259536000629 FMN binding site [chemical binding]; other site 259536000630 active site 259536000631 substrate binding site [chemical binding]; other site 259536000632 catalytic residue [active] 259536000633 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 259536000634 HI0933-like protein; Region: HI0933_like; pfam03486 259536000635 acetyl-CoA synthetase; Provisional; Region: PRK00174 259536000636 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 259536000637 active site 259536000638 CoA binding site [chemical binding]; other site 259536000639 acyl-activating enzyme (AAE) consensus motif; other site 259536000640 AMP binding site [chemical binding]; other site 259536000641 acetate binding site [chemical binding]; other site 259536000642 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 259536000643 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 259536000644 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 259536000645 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 259536000646 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 259536000647 dimerization interface [polypeptide binding]; other site 259536000648 ATP binding site [chemical binding]; other site 259536000649 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 259536000650 dimerization interface [polypeptide binding]; other site 259536000651 ATP binding site [chemical binding]; other site 259536000652 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 259536000653 putative active site [active] 259536000654 catalytic triad [active] 259536000655 Bacterial PH domain; Region: DUF304; pfam03703 259536000656 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 259536000657 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 259536000658 active site 259536000659 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 259536000660 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 259536000661 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 259536000662 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 259536000663 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 259536000664 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 259536000665 Transporter associated domain; Region: CorC_HlyC; smart01091 259536000666 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 259536000667 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 259536000668 active site 259536000669 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 259536000670 (T/H)XGH motif; other site 259536000671 phosphate acetyltransferase; Reviewed; Region: PRK05632 259536000672 DRTGG domain; Region: DRTGG; pfam07085 259536000673 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 259536000674 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 259536000675 propionate/acetate kinase; Provisional; Region: PRK12379 259536000676 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 259536000677 diaminopimelate decarboxylase; Region: lysA; TIGR01048 259536000678 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 259536000679 active site 259536000680 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 259536000681 substrate binding site [chemical binding]; other site 259536000682 catalytic residues [active] 259536000683 dimer interface [polypeptide binding]; other site 259536000684 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 259536000685 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 259536000686 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 259536000687 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 259536000688 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 259536000689 active site 259536000690 DNA binding site [nucleotide binding] 259536000691 Int/Topo IB signature motif; other site 259536000692 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 259536000693 nitrilase; Region: PLN02798 259536000694 active site 259536000695 catalytic triad [active] 259536000696 dimer interface [polypeptide binding]; other site 259536000697 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 259536000698 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 259536000699 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 259536000700 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 259536000701 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 259536000702 30S subunit binding site; other site 259536000703 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 259536000704 thiS-thiF/thiG interaction site; other site 259536000705 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 259536000706 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 259536000707 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 259536000708 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 259536000709 DNA binding residues [nucleotide binding] 259536000710 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 259536000711 CPxP motif; other site 259536000712 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 259536000713 Peptidase family M48; Region: Peptidase_M48; cl12018 259536000714 Yqey-like protein; Region: YqeY; pfam09424 259536000715 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 259536000716 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 259536000717 UGMP family protein; Validated; Region: PRK09604 259536000718 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 259536000719 CrcB-like protein; Region: CRCB; cl09114 259536000720 Transcriptional regulator [Transcription]; Region: LysR; COG0583 259536000721 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 259536000722 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 259536000723 putative dimerization interface [polypeptide binding]; other site 259536000724 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 259536000725 active site clefts [active] 259536000726 zinc binding site [ion binding]; other site 259536000727 dimer interface [polypeptide binding]; other site 259536000728 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 259536000729 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 259536000730 dimer interface [polypeptide binding]; other site 259536000731 active site 259536000732 metal binding site [ion binding]; metal-binding site 259536000733 glutathione binding site [chemical binding]; other site 259536000734 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 259536000735 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 259536000736 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 259536000737 dimerization interface [polypeptide binding]; other site 259536000738 active site 259536000739 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 259536000740 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 259536000741 TPP-binding site; other site 259536000742 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 259536000743 PYR/PP interface [polypeptide binding]; other site 259536000744 dimer interface [polypeptide binding]; other site 259536000745 TPP binding site [chemical binding]; other site 259536000746 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 259536000747 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 259536000748 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 259536000749 active site 259536000750 dimerization interface [polypeptide binding]; other site 259536000751 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 259536000752 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 259536000753 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 259536000754 ThiS interaction site; other site 259536000755 putative active site [active] 259536000756 tetramer interface [polypeptide binding]; other site 259536000757 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 259536000758 CoenzymeA binding site [chemical binding]; other site 259536000759 subunit interaction site [polypeptide binding]; other site 259536000760 PHB binding site; other site 259536000761 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 259536000762 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 259536000763 thiol:disulfide interchange protein; Signal predicted by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.555 at residue 42 259536000764 thiol-disulfideinterchange protein; Signal predicted by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.648 at residue 61 259536000765 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 259536000766 dimerization interface [polypeptide binding]; other site 259536000767 substrate binding site [chemical binding]; other site 259536000768 active site 259536000769 calcium binding site [ion binding]; other site 259536000770 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 259536000771 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 259536000772 active site 259536000773 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 259536000774 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 259536000775 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 259536000776 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 259536000777 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 259536000778 putative major pilin subunit; Provisional; Region: PRK10574 259536000779 putative major pilin subunit; Provisional; Region: PRK10574 259536000780 O-Antigen ligase; Region: Wzy_C; pfam04932 259536000781 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 259536000782 C-terminus of ferredoxin 259536000783 Ferredoxin [Energy production and conversion]; Region: COG1146 259536000784 4Fe-4S binding domain; Region: Fer4; cl02805 259536000785 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 259536000786 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 259536000787 MutS domain I; Region: MutS_I; pfam01624 259536000788 MutS domain II; Region: MutS_II; pfam05188 259536000789 MutS domain III; Region: MutS_III; pfam05192 259536000790 MutS domain V; Region: MutS_V; pfam00488 259536000791 Walker A/P-loop; other site 259536000792 ATP binding site [chemical binding]; other site 259536000793 Q-loop/lid; other site 259536000794 ABC transporter signature motif; other site 259536000795 Walker B; other site 259536000796 D-loop; other site 259536000797 H-loop/switch region; other site 259536000798 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 259536000799 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 259536000800 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 259536000801 SEC-C motif; Region: SEC-C; pfam02810 259536000802 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 259536000803 PRC-barrel domain; Region: PRC; pfam05239 259536000804 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 259536000805 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 259536000806 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 259536000807 dimer interface [polypeptide binding]; other site 259536000808 active site 259536000809 homoserine dehydrogenase; Provisional; Region: PRK06349 259536000810 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 259536000811 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 259536000812 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 259536000813 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 259536000814 dimerization domain [polypeptide binding]; other site 259536000815 dimer interface [polypeptide binding]; other site 259536000816 catalytic residues [active] 259536000817 Protein of unknown function (DUF808); Region: DUF808; pfam05661 259536000818 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 259536000819 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 259536000820 homodimer interface [polypeptide binding]; other site 259536000821 oligonucleotide binding site [chemical binding]; other site 259536000822 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 259536000823 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 259536000824 RNA binding surface [nucleotide binding]; other site 259536000825 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 259536000826 active site 259536000827 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 259536000828 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 259536000829 motif II; other site 259536000830 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 259536000831 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 259536000832 G1 box; other site 259536000833 GTP/Mg2+ binding site [chemical binding]; other site 259536000834 Switch I region; other site 259536000835 G2 box; other site 259536000836 G3 box; other site 259536000837 Switch II region; other site 259536000838 G4 box; other site 259536000839 G5 box; other site 259536000840 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 259536000841 Cytochrome c553 [Energy production and conversion]; Region: COG2863 259536000842 Cytochrome c; Region: Cytochrom_C; cl11414 259536000843 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 259536000844 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 259536000845 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 259536000846 ferric uptake regulator; Provisional; Region: fur; PRK09462 259536000847 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 259536000848 metal binding site 2 [ion binding]; metal-binding site 259536000849 putative DNA binding helix; other site 259536000850 metal binding site 1 [ion binding]; metal-binding site 259536000851 dimer interface [polypeptide binding]; other site 259536000852 structural Zn2+ binding site [ion binding]; other site 259536000853 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 259536000854 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 259536000855 ATP binding site [chemical binding]; other site 259536000856 Walker B motif; other site 259536000857 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 259536000858 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 259536000859 Walker A motif; other site 259536000860 ATP binding site [chemical binding]; other site 259536000861 Walker B motif; other site 259536000862 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 259536000863 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 259536000864 catalytic residue [active] 259536000865 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 259536000866 Domain of unknown function DUF21; Region: DUF21; pfam01595 259536000867 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 259536000868 Transporter associated domain; Region: CorC_HlyC; smart01091 259536000869 NAD synthetase; Provisional; Region: PRK13981 259536000870 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 259536000871 multimer interface [polypeptide binding]; other site 259536000872 active site 259536000873 catalytic triad [active] 259536000874 protein interface 1 [polypeptide binding]; other site 259536000875 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 259536000876 homodimer interface [polypeptide binding]; other site 259536000877 NAD binding pocket [chemical binding]; other site 259536000878 ATP binding pocket [chemical binding]; other site 259536000879 Mg binding site [ion binding]; other site 259536000880 active-site loop [active] 259536000881 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 259536000882 Domain of unknown function DUF20; Region: UPF0118; pfam01594 259536000883 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 259536000884 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 259536000885 ligand binding site [chemical binding]; other site 259536000886 NAD binding site [chemical binding]; other site 259536000887 catalytic site [active] 259536000888 homodimer interface [polypeptide binding]; other site 259536000889 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 259536000890 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 259536000891 motif 1; other site 259536000892 dimer interface [polypeptide binding]; other site 259536000893 active site 259536000894 motif 2; other site 259536000895 motif 3; other site 259536000896 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 259536000897 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 259536000898 ATP-grasp domain; Region: ATP-grasp; pfam02222 259536000899 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 259536000900 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 259536000901 active site 259536000902 metal binding site [ion binding]; metal-binding site 259536000903 Rhomboid family; Region: Rhomboid; cl11446 259536000904 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 259536000905 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 259536000906 ligand binding site [chemical binding]; other site 259536000907 beta-hexosaminidase; Provisional; Region: PRK05337 259536000908 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 259536000909 carboxy-terminal protease; Provisional; Region: PRK11186 259536000910 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 259536000911 protein binding site [polypeptide binding]; other site 259536000912 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 259536000913 Catalytic dyad [active] 259536000914 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 259536000915 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 259536000916 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 259536000917 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 259536000918 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 259536000919 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 259536000920 Domain of unknown function (DUF305); Region: DUF305; pfam03713 259536000921 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 259536000922 active site 259536000923 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 259536000924 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 259536000925 Protein of unknown function, DUF482; Region: DUF482; pfam04339 259536000926 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 259536000927 Chorismate lyase; Region: Chor_lyase; cl01230 259536000928 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 259536000929 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 259536000930 dimer interface [polypeptide binding]; other site 259536000931 active site 259536000932 glycine-pyridoxal phosphate binding site [chemical binding]; other site 259536000933 folate binding site [chemical binding]; other site 259536000934 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 259536000935 putative RNAase interaction site [polypeptide binding]; other site 259536000936 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 259536000937 DNA-binding site [nucleotide binding]; DNA binding site 259536000938 RNA-binding motif; other site 259536000939 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 259536000940 active site 259536000941 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 259536000942 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 259536000943 putative catalytic cysteine [active] 259536000944 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 259536000945 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536000946 Walker A/P-loop; other site 259536000947 ATP binding site [chemical binding]; other site 259536000948 Q-loop/lid; other site 259536000949 ABC transporter signature motif; other site 259536000950 Walker B; other site 259536000951 D-loop; other site 259536000952 H-loop/switch region; other site 259536000953 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 259536000954 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 259536000955 substrate binding pocket [chemical binding]; other site 259536000956 membrane-bound complex binding site; other site 259536000957 hinge residues; other site 259536000958 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 259536000959 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 259536000960 substrate binding pocket [chemical binding]; other site 259536000961 membrane-bound complex binding site; other site 259536000962 hinge residues; other site 259536000963 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 259536000964 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 259536000965 dimer interface [polypeptide binding]; other site 259536000966 conserved gate region; other site 259536000967 putative PBP binding loops; other site 259536000968 ABC-ATPase subunit interface; other site 259536000969 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 259536000970 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 259536000971 dimer interface [polypeptide binding]; other site 259536000972 conserved gate region; other site 259536000973 putative PBP binding loops; other site 259536000974 ABC-ATPase subunit interface; other site 259536000975 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 259536000976 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 259536000977 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 259536000978 PGAP1-like protein; Region: PGAP1; pfam07819 259536000979 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 259536000980 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 259536000981 dimerization interface [polypeptide binding]; other site 259536000982 domain crossover interface; other site 259536000983 redox-dependent activation switch; other site 259536000984 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 259536000985 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 259536000986 substrate binding pocket [chemical binding]; other site 259536000987 membrane-bound complex binding site; other site 259536000988 hinge residues; other site 259536000989 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 259536000990 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 259536000991 dimer interface [polypeptide binding]; other site 259536000992 conserved gate region; other site 259536000993 putative PBP binding loops; other site 259536000994 ABC-ATPase subunit interface; other site 259536000995 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 259536000996 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 259536000997 dimer interface [polypeptide binding]; other site 259536000998 conserved gate region; other site 259536000999 putative PBP binding loops; other site 259536001000 ABC-ATPase subunit interface; other site 259536001001 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 259536001002 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 259536001003 Walker A/P-loop; other site 259536001004 ATP binding site [chemical binding]; other site 259536001005 Q-loop/lid; other site 259536001006 ABC transporter signature motif; other site 259536001007 Walker B; other site 259536001008 D-loop; other site 259536001009 H-loop/switch region; other site 259536001010 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 259536001011 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 259536001012 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 259536001013 AMP-binding domain protein; Validated; Region: PRK08315 259536001014 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 259536001015 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 259536001016 acyl-activating enzyme (AAE) consensus motif; other site 259536001017 putative AMP binding site [chemical binding]; other site 259536001018 putative active site [active] 259536001019 putative CoA binding site [chemical binding]; other site 259536001020 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 259536001021 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 259536001022 enoyl-CoA hydratase; Provisional; Region: PRK05995 259536001023 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 259536001024 substrate binding site [chemical binding]; other site 259536001025 oxyanion hole (OAH) forming residues; other site 259536001026 trimer interface [polypeptide binding]; other site 259536001027 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 259536001028 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 259536001029 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 259536001030 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 259536001031 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 259536001032 carboxyltransferase (CT) interaction site; other site 259536001033 biotinylation site [posttranslational modification]; other site 259536001034 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 259536001035 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 259536001036 active site 259536001037 catalytic residues [active] 259536001038 metal binding site [ion binding]; metal-binding site 259536001039 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 259536001040 isovaleryl-CoA dehydrogenase; Region: PLN02519 259536001041 substrate binding site [chemical binding]; other site 259536001042 FAD binding site [chemical binding]; other site 259536001043 catalytic base [active] 259536001044 pantothenate kinase; Reviewed; Region: PRK13322 259536001045 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 259536001046 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 259536001047 conserved hypothetical protein; Signal predicted by SignalP 2.0 HMM (Signal peptide probabilty 0.662) with cleavage site probability 0.497 at residue 23 259536001048 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 259536001049 AAA domain; Region: AAA_23; pfam13476 259536001050 Walker A/P-loop; other site 259536001051 ATP binding site [chemical binding]; other site 259536001052 Q-loop/lid; other site 259536001053 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 259536001054 ABC transporter signature motif; other site 259536001055 Walker B; other site 259536001056 D-loop; other site 259536001057 H-loop/switch region; other site 259536001058 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 259536001059 FtsZ protein binding site [polypeptide binding]; other site 259536001060 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 259536001061 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 259536001062 nucleotide binding pocket [chemical binding]; other site 259536001063 K-X-D-G motif; other site 259536001064 catalytic site [active] 259536001065 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 259536001066 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 259536001067 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 259536001068 DNA binding site [nucleotide binding] 259536001069 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 259536001070 Dimer interface [polypeptide binding]; other site 259536001071 Putative addiction module component; Region: Unstab_antitox; cl09921 259536001072 hypothetical protein; Provisional; Region: PRK01254 259536001073 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 259536001074 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 259536001075 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 259536001076 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 259536001077 SmpB-tmRNA interface; other site 259536001078 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 259536001079 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 259536001080 active site 259536001081 (T/H)XGH motif; other site 259536001082 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 259536001083 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 259536001084 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 259536001085 inhibitor-cofactor binding pocket; inhibition site 259536001086 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536001087 catalytic residue [active] 259536001088 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 259536001089 AAA domain; Region: AAA_26; pfam13500 259536001090 GTP-binding protein LepA; Provisional; Region: PRK05433 259536001091 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 259536001092 G1 box; other site 259536001093 putative GEF interaction site [polypeptide binding]; other site 259536001094 GTP/Mg2+ binding site [chemical binding]; other site 259536001095 Switch I region; other site 259536001096 G2 box; other site 259536001097 G3 box; other site 259536001098 Switch II region; other site 259536001099 G4 box; other site 259536001100 G5 box; other site 259536001101 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 259536001102 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 259536001103 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 259536001104 signal peptidase I; Provisional; Region: PRK10861 259536001105 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 259536001106 Catalytic site [active] 259536001107 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 259536001108 ribonuclease III; Reviewed; Region: rnc; PRK00102 259536001109 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 259536001110 dimerization interface [polypeptide binding]; other site 259536001111 active site 259536001112 metal binding site [ion binding]; metal-binding site 259536001113 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 259536001114 dsRNA binding site [nucleotide binding]; other site 259536001115 GTPase Era; Reviewed; Region: era; PRK00089 259536001116 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 259536001117 G1 box; other site 259536001118 GTP/Mg2+ binding site [chemical binding]; other site 259536001119 Switch I region; other site 259536001120 G2 box; other site 259536001121 Switch II region; other site 259536001122 G3 box; other site 259536001123 G4 box; other site 259536001124 G5 box; other site 259536001125 KH domain; Region: KH_2; pfam07650 259536001126 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 259536001127 Recombination protein O N terminal; Region: RecO_N; pfam11967 259536001128 Recombination protein O C terminal; Region: RecO_C; pfam02565 259536001129 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 259536001130 active site 259536001131 hydrophilic channel; other site 259536001132 dimerization interface [polypeptide binding]; other site 259536001133 catalytic residues [active] 259536001134 active site lid [active] 259536001135 Type II transport protein GspH; Region: GspH; pfam12019 259536001136 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 259536001137 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 259536001138 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 259536001139 ligand binding site [chemical binding]; other site 259536001140 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 259536001141 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 259536001142 G1 box; other site 259536001143 putative GEF interaction site [polypeptide binding]; other site 259536001144 GTP/Mg2+ binding site [chemical binding]; other site 259536001145 Switch I region; other site 259536001146 G2 box; other site 259536001147 G3 box; other site 259536001148 Switch II region; other site 259536001149 G4 box; other site 259536001150 G5 box; other site 259536001151 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 259536001152 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 259536001153 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 259536001154 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 259536001155 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 259536001156 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 259536001157 DNA binding site [nucleotide binding] 259536001158 catalytic residue [active] 259536001159 H2TH interface [polypeptide binding]; other site 259536001160 putative catalytic residues [active] 259536001161 turnover-facilitating residue; other site 259536001162 intercalation triad [nucleotide binding]; other site 259536001163 8OG recognition residue [nucleotide binding]; other site 259536001164 putative reading head residues; other site 259536001165 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 259536001166 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 259536001167 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 259536001168 HD domain; Region: HD_4; pfam13328 259536001169 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 259536001170 synthetase active site [active] 259536001171 NTP binding site [chemical binding]; other site 259536001172 metal binding site [ion binding]; metal-binding site 259536001173 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 259536001174 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 259536001175 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 259536001176 TRAM domain; Region: TRAM; cl01282 259536001177 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 259536001178 S-adenosylmethionine binding site [chemical binding]; other site 259536001179 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 259536001180 active site 259536001181 catalytic site [active] 259536001182 substrate binding site [chemical binding]; other site 259536001183 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 259536001184 cysteine synthase B; Region: cysM; TIGR01138 259536001185 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 259536001186 dimer interface [polypeptide binding]; other site 259536001187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536001188 catalytic residue [active] 259536001189 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 259536001190 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 259536001191 dimer interface [polypeptide binding]; other site 259536001192 phosphorylation site [posttranslational modification] 259536001193 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 259536001194 ATP binding site [chemical binding]; other site 259536001195 Mg2+ binding site [ion binding]; other site 259536001196 G-X-G motif; other site 259536001197 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 259536001198 cheY-homologous receiver domain; Region: REC; smart00448 259536001199 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 259536001200 active site 259536001201 phosphorylation site [posttranslational modification] 259536001202 intermolecular recognition site; other site 259536001203 dimerization interface [polypeptide binding]; other site 259536001204 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 259536001205 enoyl-CoA hydratase; Provisional; Region: PRK07509 259536001206 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 259536001207 substrate binding site [chemical binding]; other site 259536001208 oxyanion hole (OAH) forming residues; other site 259536001209 trimer interface [polypeptide binding]; other site 259536001210 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 259536001211 putative transporter; Provisional; Region: PRK11043 259536001212 putative substrate translocation pore; other site 259536001213 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 259536001214 rRNA interaction site [nucleotide binding]; other site 259536001215 S8 interaction site; other site 259536001216 putative laminin-1 binding site; other site 259536001217 elongation factor Ts; Provisional; Region: tsf; PRK09377 259536001218 UBA/TS-N domain; Region: UBA; pfam00627 259536001219 Elongation factor TS; Region: EF_TS; pfam00889 259536001220 Elongation factor TS; Region: EF_TS; pfam00889 259536001221 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 259536001222 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 259536001223 N-acetyl-D-glucosamine binding site [chemical binding]; other site 259536001224 catalytic residue [active] 259536001225 LrgB-like family; Region: LrgB; cl00596 259536001226 LrgA family; Region: LrgA; cl00608 259536001227 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 259536001228 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 259536001229 HflX GTPase family; Region: HflX; cd01878 259536001230 G1 box; other site 259536001231 GTP/Mg2+ binding site [chemical binding]; other site 259536001232 Switch I region; other site 259536001233 G2 box; other site 259536001234 G3 box; other site 259536001235 Switch II region; other site 259536001236 G4 box; other site 259536001237 G5 box; other site 259536001238 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 259536001239 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 259536001240 putative acyl-acceptor binding pocket; other site 259536001241 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 259536001242 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 259536001243 active site 259536001244 catalytic tetrad [active] 259536001245 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 259536001246 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 259536001247 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 259536001248 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 259536001249 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 259536001250 Sel1-like repeats; Region: SEL1; smart00671 259536001251 Sel1-like repeats; Region: SEL1; smart00671 259536001252 Sel1-like repeats; Region: SEL1; smart00671 259536001253 Sel1-like repeats; Region: SEL1; smart00671 259536001254 Sel1-like repeats; Region: SEL1; smart00671 259536001255 Sel1-like repeats; Region: SEL1; smart00671 259536001256 Sel1-like repeats; Region: SEL1; smart00671 259536001257 Integrase core domain; Region: rve_3; cl15866 259536001258 lipoprotein signal peptidase; Provisional; Region: PRK14785 259536001259 lipoprotein signal peptidase; Provisional; Region: PRK14787 259536001260 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 259536001261 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 259536001262 active site 259536001263 HIGH motif; other site 259536001264 nucleotide binding site [chemical binding]; other site 259536001265 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 259536001266 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 259536001267 active site 259536001268 KMSKS motif; other site 259536001269 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 259536001270 tRNA binding surface [nucleotide binding]; other site 259536001271 anticodon binding site; other site 259536001272 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 259536001273 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 259536001274 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 259536001275 catalytic residues [active] 259536001276 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 259536001277 Predicted amidohydrolase [General function prediction only]; Region: COG0388 259536001278 putative active site [active] 259536001279 catalytic triad [active] 259536001280 putative dimer interface [polypeptide binding]; other site 259536001281 Sensors of blue-light using FAD; Region: BLUF; smart01034 259536001282 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 259536001283 FAD binding domain; Region: FAD_binding_4; pfam01565 259536001284 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 259536001285 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 259536001286 ligand binding site [chemical binding]; other site 259536001287 NAD binding site [chemical binding]; other site 259536001288 tetramer interface [polypeptide binding]; other site 259536001289 catalytic site [active] 259536001290 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 259536001291 L-serine binding site [chemical binding]; other site 259536001292 ACT domain interface; other site 259536001293 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 259536001294 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 259536001295 active site residue [active] 259536001296 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 259536001297 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 259536001298 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 259536001299 Sel1-like repeats; Region: SEL1; smart00671 259536001300 Sel1-like repeats; Region: SEL1; smart00671 259536001301 Methyltransferase domain; Region: Methyltransf_23; pfam13489 259536001302 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 259536001303 S-adenosylmethionine binding site [chemical binding]; other site 259536001304 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 259536001305 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 259536001306 Ferrochelatase; Region: Ferrochelatase; pfam00762 259536001307 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 259536001308 C-terminal domain interface [polypeptide binding]; other site 259536001309 active site 259536001310 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 259536001311 active site 259536001312 N-terminal domain interface [polypeptide binding]; other site 259536001313 DNA polymerase I; Provisional; Region: PRK05755 259536001314 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 259536001315 active site 259536001316 metal binding site 1 [ion binding]; metal-binding site 259536001317 putative 5' ssDNA interaction site; other site 259536001318 metal binding site 3; metal-binding site 259536001319 metal binding site 2 [ion binding]; metal-binding site 259536001320 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 259536001321 putative DNA binding site [nucleotide binding]; other site 259536001322 putative metal binding site [ion binding]; other site 259536001323 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 259536001324 active site 259536001325 catalytic site [active] 259536001326 substrate binding site [chemical binding]; other site 259536001327 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 259536001328 active site 259536001329 DNA binding site [nucleotide binding] 259536001330 catalytic site [active] 259536001331 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 259536001332 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 259536001333 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 259536001334 G1 box; other site 259536001335 putative GEF interaction site [polypeptide binding]; other site 259536001336 GTP/Mg2+ binding site [chemical binding]; other site 259536001337 Switch I region; other site 259536001338 G2 box; other site 259536001339 G3 box; other site 259536001340 Switch II region; other site 259536001341 G4 box; other site 259536001342 G5 box; other site 259536001343 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 259536001344 conserved hypothetical protein 259536001345 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 259536001346 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 259536001347 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 259536001348 phosphopeptide binding site; other site 259536001349 elongation factor Tu; Reviewed; Region: PRK00049 259536001350 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 259536001351 G1 box; other site 259536001352 GEF interaction site [polypeptide binding]; other site 259536001353 GTP/Mg2+ binding site [chemical binding]; other site 259536001354 Switch I region; other site 259536001355 G2 box; other site 259536001356 G3 box; other site 259536001357 Switch II region; other site 259536001358 G4 box; other site 259536001359 G5 box; other site 259536001360 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 259536001361 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 259536001362 Antibiotic Binding Site [chemical binding]; other site 259536001363 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 259536001364 Coenzyme A binding pocket [chemical binding]; other site 259536001365 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 259536001366 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 259536001367 DNA binding residues [nucleotide binding] 259536001368 dimer interface [polypeptide binding]; other site 259536001369 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 259536001370 thioredoxin reductase; Provisional; Region: PRK10262 259536001371 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 259536001372 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 259536001373 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 259536001374 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 259536001375 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 259536001376 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 259536001377 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 259536001378 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 259536001379 active site 259536001380 catalytic site [active] 259536001381 substrate binding site [chemical binding]; other site 259536001382 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 259536001383 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 259536001384 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 259536001385 metal binding triad; other site 259536001386 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 259536001387 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 259536001388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536001389 homodimer interface [polypeptide binding]; other site 259536001390 catalytic residue [active] 259536001391 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 259536001392 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 259536001393 metal binding triad; other site 259536001394 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 259536001395 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 259536001396 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 259536001397 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 259536001398 methionine aminopeptidase; Provisional; Region: PRK08671 259536001399 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 259536001400 active site 259536001401 possible tolB protein 259536001402 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 259536001403 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 259536001404 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 259536001405 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 259536001406 cofactor binding site; other site 259536001407 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 259536001408 DNA binding site [nucleotide binding] 259536001409 substrate interaction site [chemical binding]; other site 259536001410 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 259536001411 replicative DNA helicase; Provisional; Region: PRK05973 259536001412 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 259536001413 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 259536001414 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 259536001415 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 259536001416 substrate binding pocket [chemical binding]; other site 259536001417 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 259536001418 B12 binding site [chemical binding]; other site 259536001419 cobalt ligand [ion binding]; other site 259536001420 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 259536001421 Fasciclin domain; Region: Fasciclin; pfam02469 259536001422 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 259536001423 Fasciclin domain; Region: Fasciclin; pfam02469 259536001424 sodium/alanine symporter 259536001425 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 259536001426 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 259536001427 sodium/alanine symporter 259536001428 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 259536001429 Repair protein; Region: Repair_PSII; pfam04536 259536001430 Repair protein; Region: Repair_PSII; pfam04536 259536001431 type I restriction-modification system, M subunit 259536001432 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 259536001433 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 259536001434 probable type I restriction-modification system, subunit M (DNA methylase) 259536001435 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 259536001436 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 259536001437 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 259536001438 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 259536001439 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 259536001440 C-terminal domain interface [polypeptide binding]; other site 259536001441 GSH binding site (G-site) [chemical binding]; other site 259536001442 dimer interface [polypeptide binding]; other site 259536001443 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 259536001444 N-terminal domain interface [polypeptide binding]; other site 259536001445 dimer interface [polypeptide binding]; other site 259536001446 substrate binding pocket (H-site) [chemical binding]; other site 259536001447 Methyltransferase domain; Region: Methyltransf_31; pfam13847 259536001448 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 259536001449 S-adenosylmethionine binding site [chemical binding]; other site 259536001450 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 259536001451 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 259536001452 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 259536001453 malonyl-CoA binding site [chemical binding]; other site 259536001454 dimer interface [polypeptide binding]; other site 259536001455 active site 259536001456 product binding site; other site 259536001457 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 259536001458 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 259536001459 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 259536001460 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 259536001461 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 259536001462 ATP binding site [chemical binding]; other site 259536001463 putative Mg++ binding site [ion binding]; other site 259536001464 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 259536001465 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 259536001466 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536001467 Walker A/P-loop; other site 259536001468 ATP binding site [chemical binding]; other site 259536001469 Q-loop/lid; other site 259536001470 ABC transporter signature motif; other site 259536001471 Walker B; other site 259536001472 D-loop; other site 259536001473 H-loop/switch region; other site 259536001474 inner membrane transport permease; Provisional; Region: PRK15066 259536001475 7-cyano-7-deazaguanine reductase; Region: QueF; TIGR03138 259536001476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 259536001477 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 259536001478 prolyl-tRNA synthetase; Provisional; Region: PRK09194 259536001479 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 259536001480 dimer interface [polypeptide binding]; other site 259536001481 motif 1; other site 259536001482 active site 259536001483 motif 2; other site 259536001484 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 259536001485 putative deacylase active site [active] 259536001486 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 259536001487 active site 259536001488 motif 3; other site 259536001489 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 259536001490 anticodon binding site; other site 259536001491 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 259536001492 DNA photolyase; Region: DNA_photolyase; pfam00875 259536001493 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 259536001494 active site 259536001495 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 259536001496 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 259536001497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536001498 catalytic residue [active] 259536001499 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 259536001500 substrate binding site [chemical binding]; other site 259536001501 active site 259536001502 catalytic residues [active] 259536001503 heterodimer interface [polypeptide binding]; other site 259536001504 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 259536001505 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 259536001506 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 259536001507 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 259536001508 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 259536001509 Sporulation related domain; Region: SPOR; pfam05036 259536001510 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 259536001511 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 259536001512 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 259536001513 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 259536001514 active site 259536001515 metal binding site [ion binding]; metal-binding site 259536001516 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 259536001517 Phage-related protein, tail component [Function unknown]; Region: COG4733 259536001518 Putative phage tail protein; Region: Phage-tail_3; pfam13550 259536001519 Phage-related protein, tail component [Function unknown]; Region: COG4723 259536001520 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 259536001521 MPN+ (JAMM) motif; other site 259536001522 Zinc-binding site [ion binding]; other site 259536001523 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 259536001524 NlpC/P60 family; Region: NLPC_P60; cl17555 259536001525 Phage minor tail protein L; Region: Phage_tail_L; cl01908 259536001526 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 259536001527 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 259536001528 putative active site [active] 259536001529 putative NTP binding site [chemical binding]; other site 259536001530 putative nucleic acid binding site [nucleotide binding]; other site 259536001531 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 259536001532 Phage minor tail protein; Region: Phage_min_tail; pfam05939 259536001533 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 259536001534 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 259536001535 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 259536001536 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 259536001537 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 259536001538 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 259536001539 oligomerization interface [polypeptide binding]; other site 259536001540 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 259536001541 Phage capsid family; Region: Phage_capsid; pfam05065 259536001542 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 259536001543 Phage-related protein [Function unknown]; Region: COG4695; cl01923 259536001544 Phage portal protein; Region: Phage_portal; pfam04860 259536001545 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 259536001546 Phage terminase, small subunit; Region: Terminase_4; cl01525 259536001547 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 259536001548 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 259536001549 active site 259536001550 Phage associated DNA primase [General function prediction only]; Region: COG3378 259536001551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 259536001552 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 259536001553 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 259536001554 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 259536001555 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 259536001556 non-specific DNA binding site [nucleotide binding]; other site 259536001557 salt bridge; other site 259536001558 sequence-specific DNA binding site [nucleotide binding]; other site 259536001559 Predicted transcriptional regulator [Transcription]; Region: COG2932 259536001560 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 259536001561 Catalytic site [active] 259536001562 MRVI1 protein; Region: MRVI1; pfam05781 259536001563 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 259536001564 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 259536001565 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 259536001566 active site 259536001567 DNA binding site [nucleotide binding] 259536001568 Int/Topo IB signature motif; other site 259536001569 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 259536001570 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 259536001571 GatB domain; Region: GatB_Yqey; smart00845 259536001572 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 259536001573 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 259536001574 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 259536001575 rod shape-determining protein MreB; Provisional; Region: PRK13927 259536001576 MreB and similar proteins; Region: MreB_like; cd10225 259536001577 nucleotide binding site [chemical binding]; other site 259536001578 Mg binding site [ion binding]; other site 259536001579 putative protofilament interaction site [polypeptide binding]; other site 259536001580 RodZ interaction site [polypeptide binding]; other site 259536001581 rod shape-determining protein MreC; Provisional; Region: PRK13922 259536001582 rod shape-determining protein MreC; Region: MreC; pfam04085 259536001583 rod shape-determining protein MreD; Region: MreD; cl01087 259536001584 Maf-like protein; Region: Maf; pfam02545 259536001585 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 259536001586 active site 259536001587 dimer interface [polypeptide binding]; other site 259536001588 ribonuclease G; Provisional; Region: PRK11712 259536001589 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 259536001590 homodimer interface [polypeptide binding]; other site 259536001591 oligonucleotide binding site [chemical binding]; other site 259536001592 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 259536001593 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 259536001594 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 259536001595 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 259536001596 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 259536001597 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 259536001598 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 259536001599 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 259536001600 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 259536001601 putative translocon binding site; other site 259536001602 protein-rRNA interface [nucleotide binding]; other site 259536001603 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 259536001604 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 259536001605 G-X-X-G motif; other site 259536001606 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 259536001607 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 259536001608 23S rRNA interface [nucleotide binding]; other site 259536001609 5S rRNA interface [nucleotide binding]; other site 259536001610 putative antibiotic binding site [chemical binding]; other site 259536001611 L25 interface [polypeptide binding]; other site 259536001612 L27 interface [polypeptide binding]; other site 259536001613 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 259536001614 23S rRNA interface [nucleotide binding]; other site 259536001615 putative translocon interaction site; other site 259536001616 signal recognition particle (SRP54) interaction site; other site 259536001617 L23 interface [polypeptide binding]; other site 259536001618 trigger factor interaction site; other site 259536001619 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 259536001620 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 259536001621 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 259536001622 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 259536001623 RNA binding site [nucleotide binding]; other site 259536001624 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 259536001625 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 259536001626 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 259536001627 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 259536001628 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 259536001629 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 259536001630 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 259536001631 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 259536001632 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 259536001633 5S rRNA interface [nucleotide binding]; other site 259536001634 23S rRNA interface [nucleotide binding]; other site 259536001635 L5 interface [polypeptide binding]; other site 259536001636 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 259536001637 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 259536001638 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 259536001639 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 259536001640 23S rRNA binding site [nucleotide binding]; other site 259536001641 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 259536001642 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 259536001643 SecY translocase; Region: SecY; pfam00344 259536001644 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 259536001645 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 259536001646 30S ribosomal protein S13; Region: bact_S13; TIGR03631 259536001647 30S ribosomal protein S11; Validated; Region: PRK05309 259536001648 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 259536001649 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 259536001650 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 259536001651 RNA binding surface [nucleotide binding]; other site 259536001652 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 259536001653 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 259536001654 alphaNTD homodimer interface [polypeptide binding]; other site 259536001655 alphaNTD - beta interaction site [polypeptide binding]; other site 259536001656 alphaNTD - beta' interaction site [polypeptide binding]; other site 259536001657 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 259536001658 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 259536001659 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 259536001660 Protein of unknown function, DUF462; Region: DUF462; pfam04315 259536001661 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 259536001662 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 259536001663 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 259536001664 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 259536001665 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 259536001666 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 259536001667 NAD(P) binding site [chemical binding]; other site 259536001668 homotetramer interface [polypeptide binding]; other site 259536001669 homodimer interface [polypeptide binding]; other site 259536001670 active site 259536001671 acyl carrier protein; Provisional; Region: acpP; PRK00982 259536001672 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 259536001673 BON domain; Region: BON; pfam04972 259536001674 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 259536001675 epoxyqueuosine reductase; Region: TIGR00276 259536001676 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 259536001677 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 259536001678 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 259536001679 putative substrate binding site [chemical binding]; other site 259536001680 putative ATP binding site [chemical binding]; other site 259536001681 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 259536001682 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 259536001683 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 259536001684 PYR/PP interface [polypeptide binding]; other site 259536001685 dimer interface [polypeptide binding]; other site 259536001686 TPP binding site [chemical binding]; other site 259536001687 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 259536001688 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 259536001689 TPP-binding site [chemical binding]; other site 259536001690 dimer interface [polypeptide binding]; other site 259536001691 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 259536001692 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 259536001693 putative valine binding site [chemical binding]; other site 259536001694 dimer interface [polypeptide binding]; other site 259536001695 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 259536001696 ketol-acid reductoisomerase; Provisional; Region: PRK05479 259536001697 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 259536001698 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 259536001699 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 259536001700 DNA-binding site [nucleotide binding]; DNA binding site 259536001701 RNA-binding motif; other site 259536001702 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 259536001703 Ligand binding site [chemical binding]; other site 259536001704 Electron transfer flavoprotein domain; Region: ETF; pfam01012 259536001705 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 259536001706 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 259536001707 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 259536001708 Transposase, Mutator family; Region: Transposase_mut; pfam00872 259536001709 MULE transposase domain; Region: MULE; pfam10551 259536001710 Transcriptional regulator, LysR family 259536001711 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 259536001712 Transposase; Region: HTH_Tnp_1; pfam01527 259536001713 putative transposase OrfB; Reviewed; Region: PHA02517 259536001714 HTH-like domain; Region: HTH_21; pfam13276 259536001715 Integrase core domain; Region: rve; pfam00665 259536001716 Integrase core domain; Region: rve_3; pfam13683 259536001717 transposase 259536001718 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 259536001719 Transposase; Region: HTH_Tnp_1; pfam01527 259536001720 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 259536001721 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 259536001722 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 259536001723 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 259536001724 AMP binding site [chemical binding]; other site 259536001725 metal binding site [ion binding]; metal-binding site 259536001726 active site 259536001727 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 259536001728 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 259536001729 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 259536001730 dihydroorotase; Provisional; Region: PRK07369 259536001731 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 259536001732 active site 259536001733 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 259536001734 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 259536001735 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 259536001736 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 259536001737 Predicted membrane protein [Function unknown]; Region: COG4325 259536001738 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 259536001739 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 259536001740 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 259536001741 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 259536001742 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 259536001743 oligomerisation interface [polypeptide binding]; other site 259536001744 mobile loop; other site 259536001745 roof hairpin; other site 259536001746 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 259536001747 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 259536001748 ring oligomerisation interface [polypeptide binding]; other site 259536001749 ATP/Mg binding site [chemical binding]; other site 259536001750 stacking interactions; other site 259536001751 hinge regions; other site 259536001752 hypothetical protein; Validated; Region: PRK02101 259536001753 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 259536001754 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 259536001755 ligand binding site [chemical binding]; other site 259536001756 homodimer interface [polypeptide binding]; other site 259536001757 NAD(P) binding site [chemical binding]; other site 259536001758 trimer interface B [polypeptide binding]; other site 259536001759 trimer interface A [polypeptide binding]; other site 259536001760 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 259536001761 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 259536001762 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 259536001763 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 259536001764 active site 259536001765 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 259536001766 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 259536001767 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 259536001768 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 259536001769 metal binding site [ion binding]; metal-binding site 259536001770 dimer interface [polypeptide binding]; other site 259536001771 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 259536001772 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 259536001773 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 259536001774 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 259536001775 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 259536001776 AAA domain; Region: AAA_21; pfam13304 259536001777 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536001778 Walker B; other site 259536001779 D-loop; other site 259536001780 H-loop/switch region; other site 259536001781 OsmC-like protein; Region: OsmC; pfam02566 259536001782 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 259536001783 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 259536001784 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 259536001785 S-adenosylmethionine binding site [chemical binding]; other site 259536001786 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 259536001787 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 259536001788 hydroperoxidase II; Provisional; Region: katE; PRK11249 259536001789 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 259536001790 heme binding pocket [chemical binding]; other site 259536001791 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 259536001792 domain interactions; other site 259536001793 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 259536001794 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 259536001795 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 259536001796 Walker A/P-loop; other site 259536001797 ATP binding site [chemical binding]; other site 259536001798 Q-loop/lid; other site 259536001799 ABC transporter signature motif; other site 259536001800 Walker B; other site 259536001801 D-loop; other site 259536001802 H-loop/switch region; other site 259536001803 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 259536001804 FtsX-like permease family; Region: FtsX; pfam02687 259536001805 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 259536001806 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 259536001807 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 259536001808 HlyD family secretion protein; Region: HlyD_3; pfam13437 259536001809 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 259536001810 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 259536001811 Immunoglobulin domain; Region: Ig; cl11960 259536001812 Lipopolysaccharide-assembly; Region: LptE; cl01125 259536001813 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 259536001814 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 259536001815 HIGH motif; other site 259536001816 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 259536001817 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 259536001818 active site 259536001819 KMSKS motif; other site 259536001820 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 259536001821 tRNA binding surface [nucleotide binding]; other site 259536001822 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 259536001823 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 259536001824 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 259536001825 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 259536001826 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 259536001827 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 259536001828 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 259536001829 ArsC family; Region: ArsC; pfam03960 259536001830 putative catalytic residues [active] 259536001831 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 259536001832 feedback inhibition sensing region; other site 259536001833 homohexameric interface [polypeptide binding]; other site 259536001834 nucleotide binding site [chemical binding]; other site 259536001835 N-acetyl-L-glutamate binding site [chemical binding]; other site 259536001836 phosphoglucomutase/phosphomannomutase 259536001837 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 259536001838 trimer interface [polypeptide binding]; other site 259536001839 active site 259536001840 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 259536001841 MgtE intracellular N domain; Region: MgtE_N; pfam03448 259536001842 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 259536001843 Divalent cation transporter; Region: MgtE; pfam01769 259536001844 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 259536001845 Part of AAA domain; Region: AAA_19; pfam13245 259536001846 Family description; Region: UvrD_C_2; pfam13538 259536001847 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 259536001848 NADH dehydrogenase subunit B; Validated; Region: PRK06411 259536001849 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 259536001850 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 259536001851 NADH dehydrogenase subunit D; Validated; Region: PRK06075 259536001852 NADH dehydrogenase subunit E; Validated; Region: PRK07539 259536001853 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 259536001854 putative dimer interface [polypeptide binding]; other site 259536001855 [2Fe-2S] cluster binding site [ion binding]; other site 259536001856 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 259536001857 SLBB domain; Region: SLBB; pfam10531 259536001858 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 259536001859 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 259536001860 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 259536001861 catalytic loop [active] 259536001862 iron binding site [ion binding]; other site 259536001863 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 259536001864 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 259536001865 [4Fe-4S] binding site [ion binding]; other site 259536001866 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 259536001867 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 259536001868 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 259536001869 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 259536001870 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 259536001871 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 259536001872 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 259536001873 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 259536001874 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 259536001875 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 259536001876 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 259536001877 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 259536001878 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 259536001879 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 259536001880 ferredoxin-NADP reductase; Provisional; Region: PRK10926 259536001881 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 259536001882 FAD binding pocket [chemical binding]; other site 259536001883 FAD binding motif [chemical binding]; other site 259536001884 phosphate binding motif [ion binding]; other site 259536001885 beta-alpha-beta structure motif; other site 259536001886 NAD binding pocket [chemical binding]; other site 259536001887 putative transposase OrfB; Reviewed; Region: PHA02517 259536001888 HTH-like domain; Region: HTH_21; pfam13276 259536001889 Integrase core domain; Region: rve; pfam00665 259536001890 Integrase core domain; Region: rve_3; cl15866 259536001891 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 259536001892 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 259536001893 transcriptional regulator NarL; Provisional; Region: PRK10651 259536001894 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 259536001895 active site 259536001896 phosphorylation site [posttranslational modification] 259536001897 intermolecular recognition site; other site 259536001898 dimerization interface [polypeptide binding]; other site 259536001899 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 259536001900 DNA binding residues [nucleotide binding] 259536001901 dimerization interface [polypeptide binding]; other site 259536001902 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 259536001903 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 259536001904 HAMP domain; Region: HAMP; pfam00672 259536001905 Histidine kinase; Region: HisKA_3; pfam07730 259536001906 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 259536001907 ATP binding site [chemical binding]; other site 259536001908 Mg2+ binding site [ion binding]; other site 259536001909 G-X-G motif; other site 259536001910 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 259536001911 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 259536001912 putative substrate translocation pore; other site 259536001913 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 259536001914 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 259536001915 [4Fe-4S] binding site [ion binding]; other site 259536001916 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 259536001917 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 259536001918 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 259536001919 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 259536001920 molybdopterin cofactor binding site; other site 259536001921 nitrate reductase, beta subunit; Region: narH; TIGR01660 259536001922 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 259536001923 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 259536001924 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 259536001925 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 259536001926 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 259536001927 dimer interface [polypeptide binding]; other site 259536001928 putative functional site; other site 259536001929 putative MPT binding site; other site 259536001930 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 259536001931 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 259536001932 FeS/SAM binding site; other site 259536001933 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 259536001934 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 259536001935 MPT binding site; other site 259536001936 trimer interface [polypeptide binding]; other site 259536001937 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 259536001938 GTP binding site; other site 259536001939 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 259536001940 trimer interface [polypeptide binding]; other site 259536001941 dimer interface [polypeptide binding]; other site 259536001942 putative active site [active] 259536001943 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 259536001944 MoaE interaction surface [polypeptide binding]; other site 259536001945 MoeB interaction surface [polypeptide binding]; other site 259536001946 thiocarboxylated glycine; other site 259536001947 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 259536001948 MoaE homodimer interface [polypeptide binding]; other site 259536001949 MoaD interaction [polypeptide binding]; other site 259536001950 active site residues [active] 259536001951 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 259536001952 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 259536001953 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 259536001954 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 259536001955 dimer interface [polypeptide binding]; other site 259536001956 conserved gate region; other site 259536001957 putative PBP binding loops; other site 259536001958 ABC-ATPase subunit interface; other site 259536001959 Copper resistance protein D; Region: CopD; cl00563 259536001960 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 259536001961 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 259536001962 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 259536001963 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 259536001964 catalytic residues [active] 259536001965 probable Transposase, IS4 259536001966 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 259536001967 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 259536001968 Mechanosensitive ion channel; Region: MS_channel; pfam00924 259536001969 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 259536001970 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 259536001971 PhoH-like protein; Region: PhoH; pfam02562 259536001972 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 259536001973 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 259536001974 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 259536001975 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 259536001976 Predicted membrane protein [Function unknown]; Region: COG2431 259536001977 L-aspartate oxidase; Provisional; Region: PRK06175 259536001978 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 259536001979 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 259536001980 quinolinate synthetase; Provisional; Region: PRK09375 259536001981 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 259536001982 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 259536001983 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 259536001984 dimerization interface [polypeptide binding]; other site 259536001985 active site 259536001986 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 259536001987 Transposase; Region: HTH_Tnp_1; pfam01527 259536001988 Integrase core domain; Region: rve; pfam00665 259536001989 Integrase core domain; Region: rve_3; pfam13683 259536001990 Acyltransferase family; Region: Acyl_transf_3; pfam01757 259536001991 Transposase; Region: HTH_Tnp_1; pfam01527 259536001992 Integrase core domain; Region: rve; pfam00665 259536001993 Integrase core domain; Region: rve_3; pfam13683 259536001994 Predicted membrane protein [Function unknown]; Region: COG2246 259536001995 GtrA-like protein; Region: GtrA; pfam04138 259536001996 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 259536001997 Ligand binding site; other site 259536001998 Putative Catalytic site; other site 259536001999 DXD motif; other site 259536002000 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 259536002001 Transposase; Region: HTH_Tnp_1; cl17663 259536002002 putative transposase OrfB; Reviewed; Region: PHA02517 259536002003 HTH-like domain; Region: HTH_21; pfam13276 259536002004 Integrase core domain; Region: rve; pfam00665 259536002005 Integrase core domain; Region: rve_3; cl15866 259536002006 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 259536002007 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 259536002008 RNA binding surface [nucleotide binding]; other site 259536002009 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 259536002010 probable active site [active] 259536002011 polysaccharide export protein Wza; Provisional; Region: PRK15078 259536002012 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 259536002013 Low molecular weight phosphatase family; Region: LMWPc; cd00115 259536002014 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 259536002015 active site 259536002016 tyrosine kinase; Provisional; Region: PRK11519 259536002017 Chain length determinant protein; Region: Wzz; pfam02706 259536002018 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 259536002019 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 259536002020 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 259536002021 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 259536002022 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 259536002023 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 259536002024 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 259536002025 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 259536002026 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 259536002027 NAD binding site [chemical binding]; other site 259536002028 substrate binding site [chemical binding]; other site 259536002029 homodimer interface [polypeptide binding]; other site 259536002030 active site 259536002031 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 259536002032 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536002033 Walker A/P-loop; other site 259536002034 ATP binding site [chemical binding]; other site 259536002035 Q-loop/lid; other site 259536002036 ABC transporter signature motif; other site 259536002037 Walker B; other site 259536002038 D-loop; other site 259536002039 H-loop/switch region; other site 259536002040 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 259536002041 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 259536002042 NAD(P) binding site [chemical binding]; other site 259536002043 homodimer interface [polypeptide binding]; other site 259536002044 substrate binding site [chemical binding]; other site 259536002045 active site 259536002046 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 259536002047 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 259536002048 inhibitor-cofactor binding pocket; inhibition site 259536002049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536002050 catalytic residue [active] 259536002051 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 259536002052 active site 259536002053 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 259536002054 ligand binding site; other site 259536002055 tetramer interface; other site 259536002056 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 259536002057 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 259536002058 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 259536002059 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 259536002060 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_1; cd08821 259536002061 putative active site [active] 259536002062 putative substrate binding site [chemical binding]; other site 259536002063 putative cosubstrate binding site; other site 259536002064 catalytic site [active] 259536002065 pseudaminic acid synthase; Region: PseI; TIGR03586 259536002066 NeuB family; Region: NeuB; pfam03102 259536002067 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 259536002068 NeuB binding interface [polypeptide binding]; other site 259536002069 putative substrate binding site [chemical binding]; other site 259536002070 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 259536002071 NeuB family; Region: NeuB; pfam03102 259536002072 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 259536002073 NeuB binding interface [polypeptide binding]; other site 259536002074 putative substrate binding site [chemical binding]; other site 259536002075 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 259536002076 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 259536002077 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 259536002078 putative ADP-binding pocket [chemical binding]; other site 259536002079 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 259536002080 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 259536002081 active site 259536002082 dimer interface [polypeptide binding]; other site 259536002083 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 259536002084 Ligand Binding Site [chemical binding]; other site 259536002085 Molecular Tunnel; other site 259536002086 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 259536002087 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 259536002088 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 259536002089 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 259536002090 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 259536002091 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 259536002092 active site 259536002093 dimer interface [polypeptide binding]; other site 259536002094 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 259536002095 Ligand Binding Site [chemical binding]; other site 259536002096 Molecular Tunnel; other site 259536002097 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 259536002098 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 259536002099 putative ADP-binding pocket [chemical binding]; other site 259536002100 Bacterial sugar transferase; Region: Bac_transf; pfam02397 259536002101 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 259536002102 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 259536002103 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 259536002104 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 259536002105 homodimer interface [polypeptide binding]; other site 259536002106 NADP binding site [chemical binding]; other site 259536002107 substrate binding site [chemical binding]; other site 259536002108 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 259536002109 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 259536002110 oligomer interface [polypeptide binding]; other site 259536002111 metal binding site [ion binding]; metal-binding site 259536002112 metal binding site [ion binding]; metal-binding site 259536002113 putative Cl binding site [ion binding]; other site 259536002114 basic sphincter; other site 259536002115 hydrophobic gate; other site 259536002116 periplasmic entrance; other site 259536002117 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 259536002118 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 259536002119 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 259536002120 dimer interface [polypeptide binding]; other site 259536002121 motif 1; other site 259536002122 active site 259536002123 motif 2; other site 259536002124 motif 3; other site 259536002125 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 259536002126 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 259536002127 GDP-binding site [chemical binding]; other site 259536002128 ACT binding site; other site 259536002129 IMP binding site; other site 259536002130 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 259536002131 active site 259536002132 multimer interface [polypeptide binding]; other site 259536002133 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 259536002134 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 259536002135 FeS/SAM binding site; other site 259536002136 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 259536002137 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 259536002138 binding surface 259536002139 TPR motif; other site 259536002140 Helix-turn-helix domain; Region: HTH_25; pfam13413 259536002141 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 259536002142 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 259536002143 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 259536002144 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 259536002145 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 259536002146 dimer interface [polypeptide binding]; other site 259536002147 motif 1; other site 259536002148 active site 259536002149 motif 2; other site 259536002150 motif 3; other site 259536002151 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 259536002152 anticodon binding site; other site 259536002153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 259536002154 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 259536002155 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 259536002156 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 259536002157 Trp docking motif [polypeptide binding]; other site 259536002158 active site 259536002159 GTP-binding protein Der; Reviewed; Region: PRK00093 259536002160 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 259536002161 G1 box; other site 259536002162 GTP/Mg2+ binding site [chemical binding]; other site 259536002163 Switch I region; other site 259536002164 G2 box; other site 259536002165 Switch II region; other site 259536002166 G3 box; other site 259536002167 G4 box; other site 259536002168 G5 box; other site 259536002169 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 259536002170 G1 box; other site 259536002171 GTP/Mg2+ binding site [chemical binding]; other site 259536002172 Switch I region; other site 259536002173 G2 box; other site 259536002174 G3 box; other site 259536002175 Switch II region; other site 259536002176 G4 box; other site 259536002177 G5 box; other site 259536002178 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 259536002179 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 259536002180 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 259536002181 amidase; Provisional; Region: PRK07869 259536002182 Survival protein SurE; Region: SurE; cl00448 259536002183 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 259536002184 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 259536002185 Peptidase family M23; Region: Peptidase_M23; pfam01551 259536002186 Transglycosylase SLT domain; Region: SLT_2; pfam13406 259536002187 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 259536002188 N-acetyl-D-glucosamine binding site [chemical binding]; other site 259536002189 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 259536002190 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 259536002191 putative active site [active] 259536002192 putative metal binding site [ion binding]; other site 259536002193 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 259536002194 substrate binding site [chemical binding]; other site 259536002195 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 259536002196 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 259536002197 active site 259536002198 HIGH motif; other site 259536002199 nucleotide binding site [chemical binding]; other site 259536002200 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 259536002201 KMSKS motif; other site 259536002202 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 259536002203 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 259536002204 PLD-like domain; Region: PLDc_2; pfam13091 259536002205 putative homodimer interface [polypeptide binding]; other site 259536002206 putative active site [active] 259536002207 catalytic site [active] 259536002208 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 259536002209 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 259536002210 dimer interface [polypeptide binding]; other site 259536002211 decamer (pentamer of dimers) interface [polypeptide binding]; other site 259536002212 catalytic triad [active] 259536002213 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 259536002214 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 259536002215 putative C-terminal domain interface [polypeptide binding]; other site 259536002216 putative GSH binding site (G-site) [chemical binding]; other site 259536002217 putative dimer interface [polypeptide binding]; other site 259536002218 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 259536002219 N-terminal domain interface [polypeptide binding]; other site 259536002220 dimer interface [polypeptide binding]; other site 259536002221 substrate binding pocket (H-site) [chemical binding]; other site 259536002222 META domain; Region: META; pfam03724 259536002223 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 259536002224 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 259536002225 active site 259536002226 putative DNA-binding cleft [nucleotide binding]; other site 259536002227 dimer interface [polypeptide binding]; other site 259536002228 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 259536002229 phosphoglyceromutase; Provisional; Region: PRK05434 259536002230 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 259536002231 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 259536002232 C-terminal peptidase (prc); Region: prc; TIGR00225 259536002233 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 259536002234 protein binding site [polypeptide binding]; other site 259536002235 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 259536002236 Catalytic dyad [active] 259536002237 response regulator; Provisional; Region: PRK09483 259536002238 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 259536002239 active site 259536002240 phosphorylation site [posttranslational modification] 259536002241 intermolecular recognition site; other site 259536002242 dimerization interface [polypeptide binding]; other site 259536002243 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 259536002244 DNA binding residues [nucleotide binding] 259536002245 dimerization interface [polypeptide binding]; other site 259536002246 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 259536002247 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 259536002248 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 259536002249 thiamine phosphate binding site [chemical binding]; other site 259536002250 active site 259536002251 pyrophosphate binding site [ion binding]; other site 259536002252 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 259536002253 Phosphoglycerate kinase; Region: PGK; pfam00162 259536002254 substrate binding site [chemical binding]; other site 259536002255 hinge regions; other site 259536002256 ADP binding site [chemical binding]; other site 259536002257 catalytic site [active] 259536002258 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 259536002259 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 259536002260 intersubunit interface [polypeptide binding]; other site 259536002261 active site 259536002262 zinc binding site [ion binding]; other site 259536002263 Na+ binding site [ion binding]; other site 259536002264 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 259536002265 RuvA N terminal domain; Region: RuvA_N; pfam01330 259536002266 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 259536002267 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 259536002268 Walker A motif; other site 259536002269 ATP binding site [chemical binding]; other site 259536002270 Walker B motif; other site 259536002271 arginine finger; other site 259536002272 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 259536002273 ABC1 family; Region: ABC1; cl17513 259536002274 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 259536002275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 259536002276 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 259536002277 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 259536002278 S-adenosylmethionine binding site [chemical binding]; other site 259536002279 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 259536002280 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 259536002281 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 259536002282 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 259536002283 Protein of unknown function (DUF1307); Region: DUF1307; cl01981 259536002284 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 259536002285 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 259536002286 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 259536002287 non-specific DNA binding site [nucleotide binding]; other site 259536002288 salt bridge; other site 259536002289 sequence-specific DNA binding site [nucleotide binding]; other site 259536002290 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 259536002291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536002292 homodimer interface [polypeptide binding]; other site 259536002293 catalytic residue [active] 259536002294 methionine sulfoxide reductase B; Provisional; Region: PRK00222 259536002295 SelR domain; Region: SelR; pfam01641 259536002296 Cache domain; Region: Cache_1; pfam02743 259536002297 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 259536002298 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 259536002299 dimer interface [polypeptide binding]; other site 259536002300 phosphorylation site [posttranslational modification] 259536002301 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 259536002302 ATP binding site [chemical binding]; other site 259536002303 Mg2+ binding site [ion binding]; other site 259536002304 G-X-G motif; other site 259536002305 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 259536002306 Response regulator receiver domain; Region: Response_reg; pfam00072 259536002307 active site 259536002308 phosphorylation site [posttranslational modification] 259536002309 intermolecular recognition site; other site 259536002310 dimerization interface [polypeptide binding]; other site 259536002311 Response regulator receiver domain; Region: Response_reg; pfam00072 259536002312 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 259536002313 active site 259536002314 phosphorylation site [posttranslational modification] 259536002315 intermolecular recognition site; other site 259536002316 transposase OrfA protein of insertion sequence IS629 259536002317 transposase OrfA protein of insertion sequence IS629; Mutation has created stop codon after amino acid 66 259536002319 possible transposase 259536002320 possible transposase 259536002321 BCCT family transporter; Region: BCCT; cl00569 259536002322 choline dehydrogenase; Validated; Region: PRK02106 259536002323 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 259536002324 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 259536002325 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 259536002326 NAD(P) binding site [chemical binding]; other site 259536002327 catalytic residues [active] 259536002328 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 259536002329 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 259536002330 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 259536002331 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 259536002332 DHH family; Region: DHH; pfam01368 259536002333 DHHA1 domain; Region: DHHA1; pfam02272 259536002334 Predicted membrane protein [Function unknown]; Region: COG2860 259536002335 UPF0126 domain; Region: UPF0126; pfam03458 259536002336 UPF0126 domain; Region: UPF0126; pfam03458 259536002337 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 259536002338 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 259536002339 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 259536002340 FeS/SAM binding site; other site 259536002341 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 259536002342 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 259536002343 active site 259536002344 substrate binding site [chemical binding]; other site 259536002345 trimer interface [polypeptide binding]; other site 259536002346 CoA binding site [chemical binding]; other site 259536002347 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 259536002348 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 259536002349 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 259536002350 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 259536002351 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 259536002352 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 259536002353 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 259536002354 S-adenosylmethionine binding site [chemical binding]; other site 259536002355 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 259536002356 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 259536002357 excinuclease ABC subunit B; Provisional; Region: PRK05298 259536002358 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 259536002359 ATP binding site [chemical binding]; other site 259536002360 putative Mg++ binding site [ion binding]; other site 259536002361 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 259536002362 nucleotide binding region [chemical binding]; other site 259536002363 ATP-binding site [chemical binding]; other site 259536002364 Ultra-violet resistance protein B; Region: UvrB; pfam12344 259536002365 UvrB/uvrC motif; Region: UVR; pfam02151 259536002366 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 259536002367 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 259536002368 substrate binding pocket [chemical binding]; other site 259536002369 membrane-bound complex binding site; other site 259536002370 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 259536002371 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 259536002372 DctM-like transporters; Region: DctM; pfam06808 259536002373 lipoyl synthase; Provisional; Region: PRK05481 259536002374 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 259536002375 FeS/SAM binding site; other site 259536002376 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 259536002377 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 259536002378 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 259536002379 substrate binding site [chemical binding]; other site 259536002380 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 259536002381 substrate binding site [chemical binding]; other site 259536002382 ligand binding site [chemical binding]; other site 259536002383 transmembrane protein 259536002384 enoyl-CoA hydratase; Provisional; Region: PRK06688 259536002385 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 259536002386 substrate binding site [chemical binding]; other site 259536002387 oxyanion hole (OAH) forming residues; other site 259536002388 trimer interface [polypeptide binding]; other site 259536002389 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 259536002390 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 259536002391 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 259536002392 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 259536002393 active site 259536002394 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 259536002395 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 259536002396 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 259536002397 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 259536002398 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 259536002399 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 259536002400 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 259536002401 putative metal binding site [ion binding]; other site 259536002402 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 259536002403 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 259536002404 putative metal binding site [ion binding]; other site 259536002405 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 259536002406 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 259536002407 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 259536002408 putative metal binding site [ion binding]; other site 259536002409 hypothetical protein; Provisional; Region: PRK14013 259536002410 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 259536002411 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 259536002412 putative metal binding site [ion binding]; other site 259536002413 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 259536002414 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 259536002415 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 259536002416 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 259536002417 S-adenosylmethionine binding site [chemical binding]; other site 259536002418 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 259536002419 Mechanosensitive ion channel; Region: MS_channel; pfam00924 259536002420 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 259536002421 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 259536002422 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 259536002423 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 259536002424 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 259536002425 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 259536002426 catalytic triad [active] 259536002427 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 259536002428 Ligand Binding Site [chemical binding]; other site 259536002429 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 259536002430 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 259536002431 Ligand Binding Site [chemical binding]; other site 259536002432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 259536002433 FixH; Region: FixH; pfam05751 259536002434 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 259536002435 4Fe-4S binding domain; Region: Fer4_5; pfam12801 259536002436 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 259536002437 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 259536002438 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 259536002439 Cytochrome c; Region: Cytochrom_C; pfam00034 259536002440 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 259536002441 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 259536002442 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 259536002443 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 259536002444 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 259536002445 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 259536002446 Low-spin heme binding site [chemical binding]; other site 259536002447 Putative water exit pathway; other site 259536002448 Binuclear center (active site) [active] 259536002449 Putative proton exit pathway; other site 259536002450 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 259536002451 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 259536002452 FtsX-like permease family; Region: FtsX; pfam02687 259536002453 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 259536002454 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 259536002455 Walker A/P-loop; other site 259536002456 ATP binding site [chemical binding]; other site 259536002457 Q-loop/lid; other site 259536002458 ABC transporter signature motif; other site 259536002459 Walker B; other site 259536002460 D-loop; other site 259536002461 H-loop/switch region; other site 259536002462 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 259536002463 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 259536002464 Competence protein; Region: Competence; pfam03772 259536002465 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 259536002466 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 259536002467 tandem repeat interface [polypeptide binding]; other site 259536002468 oligomer interface [polypeptide binding]; other site 259536002469 active site residues [active] 259536002470 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 259536002471 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 259536002472 CAAX protease self-immunity; Region: Abi; pfam02517 259536002473 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 259536002474 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 259536002475 FMN binding site [chemical binding]; other site 259536002476 active site 259536002477 catalytic residues [active] 259536002478 substrate binding site [chemical binding]; other site 259536002479 metabolite-proton symporter; Region: 2A0106; TIGR00883 259536002480 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 259536002481 putative substrate translocation pore; other site 259536002482 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 259536002483 PLD-like domain; Region: PLDc_2; pfam13091 259536002484 putative active site [active] 259536002485 catalytic site [active] 259536002486 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 259536002487 PLD-like domain; Region: PLDc_2; pfam13091 259536002488 putative active site [active] 259536002489 catalytic site [active] 259536002490 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 259536002491 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 259536002492 homodimer interface [polypeptide binding]; other site 259536002493 substrate-cofactor binding pocket; other site 259536002494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536002495 catalytic residue [active] 259536002496 hypothetical protein; Validated; Region: PRK00153 259536002497 recombination protein RecR; Reviewed; Region: recR; PRK00076 259536002498 RecR protein; Region: RecR; pfam02132 259536002499 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 259536002500 putative active site [active] 259536002501 putative metal-binding site [ion binding]; other site 259536002502 tetramer interface [polypeptide binding]; other site 259536002503 ribonuclease D; Region: rnd; TIGR01388 259536002504 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 259536002505 catalytic site [active] 259536002506 putative active site [active] 259536002507 putative substrate binding site [chemical binding]; other site 259536002508 HRDC domain; Region: HRDC; pfam00570 259536002509 glycine dehydrogenase; Provisional; Region: PRK05367 259536002510 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 259536002511 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 259536002512 catalytic residue [active] 259536002513 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 259536002514 tetramer interface [polypeptide binding]; other site 259536002515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536002516 catalytic residue [active] 259536002517 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 259536002518 dimer interface [polypeptide binding]; other site 259536002519 FMN binding site [chemical binding]; other site 259536002520 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 259536002521 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 259536002522 lipoyl attachment site [posttranslational modification]; other site 259536002523 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 259536002524 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 259536002525 YcgL domain; Region: YcgL; pfam05166 259536002526 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 259536002527 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 259536002528 Walker A motif; other site 259536002529 ATP binding site [chemical binding]; other site 259536002530 Walker B motif; other site 259536002531 arginine finger; other site 259536002532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 259536002533 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 259536002534 Transcriptional regulator [Transcription]; Region: IclR; COG1414 259536002535 Bacterial transcriptional regulator; Region: IclR; pfam01614 259536002536 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 259536002537 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 259536002538 FAD binding site [chemical binding]; other site 259536002539 substrate binding pocket [chemical binding]; other site 259536002540 catalytic base [active] 259536002541 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 259536002542 CoA-transferase family III; Region: CoA_transf_3; pfam02515 259536002543 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 259536002544 Transcriptional regulator [Transcription]; Region: IclR; COG1414 259536002545 Bacterial transcriptional regulator; Region: IclR; pfam01614 259536002546 succinic semialdehyde dehydrogenase; Region: PLN02278 259536002547 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 259536002548 tetramerization interface [polypeptide binding]; other site 259536002549 NAD(P) binding site [chemical binding]; other site 259536002550 catalytic residues [active] 259536002551 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 259536002552 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 259536002553 inhibitor-cofactor binding pocket; inhibition site 259536002554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536002555 catalytic residue [active] 259536002556 amino acid transporter; Region: 2A0306; TIGR00909 259536002557 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 259536002558 putative ADP-binding pocket [chemical binding]; other site 259536002559 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 259536002560 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 259536002561 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 259536002562 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 259536002563 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 259536002564 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 259536002565 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 259536002566 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 259536002567 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 259536002568 ATP-grasp domain; Region: ATP-grasp_4; cl17255 259536002569 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 259536002570 IMP binding site; other site 259536002571 dimer interface [polypeptide binding]; other site 259536002572 interdomain contacts; other site 259536002573 partial ornithine binding site; other site 259536002574 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 259536002575 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 259536002576 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 259536002577 catalytic site [active] 259536002578 subunit interface [polypeptide binding]; other site 259536002579 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 259536002580 active site 259536002581 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 259536002582 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 259536002583 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 259536002584 trimer interface [polypeptide binding]; other site 259536002585 putative metal binding site [ion binding]; other site 259536002586 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 259536002587 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 259536002588 motif II; other site 259536002589 peptide chain release factor 2; Validated; Region: prfB; PRK00578 259536002590 This domain is found in peptide chain release factors; Region: PCRF; smart00937 259536002591 RF-1 domain; Region: RF-1; pfam00472 259536002592 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 259536002593 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 259536002594 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 259536002595 active site 259536002596 acyl-activating enzyme (AAE) consensus motif; other site 259536002597 putative CoA binding site [chemical binding]; other site 259536002598 AMP binding site [chemical binding]; other site 259536002599 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 259536002600 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 259536002601 NAD binding site [chemical binding]; other site 259536002602 homodimer interface [polypeptide binding]; other site 259536002603 homotetramer interface [polypeptide binding]; other site 259536002604 active site 259536002605 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 259536002606 Clp amino terminal domain; Region: Clp_N; pfam02861 259536002607 Clp amino terminal domain; Region: Clp_N; pfam02861 259536002608 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 259536002609 Walker A motif; other site 259536002610 ATP binding site [chemical binding]; other site 259536002611 Walker B motif; other site 259536002612 arginine finger; other site 259536002613 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 259536002614 Walker A motif; other site 259536002615 ATP binding site [chemical binding]; other site 259536002616 Walker B motif; other site 259536002617 arginine finger; other site 259536002618 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 259536002619 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 259536002620 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 259536002621 BCCT family transporter; Region: BCCT; pfam02028 259536002622 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 259536002623 S-adenosylmethionine synthetase; Validated; Region: PRK05250 259536002624 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 259536002625 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 259536002626 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 259536002627 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 259536002628 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 259536002629 minor groove reading motif; other site 259536002630 helix-hairpin-helix signature motif; other site 259536002631 substrate binding pocket [chemical binding]; other site 259536002632 active site 259536002633 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 259536002634 ferredoxin; Provisional; Region: PRK08764 259536002635 Putative Fe-S cluster; Region: FeS; cl17515 259536002636 4Fe-4S binding domain; Region: Fer4; pfam00037 259536002637 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 259536002638 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 259536002639 putative NADH binding site [chemical binding]; other site 259536002640 putative active site [active] 259536002641 nudix motif; other site 259536002642 putative metal binding site [ion binding]; other site 259536002643 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 259536002644 RNA/DNA hybrid binding site [nucleotide binding]; other site 259536002645 active site 259536002646 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 259536002647 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 259536002648 active site 259536002649 catalytic site [active] 259536002650 substrate binding site [chemical binding]; other site 259536002651 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 259536002652 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 259536002653 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 259536002654 dimer interface [polypeptide binding]; other site 259536002655 catalytic triad [active] 259536002656 hypothetical protein; Provisional; Region: PRK09256 259536002657 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 259536002658 putative arabinose transporter; Provisional; Region: PRK03545 259536002659 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 259536002660 putative substrate translocation pore; other site 259536002661 Transcriptional activator [Transcription]; Region: ChrR; COG3806 259536002662 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 259536002663 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 259536002664 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 259536002665 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 259536002666 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 259536002667 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_Omega_like; cd03060 259536002668 putative GSH binding site (G-site) [chemical binding]; other site 259536002669 active site cysteine [active] 259536002670 putative C-terminal domain interface [polypeptide binding]; other site 259536002671 putative dimer interface [polypeptide binding]; other site 259536002672 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 259536002673 putative N-terminal domain interface [polypeptide binding]; other site 259536002674 putative dimer interface [polypeptide binding]; other site 259536002675 putative substrate binding pocket (H-site) [chemical binding]; other site 259536002676 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 259536002677 methionine synthase; Provisional; Region: PRK01207 259536002678 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 259536002679 substrate binding site [chemical binding]; other site 259536002680 THF binding site; other site 259536002681 zinc-binding site [ion binding]; other site 259536002682 Flavin Reductases; Region: FlaRed; cl00801 259536002683 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 259536002684 Integrase core domain; Region: rve; pfam00665 259536002685 Integrase core domain; Region: rve_3; pfam13683 259536002686 Transposase; Region: HTH_Tnp_1; pfam01527 259536002687 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 259536002688 CoenzymeA binding site [chemical binding]; other site 259536002689 subunit interaction site [polypeptide binding]; other site 259536002690 PHB binding site; other site 259536002691 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 259536002692 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 259536002693 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 259536002694 putative active site [active] 259536002695 metal binding site [ion binding]; metal-binding site 259536002696 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 259536002697 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 259536002698 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 259536002699 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 259536002700 RNA binding surface [nucleotide binding]; other site 259536002701 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 259536002702 probable active site [active] 259536002703 Integrase core domain; Region: rve_3; cl15866 259536002704 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 259536002705 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 259536002706 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 259536002707 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 259536002708 dimer interface [polypeptide binding]; other site 259536002709 PYR/PP interface [polypeptide binding]; other site 259536002710 TPP binding site [chemical binding]; other site 259536002711 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 259536002712 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 259536002713 TPP-binding site [chemical binding]; other site 259536002714 dimer interface [polypeptide binding]; other site 259536002715 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 259536002716 Domain of unknown function (DUF932); Region: DUF932; cl12129 259536002717 putative transposase OrfB; Reviewed; Region: PHA02517 259536002718 HTH-like domain; Region: HTH_21; pfam13276 259536002719 Integrase core domain; Region: rve; pfam00665 259536002720 Integrase core domain; Region: rve_3; pfam13683 259536002721 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 259536002722 Transposase; Region: HTH_Tnp_1; pfam01527 259536002723 Domain of unknown function (DUF932); Region: DUF932; cl12129 259536002724 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 259536002725 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 259536002726 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 259536002727 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 259536002728 Walker A motif; other site 259536002729 ATP binding site [chemical binding]; other site 259536002730 Walker B motif; other site 259536002731 arginine finger; other site 259536002732 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 259536002733 flagellar motor protein MotS; Reviewed; Region: PRK06925 259536002734 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 259536002735 ligand binding site [chemical binding]; other site 259536002736 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 259536002737 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 259536002738 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 259536002739 HsdM N-terminal domain; Region: HsdM_N; pfam12161 259536002740 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 259536002741 Methyltransferase domain; Region: Methyltransf_26; pfam13659 259536002742 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 259536002743 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 259536002744 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 259536002745 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 259536002746 Fic/DOC family; Region: Fic; pfam02661 259536002747 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 259536002748 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 259536002749 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 259536002750 Transposase, Mutator family; Region: Transposase_mut; pfam00872 259536002751 MULE transposase domain; Region: MULE; pfam10551 259536002752 integrase; Provisional; Region: PRK09692 259536002753 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 259536002754 active site 259536002755 Int/Topo IB signature motif; other site 259536002756 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 259536002757 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 259536002758 FAD binding pocket [chemical binding]; other site 259536002759 FAD binding motif [chemical binding]; other site 259536002760 phosphate binding motif [ion binding]; other site 259536002761 beta-alpha-beta structure motif; other site 259536002762 NAD binding pocket [chemical binding]; other site 259536002763 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 259536002764 homodimer interaction site [polypeptide binding]; other site 259536002765 cofactor binding site; other site 259536002766 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 259536002767 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 259536002768 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 259536002769 Walker A motif; other site 259536002770 ATP binding site [chemical binding]; other site 259536002771 Walker B motif; other site 259536002772 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 259536002773 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 259536002774 active site 259536002775 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 259536002776 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 259536002777 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 259536002778 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 259536002779 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 259536002780 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 259536002781 Zn2+ binding site [ion binding]; other site 259536002782 Mg2+ binding site [ion binding]; other site 259536002783 GTP-binding protein YchF; Reviewed; Region: PRK09601 259536002784 YchF GTPase; Region: YchF; cd01900 259536002785 G1 box; other site 259536002786 GTP/Mg2+ binding site [chemical binding]; other site 259536002787 Switch I region; other site 259536002788 G2 box; other site 259536002789 Switch II region; other site 259536002790 G3 box; other site 259536002791 G4 box; other site 259536002792 G5 box; other site 259536002793 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 259536002794 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 259536002795 Major Facilitator Superfamily; Region: MFS_1; pfam07690 259536002796 putative substrate translocation pore; other site 259536002797 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 259536002798 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 259536002799 acyl-activating enzyme (AAE) consensus motif; other site 259536002800 AMP binding site [chemical binding]; other site 259536002801 active site 259536002802 CoA binding site [chemical binding]; other site 259536002803 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 259536002804 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 259536002805 acyl-activating enzyme (AAE) consensus motif; other site 259536002806 AMP binding site [chemical binding]; other site 259536002807 active site 259536002808 CoA binding site [chemical binding]; other site 259536002809 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 259536002810 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 259536002811 tetrameric interface [polypeptide binding]; other site 259536002812 NAD binding site [chemical binding]; other site 259536002813 catalytic residues [active] 259536002814 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 259536002815 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 259536002816 substrate binding pocket [chemical binding]; other site 259536002817 FAD binding site [chemical binding]; other site 259536002818 catalytic base [active] 259536002819 enoyl-CoA hydratase; Provisional; Region: PRK09076 259536002820 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 259536002821 substrate binding site [chemical binding]; other site 259536002822 oxyanion hole (OAH) forming residues; other site 259536002823 trimer interface [polypeptide binding]; other site 259536002824 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 259536002825 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 259536002826 substrate binding site [chemical binding]; other site 259536002827 oxyanion hole (OAH) forming residues; other site 259536002828 trimer interface [polypeptide binding]; other site 259536002829 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 259536002830 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 259536002831 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 259536002832 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 259536002833 Transcriptional regulator [Transcription]; Region: IclR; COG1414 259536002834 putative DNA binding site [nucleotide binding]; other site 259536002835 putative Zn2+ binding site [ion binding]; other site 259536002836 Bacterial transcriptional regulator; Region: IclR; pfam01614 259536002837 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 259536002838 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 259536002839 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 259536002840 ligand binding site [chemical binding]; other site 259536002841 aminopeptidase N; Provisional; Region: pepN; PRK14015 259536002842 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 259536002843 Zn binding site [ion binding]; other site 259536002844 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 259536002845 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 259536002846 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 259536002847 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 259536002848 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 259536002849 RNA/DNA hybrid binding site [nucleotide binding]; other site 259536002850 active site 259536002851 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 259536002852 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 259536002853 active site 259536002854 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 259536002855 dimer interface [polypeptide binding]; other site 259536002856 catalytic residues [active] 259536002857 substrate binding site [chemical binding]; other site 259536002858 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 259536002859 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 259536002860 NAD(P) binding pocket [chemical binding]; other site 259536002861 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 259536002862 hypothetical protein; Provisional; Region: PRK02237 259536002863 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 259536002864 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 259536002865 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 259536002866 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 259536002867 ATP binding site [chemical binding]; other site 259536002868 Mg2+ binding site [ion binding]; other site 259536002869 G-X-G motif; other site 259536002870 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 259536002871 ATP binding site [chemical binding]; other site 259536002872 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 259536002873 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 259536002874 bacterial Hfq-like; Region: Hfq; cd01716 259536002875 hexamer interface [polypeptide binding]; other site 259536002876 Sm1 motif; other site 259536002877 RNA binding site [nucleotide binding]; other site 259536002878 Sm2 motif; other site 259536002879 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 259536002880 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 259536002881 putative active site [active] 259536002882 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 259536002883 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 259536002884 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 259536002885 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 259536002886 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 259536002887 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 259536002888 OstA-like protein; Region: OstA; pfam03968 259536002889 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 259536002890 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 259536002891 Walker A/P-loop; other site 259536002892 ATP binding site [chemical binding]; other site 259536002893 Q-loop/lid; other site 259536002894 ABC transporter signature motif; other site 259536002895 Walker B; other site 259536002896 D-loop; other site 259536002897 H-loop/switch region; other site 259536002898 DNA repair protein RadA; Provisional; Region: PRK11823 259536002899 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 259536002900 Walker A motif; other site 259536002901 ATP binding site [chemical binding]; other site 259536002902 Walker B motif; other site 259536002903 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 259536002904 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 259536002905 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 259536002906 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 259536002907 Peptidase M15; Region: Peptidase_M15_3; cl01194 259536002908 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 259536002909 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 259536002910 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 259536002911 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 259536002912 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 259536002913 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 259536002914 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 259536002915 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 259536002916 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 259536002917 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 259536002918 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 259536002919 P loop; other site 259536002920 GTP binding site [chemical binding]; other site 259536002921 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 259536002922 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 259536002923 DNA binding site [nucleotide binding] 259536002924 active site 259536002925 Integrase core domain; Region: rve; pfam00665 259536002926 Integrase core domain; Region: rve_3; pfam13683 259536002927 hypothetical protein; Validated; Region: PRK00110 259536002928 Ion transport protein; Region: Ion_trans; pfam00520 259536002929 Ion channel; Region: Ion_trans_2; pfam07885 259536002930 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 259536002931 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 259536002932 ABC1 family; Region: ABC1; cl17513 259536002933 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 259536002934 Dehydroquinase class II; Region: DHquinase_II; pfam01220 259536002935 active site 259536002936 trimer interface [polypeptide binding]; other site 259536002937 dimer interface [polypeptide binding]; other site 259536002938 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 259536002939 DNA-binding site [nucleotide binding]; DNA binding site 259536002940 RNA-binding motif; other site 259536002941 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 259536002942 DEAD-like helicases superfamily; Region: DEXDc; smart00487 259536002943 ATP binding site [chemical binding]; other site 259536002944 Mg++ binding site [ion binding]; other site 259536002945 motif III; other site 259536002946 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 259536002947 nucleotide binding region [chemical binding]; other site 259536002948 ATP-binding site [chemical binding]; other site 259536002949 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 259536002950 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 259536002951 Family description; Region: DsbD_2; pfam13386 259536002952 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 259536002953 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 259536002954 putative active site [active] 259536002955 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 259536002956 FAD binding domain; Region: FAD_binding_4; pfam01565 259536002957 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 259536002958 Low molecular weight phosphatase family; Region: LMWPc; cd00115 259536002959 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 259536002960 active site 259536002961 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 259536002962 RNA binding surface [nucleotide binding]; other site 259536002963 threonine dehydratase; Reviewed; Region: PRK09224 259536002964 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 259536002965 tetramer interface [polypeptide binding]; other site 259536002966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536002967 catalytic residue [active] 259536002968 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 259536002969 putative Ile/Val binding site [chemical binding]; other site 259536002970 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 259536002971 putative Ile/Val binding site [chemical binding]; other site 259536002972 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 259536002973 dimerization interface [polypeptide binding]; other site 259536002974 putative DNA binding site [nucleotide binding]; other site 259536002975 putative Zn2+ binding site [ion binding]; other site 259536002976 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 259536002977 ArsC family; Region: ArsC; pfam03960 259536002978 catalytic residues [active] 259536002979 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 259536002980 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 259536002981 arsenical pump membrane protein; Provisional; Region: PRK15445 259536002982 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 259536002983 transmembrane helices; other site 259536002984 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 259536002985 tetramer (dimer of dimers) interface [polypeptide binding]; other site 259536002986 active site 259536002987 dimer interface [polypeptide binding]; other site 259536002988 ornithine carbamoyltransferase; Provisional; Region: PRK00779 259536002989 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 259536002990 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 259536002991 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 259536002992 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 259536002993 active site 259536002994 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 259536002995 substrate binding site [chemical binding]; other site 259536002996 catalytic residues [active] 259536002997 dimer interface [polypeptide binding]; other site 259536002998 replicative DNA helicase; Region: DnaB; TIGR00665 259536002999 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 259536003000 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 259536003001 Walker A motif; other site 259536003002 ATP binding site [chemical binding]; other site 259536003003 Walker B motif; other site 259536003004 DNA binding loops [nucleotide binding] 259536003005 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 259536003006 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 259536003007 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 259536003008 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 259536003009 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 259536003010 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 259536003011 active site 259536003012 metal binding site [ion binding]; metal-binding site 259536003013 Site-specific recombinase; Region: SpecificRecomb; pfam10136 259536003014 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 259536003015 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 259536003016 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 259536003017 active site 259536003018 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 259536003019 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 259536003020 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 259536003021 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 259536003022 active site 259536003023 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 259536003024 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 259536003025 RNA methyltransferase, RsmE family; Region: TIGR00046 259536003026 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 259536003027 FAD binding site [chemical binding]; other site 259536003028 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 259536003029 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 259536003030 homotetramer interface [polypeptide binding]; other site 259536003031 ligand binding site [chemical binding]; other site 259536003032 catalytic site [active] 259536003033 NAD binding site [chemical binding]; other site 259536003034 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 259536003035 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 259536003036 N-terminal plug; other site 259536003037 ligand-binding site [chemical binding]; other site 259536003038 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 259536003039 Mechanosensitive ion channel; Region: MS_channel; pfam00924 259536003040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 259536003041 Smr domain; Region: Smr; pfam01713 259536003042 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 259536003043 active site 259536003044 ribulose/triose binding site [chemical binding]; other site 259536003045 phosphate binding site [ion binding]; other site 259536003046 substrate (anthranilate) binding pocket [chemical binding]; other site 259536003047 product (indole) binding pocket [chemical binding]; other site 259536003048 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 259536003049 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 259536003050 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 259536003051 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 259536003052 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 259536003053 glutamine binding [chemical binding]; other site 259536003054 catalytic triad [active] 259536003055 glutamine synthetase; Provisional; Region: glnA; PRK09469 259536003056 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 259536003057 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 259536003058 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 259536003059 Protein of unknown function (DUF541); Region: SIMPL; cl01077 259536003060 Uncharacterized conserved protein [Function unknown]; Region: COG2968 259536003061 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 259536003062 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 259536003063 cofactor binding site; other site 259536003064 DNA binding site [nucleotide binding] 259536003065 substrate interaction site [chemical binding]; other site 259536003066 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 259536003067 RecT family; Region: RecT; pfam03837 259536003068 putative phage-type endonuclease; Region: phage_rel_nuc; TIGR03033 259536003069 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 259536003070 non-specific DNA binding site [nucleotide binding]; other site 259536003071 salt bridge; other site 259536003072 sequence-specific DNA binding site [nucleotide binding]; other site 259536003073 Domain of unknown function (DUF955); Region: DUF955; pfam06114 259536003074 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 259536003075 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 259536003076 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 259536003077 Catalytic site [active] 259536003078 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 259536003079 Helix-turn-helix domain; Region: HTH_36; pfam13730 259536003080 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 259536003081 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 259536003082 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 259536003083 Phage terminase large subunit; Region: Terminase_3; cl12054 259536003084 Terminase-like family; Region: Terminase_6; pfam03237 259536003085 Protein of unknown function (DUF935); Region: DUF935; pfam06074 259536003086 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 259536003087 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 259536003088 tandem repeat interface [polypeptide binding]; other site 259536003089 oligomer interface [polypeptide binding]; other site 259536003090 active site residues [active] 259536003091 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 259536003092 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 259536003093 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 259536003094 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 259536003095 Pyrimidine 5'-nucleotidase (UMPH-1); Region: UMPH-1; pfam05822 259536003096 Arc-like DNA binding domain; Region: Arc; pfam03869 259536003097 KilA-N domain; Region: KilA-N; pfam04383 259536003098 Phage-related minor tail protein [Function unknown]; Region: COG5281 259536003099 tape measure domain; Region: tape_meas_nterm; TIGR02675 259536003100 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 259536003101 catalytic residues [active] 259536003102 integrase; Provisional; Region: PRK09692 259536003103 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 259536003104 active site 259536003105 Int/Topo IB signature motif; other site 259536003106 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 259536003107 homodimer interface [polypeptide binding]; other site 259536003108 substrate-cofactor binding pocket; other site 259536003109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536003110 catalytic residue [active] 259536003111 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 259536003112 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_14; cd08497 259536003113 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 259536003114 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 259536003115 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 259536003116 dimer interface [polypeptide binding]; other site 259536003117 conserved gate region; other site 259536003118 ABC-ATPase subunit interface; other site 259536003119 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 259536003120 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 259536003121 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 259536003122 dimer interface [polypeptide binding]; other site 259536003123 conserved gate region; other site 259536003124 putative PBP binding loops; other site 259536003125 ABC-ATPase subunit interface; other site 259536003126 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 259536003127 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 259536003128 Walker A/P-loop; other site 259536003129 ATP binding site [chemical binding]; other site 259536003130 Q-loop/lid; other site 259536003131 ABC transporter signature motif; other site 259536003132 Walker B; other site 259536003133 D-loop; other site 259536003134 H-loop/switch region; other site 259536003135 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 259536003136 Walker A/P-loop; other site 259536003137 ATP binding site [chemical binding]; other site 259536003138 Q-loop/lid; other site 259536003139 ABC transporter signature motif; other site 259536003140 Walker B; other site 259536003141 D-loop; other site 259536003142 H-loop/switch region; other site 259536003143 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 259536003144 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 259536003145 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 259536003146 putative active site [active] 259536003147 metal binding site [ion binding]; metal-binding site 259536003148 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 259536003149 methionine sulfoxide reductase B; Provisional; Region: PRK00222 259536003150 SelR domain; Region: SelR; pfam01641 259536003151 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 259536003152 GTP cyclohydrolase I; Provisional; Region: PLN03044 259536003153 active site 259536003154 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 259536003155 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 259536003156 NAD binding site [chemical binding]; other site 259536003157 homotetramer interface [polypeptide binding]; other site 259536003158 homodimer interface [polypeptide binding]; other site 259536003159 substrate binding site [chemical binding]; other site 259536003160 active site 259536003161 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 259536003162 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 259536003163 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 259536003164 transmembrane helices; other site 259536003165 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 259536003166 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 259536003167 ATP binding site [chemical binding]; other site 259536003168 putative Mg++ binding site [ion binding]; other site 259536003169 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 259536003170 nucleotide binding region [chemical binding]; other site 259536003171 ATP-binding site [chemical binding]; other site 259536003172 Helicase associated domain (HA2); Region: HA2; pfam04408 259536003173 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 259536003174 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 259536003175 probable fumarate lyase 259536003176 EamA-like transporter family; Region: EamA; pfam00892 259536003177 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 259536003178 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 259536003179 dimer interface [polypeptide binding]; other site 259536003180 active site 259536003181 CoA binding pocket [chemical binding]; other site 259536003182 peptide chain release factor 1; Validated; Region: prfA; PRK00591 259536003183 This domain is found in peptide chain release factors; Region: PCRF; smart00937 259536003184 RF-1 domain; Region: RF-1; pfam00472 259536003185 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 259536003186 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 259536003187 dimer interface [polypeptide binding]; other site 259536003188 putative anticodon binding site; other site 259536003189 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 259536003190 motif 1; other site 259536003191 active site 259536003192 motif 2; other site 259536003193 motif 3; other site 259536003194 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 259536003195 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 259536003196 Walker A motif; other site 259536003197 ATP binding site [chemical binding]; other site 259536003198 Walker B motif; other site 259536003199 arginine finger; other site 259536003200 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 259536003201 Transcriptional regulator [Transcription]; Region: LysR; COG0583 259536003202 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 259536003203 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 259536003204 putative effector binding pocket; other site 259536003205 dimerization interface [polypeptide binding]; other site 259536003206 acetylornithine aminotransferase; Provisional; Region: PRK02627 259536003207 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 259536003208 inhibitor-cofactor binding pocket; inhibition site 259536003209 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536003210 catalytic residue [active] 259536003211 Domain of unknown function (DUF329); Region: DUF329; pfam03884 259536003212 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 259536003213 S-adenosylmethionine binding site [chemical binding]; other site 259536003214 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 259536003215 ABC1 family; Region: ABC1; cl17513 259536003216 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 259536003217 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 259536003218 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 259536003219 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 259536003220 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 259536003221 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 259536003222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536003223 AAA domain; Region: AAA_23; pfam13476 259536003224 Walker A/P-loop; other site 259536003225 ATP binding site [chemical binding]; other site 259536003226 Q-loop/lid; other site 259536003227 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536003228 ABC transporter signature motif; other site 259536003229 Walker B; other site 259536003230 D-loop; other site 259536003231 H-loop/switch region; other site 259536003232 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 259536003233 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 259536003234 active site 259536003235 metal binding site [ion binding]; metal-binding site 259536003236 DNA binding site [nucleotide binding] 259536003237 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 259536003238 siroheme synthase; Provisional; Region: cysG; PRK10637 259536003239 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 259536003240 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 259536003241 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 259536003242 active site 259536003243 SAM binding site [chemical binding]; other site 259536003244 homodimer interface [polypeptide binding]; other site 259536003245 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 259536003246 Active Sites [active] 259536003247 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 259536003248 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 259536003249 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 259536003250 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 259536003251 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 259536003252 ATP-sulfurylase; Region: ATPS; cd00517 259536003253 active site 259536003254 HXXH motif; other site 259536003255 flexible loop; other site 259536003256 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 259536003257 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 259536003258 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 259536003259 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 259536003260 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 259536003261 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 259536003262 dimer interface [polypeptide binding]; other site 259536003263 conserved gate region; other site 259536003264 putative PBP binding loops; other site 259536003265 ABC-ATPase subunit interface; other site 259536003266 sulfate transport protein; Provisional; Region: cysT; CHL00187 259536003267 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 259536003268 dimer interface [polypeptide binding]; other site 259536003269 conserved gate region; other site 259536003270 putative PBP binding loops; other site 259536003271 ABC-ATPase subunit interface; other site 259536003272 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 259536003273 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 259536003274 Walker A/P-loop; other site 259536003275 ATP binding site [chemical binding]; other site 259536003276 Q-loop/lid; other site 259536003277 ABC transporter signature motif; other site 259536003278 Walker B; other site 259536003279 D-loop; other site 259536003280 H-loop/switch region; other site 259536003281 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 259536003282 dimerization interface [polypeptide binding]; other site 259536003283 putative DNA binding site [nucleotide binding]; other site 259536003284 putative Zn2+ binding site [ion binding]; other site 259536003285 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 259536003286 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 259536003287 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 259536003288 heme binding site [chemical binding]; other site 259536003289 ferroxidase pore; other site 259536003290 ferroxidase diiron center [ion binding]; other site 259536003291 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 259536003292 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 259536003293 heme binding site [chemical binding]; other site 259536003294 ferroxidase pore; other site 259536003295 ferroxidase diiron center [ion binding]; other site 259536003296 putative transporter; Provisional; Region: PRK10504 259536003297 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 259536003298 putative substrate translocation pore; other site 259536003299 putative S-transferase; Provisional; Region: PRK11752 259536003300 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 259536003301 C-terminal domain interface [polypeptide binding]; other site 259536003302 GSH binding site (G-site) [chemical binding]; other site 259536003303 dimer interface [polypeptide binding]; other site 259536003304 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 259536003305 dimer interface [polypeptide binding]; other site 259536003306 N-terminal domain interface [polypeptide binding]; other site 259536003307 active site 259536003308 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 259536003309 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 259536003310 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 259536003311 ATP binding site [chemical binding]; other site 259536003312 Mg++ binding site [ion binding]; other site 259536003313 motif III; other site 259536003314 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 259536003315 nucleotide binding region [chemical binding]; other site 259536003316 ATP-binding site [chemical binding]; other site 259536003317 Protein of unknown function (DUF819); Region: DUF819; cl02317 259536003318 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 259536003319 DNA-binding site [nucleotide binding]; DNA binding site 259536003320 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 259536003321 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 259536003322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536003323 homodimer interface [polypeptide binding]; other site 259536003324 catalytic residue [active] 259536003325 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 259536003326 EamA-like transporter family; Region: EamA; pfam00892 259536003327 hydantoin utilization protein B; Contains 67 aas of >500 aas. 259536003328 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 259536003329 Fic/DOC family; Region: Fic; pfam02661 259536003330 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 259536003331 MgtC family; Region: MgtC; pfam02308 259536003332 Predicted membrane protein [Function unknown]; Region: COG3174 259536003333 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 259536003334 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 259536003335 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 259536003336 FMN binding site [chemical binding]; other site 259536003337 active site 259536003338 substrate binding site [chemical binding]; other site 259536003339 catalytic residue [active] 259536003340 Transcriptional regulator [Transcription]; Region: LysR; COG0583 259536003341 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 259536003342 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 259536003343 putative substrate binding pocket [chemical binding]; other site 259536003344 putative dimerization interface [polypeptide binding]; other site 259536003345 Fic family protein [Function unknown]; Region: COG3177 259536003346 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 259536003347 Fic/DOC family; Region: Fic; pfam02661 259536003348 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 259536003349 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 259536003350 carboxyltransferase (CT) interaction site; other site 259536003351 biotinylation site [posttranslational modification]; other site 259536003352 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 259536003353 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 259536003354 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 259536003355 putative active site [active] 259536003356 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 259536003357 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 259536003358 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 259536003359 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 259536003360 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 259536003361 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 259536003362 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 259536003363 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 259536003364 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 259536003365 carboxyltransferase (CT) interaction site; other site 259536003366 biotinylation site [posttranslational modification]; other site 259536003367 hypothetical protein; Provisional; Region: PRK05463 259536003368 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 259536003369 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 259536003370 putative acyl-acceptor binding pocket; other site 259536003371 integral membrane protein; Region: integ_memb_HG; TIGR03954 259536003372 Transcriptional regulator [Transcription]; Region: LysR; COG0583 259536003373 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 259536003374 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 259536003375 dimerization interface [polypeptide binding]; other site 259536003376 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 259536003377 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 259536003378 tetramer interface [polypeptide binding]; other site 259536003379 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 259536003380 active site 259536003381 Mg2+/Mn2+ binding site [ion binding]; other site 259536003382 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 259536003383 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 259536003384 dimer interface [polypeptide binding]; other site 259536003385 active site 259536003386 citrylCoA binding site [chemical binding]; other site 259536003387 oxalacetate/citrate binding site [chemical binding]; other site 259536003388 coenzyme A binding site [chemical binding]; other site 259536003389 catalytic triad [active] 259536003390 aconitate hydratase; Validated; Region: PRK09277 259536003391 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 259536003392 substrate binding site [chemical binding]; other site 259536003393 ligand binding site [chemical binding]; other site 259536003394 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 259536003395 substrate binding site [chemical binding]; other site 259536003396 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 259536003397 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 259536003398 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 259536003399 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 259536003400 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 259536003401 Coenzyme A binding pocket [chemical binding]; other site 259536003402 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 259536003403 2-methylcitrate dehydratase; Region: prpD; TIGR02330 259536003404 C factor cell-cell signaling protein; Provisional; Region: PRK09009 259536003405 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 259536003406 NADP binding site [chemical binding]; other site 259536003407 homodimer interface [polypeptide binding]; other site 259536003408 active site 259536003409 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 259536003410 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 259536003411 G1 box; other site 259536003412 GTP/Mg2+ binding site [chemical binding]; other site 259536003413 G2 box; other site 259536003414 Switch I region; other site 259536003415 G3 box; other site 259536003416 Switch II region; other site 259536003417 G5 box; other site 259536003418 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 259536003419 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 259536003420 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 259536003421 DTAP/Switch II; other site 259536003422 Switch I; other site 259536003423 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 259536003424 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 259536003425 Carbon starvation protein CstA; Region: CstA; pfam02554 259536003426 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 259536003427 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 259536003428 active site 259536003429 AAA domain; Region: AAA_30; pfam13604 259536003430 Family description; Region: UvrD_C_2; pfam13538 259536003431 Part of AAA domain; Region: AAA_19; pfam13245 259536003432 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 259536003433 Family description; Region: UvrD_C_2; pfam13538 259536003434 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 259536003435 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 259536003436 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 259536003437 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 259536003438 Transcriptional regulator [Transcription]; Region: LysR; COG0583 259536003439 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 259536003440 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 259536003441 putative effector binding pocket; other site 259536003442 dimerization interface [polypeptide binding]; other site 259536003443 Predicted membrane protein [Function unknown]; Region: COG2259 259536003444 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 259536003445 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 259536003446 putative active site [active] 259536003447 metal binding site [ion binding]; metal-binding site 259536003448 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 259536003449 hydroxyglutarate oxidase; Provisional; Region: PRK11728 259536003450 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 259536003451 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 259536003452 non-specific DNA binding site [nucleotide binding]; other site 259536003453 salt bridge; other site 259536003454 sequence-specific DNA binding site [nucleotide binding]; other site 259536003455 HipA N-terminal domain; Region: Couple_hipA; pfam13657 259536003456 HipA-like N-terminal domain; Region: HipA_N; pfam07805 259536003457 HipA-like C-terminal domain; Region: HipA_C; pfam07804 259536003458 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 259536003459 Phosphoenolpyruvate carboxylase; Region: PEPcase; pfam00311 259536003460 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 259536003461 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 259536003462 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 259536003463 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 259536003464 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 259536003465 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 259536003466 active site 259536003467 NTP binding site [chemical binding]; other site 259536003468 metal binding triad [ion binding]; metal-binding site 259536003469 antibiotic binding site [chemical binding]; other site 259536003470 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 259536003471 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 259536003472 malonate decarboxylase acyl carrier protein; Region: malonate_delta; TIGR03130 259536003473 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 259536003474 Coenzyme A transferase; Region: CoA_trans; cl17247 259536003475 malonate transporter, MadM subunit; Region: malonate_madM; TIGR00808 259536003476 Malonate transporter MadL subunit; Region: MadL; cl04273 259536003477 Transcriptional regulators [Transcription]; Region: FadR; COG2186 259536003478 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 259536003479 DNA-binding site [nucleotide binding]; DNA binding site 259536003480 FCD domain; Region: FCD; pfam07729 259536003481 Uncharacterized conserved protein [Function unknown]; Region: COG2353 259536003482 Cytochrome c; Region: Cytochrom_C; pfam00034 259536003483 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 259536003484 cytochrome c-550; Provisional; Region: psbV; cl17239 259536003485 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 259536003486 Cytochrome c; Region: Cytochrom_C; pfam00034 259536003487 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 259536003488 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 259536003489 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 259536003490 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 259536003491 Ligand Binding Site [chemical binding]; other site 259536003492 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 259536003493 Ligand Binding Site [chemical binding]; other site 259536003494 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 259536003495 Methyltransferase domain; Region: Methyltransf_31; pfam13847 259536003496 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 259536003497 S-adenosylmethionine binding site [chemical binding]; other site 259536003498 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 259536003499 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 259536003500 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 259536003501 Probable Catalytic site; other site 259536003502 Protein of unknown function, DUF547; Region: DUF547; pfam04784 259536003503 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 259536003504 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 259536003505 FeS/SAM binding site; other site 259536003506 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 259536003507 putative metal dependent hydrolase; Provisional; Region: PRK11598 259536003508 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 259536003509 Sulfatase; Region: Sulfatase; pfam00884 259536003510 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 259536003511 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 259536003512 active site 259536003513 phosphorylation site [posttranslational modification] 259536003514 intermolecular recognition site; other site 259536003515 dimerization interface [polypeptide binding]; other site 259536003516 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 259536003517 DNA binding site [nucleotide binding] 259536003518 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 259536003519 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 259536003520 dimer interface [polypeptide binding]; other site 259536003521 phosphorylation site [posttranslational modification] 259536003522 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 259536003523 ATP binding site [chemical binding]; other site 259536003524 Mg2+ binding site [ion binding]; other site 259536003525 G-X-G motif; other site 259536003526 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 259536003527 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 259536003528 active site 259536003529 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 259536003530 active site 259536003531 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 259536003532 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 259536003533 acyl-activating enzyme (AAE) consensus motif; other site 259536003534 AMP binding site [chemical binding]; other site 259536003535 active site 259536003536 CoA binding site [chemical binding]; other site 259536003537 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 259536003538 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 259536003539 dimer interface [polypeptide binding]; other site 259536003540 active site 259536003541 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 259536003542 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 259536003543 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 259536003544 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 259536003545 enoyl-CoA hydratase; Provisional; Region: PRK08138 259536003546 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 259536003547 substrate binding site [chemical binding]; other site 259536003548 oxyanion hole (OAH) forming residues; other site 259536003549 trimer interface [polypeptide binding]; other site 259536003550 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 259536003551 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 259536003552 active site 259536003553 benzoate transport; Region: 2A0115; TIGR00895 259536003554 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 259536003555 putative substrate translocation pore; other site 259536003556 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 259536003557 Transcriptional regulator [Transcription]; Region: IclR; COG1414 259536003558 Bacterial transcriptional regulator; Region: IclR; pfam01614 259536003559 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 259536003560 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 259536003561 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 259536003562 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 259536003563 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 259536003564 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 259536003565 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 259536003566 putative active site [active] 259536003567 putative PHP Thumb interface [polypeptide binding]; other site 259536003568 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 259536003569 generic binding surface I; other site 259536003570 generic binding surface II; other site 259536003571 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 259536003572 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 259536003573 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 259536003574 serine O-acetyltransferase; Region: cysE; TIGR01172 259536003575 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 259536003576 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 259536003577 trimer interface [polypeptide binding]; other site 259536003578 active site 259536003579 substrate binding site [chemical binding]; other site 259536003580 CoA binding site [chemical binding]; other site 259536003581 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; cl00233 259536003582 catalytic center binding site [active] 259536003583 ATP binding site [chemical binding]; other site 259536003584 Dihydroneopterin aldolase; Region: FolB; pfam02152 259536003585 active site 259536003586 Predicted permeases [General function prediction only]; Region: RarD; COG2962 259536003587 EamA-like transporter family; Region: EamA; pfam00892 259536003588 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 259536003589 prephenate dehydrogenase; Validated; Region: PRK08507 259536003590 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 259536003591 hinge; other site 259536003592 active site 259536003593 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 259536003594 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 259536003595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536003596 homodimer interface [polypeptide binding]; other site 259536003597 catalytic residue [active] 259536003598 Chorismate mutase type II; Region: CM_2; cl00693 259536003599 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 259536003600 Prephenate dehydratase; Region: PDT; pfam00800 259536003601 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 259536003602 putative L-Phe binding site [chemical binding]; other site 259536003603 transaldolase-like protein; Provisional; Region: PTZ00411 259536003604 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 259536003605 active site 259536003606 dimer interface [polypeptide binding]; other site 259536003607 catalytic residue [active] 259536003608 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 259536003609 active site 259536003610 Rubredoxin [Energy production and conversion]; Region: COG1773 259536003611 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 259536003612 iron binding site [ion binding]; other site 259536003613 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 259536003614 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 259536003615 EamA-like transporter family; Region: EamA; pfam00892 259536003616 EamA-like transporter family; Region: EamA; pfam00892 259536003617 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 259536003618 Autotransporter beta-domain; Region: Autotransporter; smart00869 259536003619 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 259536003620 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 259536003621 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 259536003622 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 259536003623 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 259536003624 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 259536003625 heterotetramer interface [polypeptide binding]; other site 259536003626 active site pocket [active] 259536003627 cleavage site 259536003628 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 259536003629 putative catalytic site [active] 259536003630 putative phosphate binding site [ion binding]; other site 259536003631 active site 259536003632 metal binding site A [ion binding]; metal-binding site 259536003633 DNA binding site [nucleotide binding] 259536003634 putative AP binding site [nucleotide binding]; other site 259536003635 putative metal binding site B [ion binding]; other site 259536003636 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 259536003637 active site 259536003638 short chain dehydrogenase; Provisional; Region: PRK08251 259536003639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 259536003640 NAD(P) binding site [chemical binding]; other site 259536003641 active site 259536003642 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 259536003643 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 259536003644 tandem repeat interface [polypeptide binding]; other site 259536003645 oligomer interface [polypeptide binding]; other site 259536003646 active site residues [active] 259536003647 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 259536003648 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 259536003649 dimer interface [polypeptide binding]; other site 259536003650 anticodon binding site; other site 259536003651 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 259536003652 homodimer interface [polypeptide binding]; other site 259536003653 motif 1; other site 259536003654 active site 259536003655 motif 2; other site 259536003656 GAD domain; Region: GAD; pfam02938 259536003657 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 259536003658 active site 259536003659 motif 3; other site 259536003660 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 259536003661 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 259536003662 putative acyl-acceptor binding pocket; other site 259536003663 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 259536003664 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 259536003665 putative metal binding site; other site 259536003666 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 259536003667 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 259536003668 putative metal binding site; other site 259536003669 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 259536003670 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 259536003671 active site 259536003672 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 259536003673 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 259536003674 ISSod6 transposase-like; The aa sequence of this orf aligns for nearly its full length with the first 59 of approx 259 aas of a few ISSod6 transposase sequences. 259536003675 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 259536003676 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 259536003677 NAD binding site [chemical binding]; other site 259536003678 substrate binding site [chemical binding]; other site 259536003679 homodimer interface [polypeptide binding]; other site 259536003680 active site 259536003681 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 259536003682 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 259536003683 NADP binding site [chemical binding]; other site 259536003684 active site 259536003685 putative substrate binding site [chemical binding]; other site 259536003686 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 259536003687 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 259536003688 substrate binding site; other site 259536003689 tetramer interface; other site 259536003690 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 259536003691 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 259536003692 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 259536003693 homodimer interface [polypeptide binding]; other site 259536003694 substrate-cofactor binding pocket; other site 259536003695 catalytic residue [active] 259536003696 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 259536003697 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 259536003698 metal binding triad; other site 259536003699 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 259536003700 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 259536003701 metal binding triad; other site 259536003702 DsrE/DsrF-like family; Region: DrsE; cl00672 259536003703 DsrC like protein; Region: DsrC; pfam04358 259536003704 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 259536003705 entericidin A; Provisional; Region: PRK09810 259536003706 HemN family oxidoreductase; Provisional; Region: PRK05660 259536003707 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 259536003708 FeS/SAM binding site; other site 259536003709 HemN C-terminal domain; Region: HemN_C; pfam06969 259536003710 multidrug efflux protein; Reviewed; Region: PRK01766 259536003711 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 259536003712 cation binding site [ion binding]; other site 259536003713 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 259536003714 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 259536003715 carboxyltransferase (CT) interaction site; other site 259536003716 biotinylation site [posttranslational modification]; other site 259536003717 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 259536003718 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 259536003719 ATP-grasp domain; Region: ATP-grasp_4; cl17255 259536003720 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 259536003721 2-isopropylmalate synthase; Validated; Region: PRK03739 259536003722 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 259536003723 active site 259536003724 catalytic residues [active] 259536003725 metal binding site [ion binding]; metal-binding site 259536003726 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 259536003727 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 259536003728 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 259536003729 putative DNA binding site [nucleotide binding]; other site 259536003730 putative Zn2+ binding site [ion binding]; other site 259536003731 AsnC family; Region: AsnC_trans_reg; pfam01037 259536003732 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 259536003733 Major Facilitator Superfamily; Region: MFS_1; pfam07690 259536003734 putative substrate translocation pore; other site 259536003735 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 259536003736 ABC1 family; Region: ABC1; cl17513 259536003737 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 259536003738 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 259536003739 ATP binding site [chemical binding]; other site 259536003740 substrate interface [chemical binding]; other site 259536003741 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 259536003742 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 259536003743 S-adenosylmethionine binding site [chemical binding]; other site 259536003744 muropeptide transporter; Validated; Region: ampG; cl17669 259536003745 muropeptide transporter; Validated; Region: ampG; cl17669 259536003746 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 259536003747 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 259536003748 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 259536003749 substrate binding site [chemical binding]; other site 259536003750 dimerization interface [polypeptide binding]; other site 259536003751 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 259536003752 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 259536003753 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 259536003754 Trp docking motif [polypeptide binding]; other site 259536003755 putative active site [active] 259536003756 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 259536003757 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 259536003758 Predicted permeases [General function prediction only]; Region: COG0679 259536003759 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 259536003760 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 259536003761 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 259536003762 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 259536003763 putative GSH binding site [chemical binding]; other site 259536003764 catalytic residues [active] 259536003765 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 259536003766 homotrimer interaction site [polypeptide binding]; other site 259536003767 zinc binding site [ion binding]; other site 259536003768 CDP-binding sites; other site 259536003769 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 259536003770 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 259536003771 adenylosuccinate lyase; Provisional; Region: PRK09285 259536003772 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 259536003773 tetramer interface [polypeptide binding]; other site 259536003774 active site 259536003775 Uncharacterized conserved protein [Function unknown]; Region: COG2850 259536003776 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 259536003777 NAD(P) binding site [chemical binding]; other site 259536003778 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 259536003779 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 259536003780 Proline dehydrogenase; Region: Pro_dh; pfam01619 259536003781 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 259536003782 Glutamate binding site [chemical binding]; other site 259536003783 NAD binding site [chemical binding]; other site 259536003784 catalytic residues [active] 259536003785 TolQ protein; Region: tolQ; TIGR02796 259536003786 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 259536003787 TolR protein; Region: tolR; TIGR02801 259536003788 TonB C terminal; Region: TonB_2; pfam13103 259536003789 TolA protein; Region: tolA_full; TIGR02794 259536003790 TolB amino-terminal domain; Region: TolB_N; pfam04052 259536003791 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 259536003792 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 259536003793 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 259536003794 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 259536003795 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 259536003796 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 259536003797 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 259536003798 Sulphur transport; Region: Sulf_transp; pfam04143 259536003799 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 259536003800 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 259536003801 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 259536003802 RNA binding surface [nucleotide binding]; other site 259536003803 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 259536003804 active site 259536003805 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 259536003806 CHC2 zinc finger; Region: zf-CHC2; pfam01807 259536003807 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 259536003808 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 259536003809 active site 259536003810 metal binding site [ion binding]; metal-binding site 259536003811 interdomain interaction site; other site 259536003812 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 259536003813 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 259536003814 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 259536003815 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 259536003816 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 259536003817 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 259536003818 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 259536003819 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 259536003820 DNA binding residues [nucleotide binding] 259536003821 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 259536003822 Protein of unknown function (DUF493); Region: DUF493; pfam04359 259536003823 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 259536003824 ATP cone domain; Region: ATP-cone; pfam03477 259536003825 Class I ribonucleotide reductase; Region: RNR_I; cd01679 259536003826 active site 259536003827 dimer interface [polypeptide binding]; other site 259536003828 catalytic residues [active] 259536003829 effector binding site; other site 259536003830 R2 peptide binding site; other site 259536003831 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 259536003832 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 259536003833 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 259536003834 dimer interface [polypeptide binding]; other site 259536003835 putative radical transfer pathway; other site 259536003836 diiron center [ion binding]; other site 259536003837 tyrosyl radical; other site 259536003838 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 259536003839 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 259536003840 catalytic loop [active] 259536003841 iron binding site [ion binding]; other site 259536003842 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 259536003843 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 259536003844 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 259536003845 protein binding site [polypeptide binding]; other site 259536003846 Uncharacterized conserved protein [Function unknown]; Region: COG0327 259536003847 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 259536003848 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 259536003849 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 259536003850 N-acetyl-D-glucosamine binding site [chemical binding]; other site 259536003851 catalytic residue [active] 259536003852 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 259536003853 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 259536003854 N-acetyl-D-glucosamine binding site [chemical binding]; other site 259536003855 catalytic residue [active] 259536003856 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 259536003857 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 259536003858 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 259536003859 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 259536003860 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 259536003861 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 259536003862 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 259536003863 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 259536003864 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 259536003865 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 259536003866 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 259536003867 Domain of unknown function DUF21; Region: DUF21; pfam01595 259536003868 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 259536003869 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 259536003870 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 259536003871 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 259536003872 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 259536003873 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 259536003874 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 259536003875 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 259536003876 Protein export membrane protein; Region: SecD_SecF; pfam02355 259536003877 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 259536003878 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 259536003879 AzlC protein; Region: AzlC; pfam03591 259536003880 amidophosphoribosyltransferase; Provisional; Region: PRK09246 259536003881 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 259536003882 active site 259536003883 tetramer interface [polypeptide binding]; other site 259536003884 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 259536003885 active site 259536003886 Colicin V production protein; Region: Colicin_V; pfam02674 259536003887 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 259536003888 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 259536003889 quinone interaction residues [chemical binding]; other site 259536003890 active site 259536003891 catalytic residues [active] 259536003892 FMN binding site [chemical binding]; other site 259536003893 substrate binding site [chemical binding]; other site 259536003894 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 259536003895 catalytic core [active] 259536003896 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 259536003897 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 259536003898 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 259536003899 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 259536003900 putative FMN binding site [chemical binding]; other site 259536003901 Predicted ATPase [General function prediction only]; Region: COG1485 259536003902 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 259536003903 Eukaryotic protein of unknown function (DUF829); Region: DUF829; pfam05705 259536003904 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 259536003905 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 259536003906 generic binding surface II; other site 259536003907 generic binding surface I; other site 259536003908 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 259536003909 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 259536003910 active site 259536003911 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 259536003912 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 259536003913 NAD(P) binding site [chemical binding]; other site 259536003914 catalytic residues [active] 259536003915 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 259536003916 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 259536003917 dimer interface [polypeptide binding]; other site 259536003918 substrate binding site [chemical binding]; other site 259536003919 metal binding sites [ion binding]; metal-binding site 259536003920 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 259536003921 classical (c) SDRs; Region: SDR_c; cd05233 259536003922 NAD(P) binding site [chemical binding]; other site 259536003923 active site 259536003924 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 259536003925 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 259536003926 FMN binding site [chemical binding]; other site 259536003927 active site 259536003928 catalytic residues [active] 259536003929 substrate binding site [chemical binding]; other site 259536003930 BCCT family transporter; Region: BCCT; pfam02028 259536003931 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 259536003932 HIT family signature motif; other site 259536003933 catalytic residue [active] 259536003934 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 259536003935 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 259536003936 Beta-lactamase; Region: Beta-lactamase; pfam00144 259536003937 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 259536003938 Beta-lactamase; Region: Beta-lactamase; cl17358 259536003939 Putative phosphatase (DUF442); Region: DUF442; cl17385 259536003940 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 259536003941 active site 2 [active] 259536003942 active site 1 [active] 259536003943 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 259536003944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 259536003945 NAD(P) binding site [chemical binding]; other site 259536003946 active site 259536003947 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 259536003948 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 259536003949 dimer interface [polypeptide binding]; other site 259536003950 active site 259536003951 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 259536003952 PilZ domain; Region: PilZ; cl01260 259536003953 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 259536003954 DNA polymerase III subunit delta'; Validated; Region: PRK08485 259536003955 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 259536003956 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 259536003957 Ligand binding site; other site 259536003958 oligomer interface; other site 259536003959 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 259536003960 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 259536003961 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 259536003962 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 259536003963 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 259536003964 Walker A/P-loop; other site 259536003965 ATP binding site [chemical binding]; other site 259536003966 Q-loop/lid; other site 259536003967 ABC transporter signature motif; other site 259536003968 Walker B; other site 259536003969 D-loop; other site 259536003970 H-loop/switch region; other site 259536003971 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 259536003972 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 259536003973 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 259536003974 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 259536003975 ParB-like nuclease domain; Region: ParBc; pfam02195 259536003976 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 259536003977 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 259536003978 P-loop; other site 259536003979 Magnesium ion binding site [ion binding]; other site 259536003980 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 259536003981 Magnesium ion binding site [ion binding]; other site 259536003982 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 259536003983 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 259536003984 S-adenosylmethionine binding site [chemical binding]; other site 259536003985 AAA domain; Region: AAA_32; pfam13654 259536003986 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 259536003987 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 259536003988 Predicted transcriptional regulator [Transcription]; Region: COG2378 259536003989 WYL domain; Region: WYL; pfam13280 259536003990 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 259536003991 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 259536003992 putative metal binding site [ion binding]; other site 259536003993 Ion transport protein; Region: Ion_trans; pfam00520 259536003994 Ion channel; Region: Ion_trans_2; pfam07885 259536003995 OmpW family; Region: OmpW; pfam03922 259536003996 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 259536003997 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 259536003998 E3 interaction surface; other site 259536003999 lipoyl attachment site [posttranslational modification]; other site 259536004000 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 259536004001 E3 interaction surface; other site 259536004002 lipoyl attachment site [posttranslational modification]; other site 259536004003 e3 binding domain; Region: E3_binding; pfam02817 259536004004 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 259536004005 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 259536004006 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 259536004007 dimer interface [polypeptide binding]; other site 259536004008 TPP-binding site [chemical binding]; other site 259536004009 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 259536004010 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 259536004011 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 259536004012 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 259536004013 putative catalytic site [active] 259536004014 putative metal binding site [ion binding]; other site 259536004015 putative phosphate binding site [ion binding]; other site 259536004016 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 259536004017 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 259536004018 N- and C-terminal domain interface [polypeptide binding]; other site 259536004019 active site 259536004020 MgATP binding site [chemical binding]; other site 259536004021 catalytic site [active] 259536004022 metal binding site [ion binding]; metal-binding site 259536004023 glycerol binding site [chemical binding]; other site 259536004024 homotetramer interface [polypeptide binding]; other site 259536004025 homodimer interface [polypeptide binding]; other site 259536004026 FBP binding site [chemical binding]; other site 259536004027 protein IIAGlc interface [polypeptide binding]; other site 259536004028 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 259536004029 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 259536004030 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 259536004031 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 259536004032 PEP synthetase regulatory protein; Provisional; Region: PRK05339 259536004033 phosphoenolpyruvate synthase; Validated; Region: PRK06464 259536004034 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 259536004035 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 259536004036 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 259536004037 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 259536004038 RDD family; Region: RDD; pfam06271 259536004039 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 259536004040 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 259536004041 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 259536004042 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 259536004043 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 259536004044 GntP family transporter 259536004045 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 259536004046 transposase 259536004047 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 259536004048 homotrimer interaction site [polypeptide binding]; other site 259536004049 putative active site [active] 259536004050 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 259536004051 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 259536004052 hydroxyglutarate oxidase; Provisional; Region: PRK11728 259536004053 Part of AAA domain; Region: AAA_19; pfam13245 259536004054 NnrS protein; Region: NnrS; pfam05940 259536004055 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 259536004056 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 259536004057 NAD(P) binding site [chemical binding]; other site 259536004058 catalytic residues [active] 259536004059 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 259536004060 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 259536004061 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 259536004062 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 259536004063 dimer interface [polypeptide binding]; other site 259536004064 active site 259536004065 metal binding site [ion binding]; metal-binding site 259536004066 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 259536004067 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 259536004068 potential catalytic triad [active] 259536004069 conserved cys residue [active] 259536004070 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 259536004071 N-terminal domain interface [polypeptide binding]; other site 259536004072 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 259536004073 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 259536004074 catalytic residue [active] 259536004075 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 259536004076 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 259536004077 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 259536004078 HlyD family secretion protein; Region: HlyD_3; pfam13437 259536004079 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 259536004080 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 259536004081 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 259536004082 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 259536004083 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 259536004084 active site 259536004085 substrate binding site [chemical binding]; other site 259536004086 metal binding site [ion binding]; metal-binding site 259536004087 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 259536004088 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 259536004089 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 259536004090 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 259536004091 active site 259536004092 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 259536004093 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 259536004094 active site 259536004095 HIGH motif; other site 259536004096 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 259536004097 KMSKS motif; other site 259536004098 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 259536004099 tRNA binding surface [nucleotide binding]; other site 259536004100 anticodon binding site; other site 259536004101 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 259536004102 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 259536004103 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 259536004104 active site 259536004105 catalytic site [active] 259536004106 metal binding site [ion binding]; metal-binding site 259536004107 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 259536004108 Fatty acid desaturase; Region: FA_desaturase; pfam00487 259536004109 Di-iron ligands [ion binding]; other site 259536004110 Uncharacterized conserved protein [Function unknown]; Region: COG0397 259536004111 hypothetical protein; Validated; Region: PRK00029 259536004112 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 259536004113 Malic enzyme, N-terminal domain; Region: malic; pfam00390 259536004114 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 259536004115 putative NAD(P) binding site [chemical binding]; other site 259536004116 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 259536004117 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 259536004118 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 259536004119 active site 259536004120 NTP binding site [chemical binding]; other site 259536004121 metal binding triad [ion binding]; metal-binding site 259536004122 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 259536004123 pteridine reductase; Provisional; Region: PRK09135 259536004124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 259536004125 NAD(P) binding site [chemical binding]; other site 259536004126 active site 259536004127 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 259536004128 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 259536004129 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 259536004130 active site 259536004131 DNA binding site [nucleotide binding] 259536004132 Int/Topo IB signature motif; other site 259536004133 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 259536004134 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 259536004135 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 259536004136 ATP binding site [chemical binding]; other site 259536004137 substrate interface [chemical binding]; other site 259536004138 Patatin [General function prediction only]; Region: COG3621 259536004139 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 259536004140 active site 259536004141 nucleophile elbow; other site 259536004142 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 259536004143 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 259536004144 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 259536004145 Protein of unknown function DUF262; Region: DUF262; pfam03235 259536004146 Uncharacterized conserved protein [Function unknown]; Region: COG1479 259536004147 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 259536004148 Protein of unknown function DUF262; Region: DUF262; pfam03235 259536004149 Uncharacterized conserved protein [Function unknown]; Region: COG1479 259536004150 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 259536004151 WYL domain; Region: WYL; pfam13280 259536004152 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 259536004153 active site 259536004154 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 259536004155 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 259536004156 malate dehydrogenase; Provisional; Region: PRK13529 259536004157 Malic enzyme, N-terminal domain; Region: malic; pfam00390 259536004158 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 259536004159 NAD(P) binding site [chemical binding]; other site 259536004160 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 259536004161 homodimer interface [polypeptide binding]; other site 259536004162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536004163 catalytic residue [active] 259536004164 serine racemase; Region: PLN02970 259536004165 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 259536004166 tetramer interface [polypeptide binding]; other site 259536004167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536004168 catalytic residue [active] 259536004169 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 259536004170 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 259536004171 dimer interface [polypeptide binding]; other site 259536004172 active site 259536004173 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 259536004174 substrate binding site [chemical binding]; other site 259536004175 catalytic residue [active] 259536004176 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 259536004177 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 259536004178 Uncharacterized conserved protein [Function unknown]; Region: COG0398 259536004179 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; cl02915 259536004180 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 259536004181 mercuric reductase; Validated; Region: PRK06370 259536004182 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 259536004183 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 259536004184 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 259536004185 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 259536004186 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 259536004187 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 259536004188 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 259536004189 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 259536004190 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 259536004191 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 259536004192 motif II; other site 259536004193 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 259536004194 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 259536004195 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 259536004196 dimer interface [polypeptide binding]; other site 259536004197 active site 259536004198 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 259536004199 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 259536004200 substrate binding site [chemical binding]; other site 259536004201 oxyanion hole (OAH) forming residues; other site 259536004202 trimer interface [polypeptide binding]; other site 259536004203 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 259536004204 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 259536004205 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 259536004206 CoA-transferase family III; Region: CoA_transf_3; pfam02515 259536004207 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 259536004208 Pirin-related protein [General function prediction only]; Region: COG1741 259536004209 Pirin; Region: Pirin; pfam02678 259536004210 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 259536004211 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 259536004212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536004213 homodimer interface [polypeptide binding]; other site 259536004214 catalytic residue [active] 259536004215 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 259536004216 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 259536004217 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 259536004218 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 259536004219 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 259536004220 active site 259536004221 homodimer interface [polypeptide binding]; other site 259536004222 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 259536004223 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 259536004224 dimerization interface 3.5A [polypeptide binding]; other site 259536004225 active site 259536004226 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 259536004227 rRNA binding site [nucleotide binding]; other site 259536004228 predicted 30S ribosome binding site; other site 259536004229 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 259536004230 tartrate dehydrogenase; Region: TTC; TIGR02089 259536004231 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 259536004232 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 259536004233 substrate binding site [chemical binding]; other site 259536004234 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 259536004235 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 259536004236 substrate binding site [chemical binding]; other site 259536004237 ligand binding site [chemical binding]; other site 259536004238 Transcriptional regulator [Transcription]; Region: LysR; COG0583 259536004239 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 259536004240 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 259536004241 dimerization interface [polypeptide binding]; other site 259536004242 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 259536004243 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 259536004244 Na binding site [ion binding]; other site 259536004245 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 259536004246 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 259536004247 SlyX; Region: SlyX; pfam04102 259536004248 ABC transporter ATPase component; Reviewed; Region: PRK11147 259536004249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536004250 Walker A/P-loop; other site 259536004251 ATP binding site [chemical binding]; other site 259536004252 Q-loop/lid; other site 259536004253 ABC transporter signature motif; other site 259536004254 Walker B; other site 259536004255 D-loop; other site 259536004256 H-loop/switch region; other site 259536004257 ABC transporter; Region: ABC_tran_2; pfam12848 259536004258 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 259536004259 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 259536004260 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 259536004261 [2Fe-2S] cluster binding site [ion binding]; other site 259536004262 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 259536004263 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 259536004264 Qi binding site; other site 259536004265 intrachain domain interface; other site 259536004266 interchain domain interface [polypeptide binding]; other site 259536004267 heme bH binding site [chemical binding]; other site 259536004268 heme bL binding site [chemical binding]; other site 259536004269 Qo binding site; other site 259536004270 interchain domain interface [polypeptide binding]; other site 259536004271 intrachain domain interface; other site 259536004272 Qi binding site; other site 259536004273 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 259536004274 Qo binding site; other site 259536004275 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 259536004276 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 259536004277 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 259536004278 N-terminal domain interface [polypeptide binding]; other site 259536004279 dimer interface [polypeptide binding]; other site 259536004280 substrate binding pocket (H-site) [chemical binding]; other site 259536004281 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 259536004282 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 259536004283 trimer interface [polypeptide binding]; other site 259536004284 active site 259536004285 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 259536004286 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 259536004287 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 259536004288 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 259536004289 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 259536004290 classical (c) SDRs; Region: SDR_c; cd05233 259536004291 NAD(P) binding site [chemical binding]; other site 259536004292 active site 259536004293 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 259536004294 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 259536004295 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 259536004296 fructuronate transporter; Provisional; Region: PRK10034; cl15264 259536004297 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 259536004298 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 259536004299 active site 259536004300 HIGH motif; other site 259536004301 KMSKS motif; other site 259536004302 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 259536004303 tRNA binding surface [nucleotide binding]; other site 259536004304 anticodon binding site; other site 259536004305 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 259536004306 dimer interface [polypeptide binding]; other site 259536004307 putative tRNA-binding site [nucleotide binding]; other site 259536004308 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 259536004309 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 259536004310 zinc binding site [ion binding]; other site 259536004311 putative ligand binding site [chemical binding]; other site 259536004312 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 259536004313 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 259536004314 zinc binding site [ion binding]; other site 259536004315 putative ligand binding site [chemical binding]; other site 259536004316 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 259536004317 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 259536004318 TM-ABC transporter signature motif; other site 259536004319 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 259536004320 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536004321 Walker A/P-loop; other site 259536004322 ATP binding site [chemical binding]; other site 259536004323 Q-loop/lid; other site 259536004324 ABC transporter signature motif; other site 259536004325 Walker B; other site 259536004326 D-loop; other site 259536004327 H-loop/switch region; other site 259536004328 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 259536004329 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 259536004330 active site 259536004331 phosphorylation site [posttranslational modification] 259536004332 intermolecular recognition site; other site 259536004333 dimerization interface [polypeptide binding]; other site 259536004334 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 259536004335 DNA binding residues [nucleotide binding] 259536004336 dimerization interface [polypeptide binding]; other site 259536004337 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 259536004338 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 259536004339 dimer interface [polypeptide binding]; other site 259536004340 phosphorylation site [posttranslational modification] 259536004341 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 259536004342 ATP binding site [chemical binding]; other site 259536004343 G-X-G motif; other site 259536004344 Cytochrome c; Region: Cytochrom_C; pfam00034 259536004345 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 259536004346 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 259536004347 Cytochrome c; Region: Cytochrom_C; pfam00034 259536004348 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 259536004349 Cytochrome c; Region: Cytochrom_C; pfam00034 259536004350 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 259536004351 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 259536004352 putative molybdopterin cofactor binding site [chemical binding]; other site 259536004353 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 259536004354 putative molybdopterin cofactor binding site; other site 259536004355 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 259536004356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 259536004357 HTH-like domain; Region: HTH_21; pfam13276 259536004358 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 259536004359 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 259536004360 dimerization interface [polypeptide binding]; other site 259536004361 DNA binding residues [nucleotide binding] 259536004362 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 259536004363 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 259536004364 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 259536004365 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 259536004366 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 259536004367 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 259536004368 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 259536004369 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 259536004370 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 259536004371 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 259536004372 Transposase; Region: HTH_Tnp_1; pfam01527 259536004373 putative transposase OrfB; Reviewed; Region: PHA02517 259536004374 HTH-like domain; Region: HTH_21; pfam13276 259536004375 Integrase core domain; Region: rve; pfam00665 259536004376 Integrase core domain; Region: rve_3; pfam13683 259536004377 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 259536004378 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 259536004379 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 259536004380 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 259536004381 Tetramer interface [polypeptide binding]; other site 259536004382 active site 259536004383 FMN-binding site [chemical binding]; other site 259536004384 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 259536004385 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 259536004386 S-adenosylmethionine binding site [chemical binding]; other site 259536004387 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 259536004388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 259536004389 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 259536004390 Helix-turn-helix domain; Region: HTH_28; pfam13518 259536004391 Winged helix-turn helix; Region: HTH_29; pfam13551 259536004392 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 259536004393 Helix-turn-helix domain; Region: HTH_28; pfam13518 259536004394 putative transposase OrfB; Reviewed; Region: PHA02517 259536004395 HTH-like domain; Region: HTH_21; pfam13276 259536004396 Integrase core domain; Region: rve; pfam00665 259536004397 Integrase core domain; Region: rve_2; pfam13333 259536004398 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 259536004399 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 259536004400 motif 1; other site 259536004401 active site 259536004402 motif 2; other site 259536004403 motif 3; other site 259536004404 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 259536004405 aspartate kinase; Reviewed; Region: PRK06635 259536004406 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 259536004407 putative nucleotide binding site [chemical binding]; other site 259536004408 putative catalytic residues [active] 259536004409 putative Mg ion binding site [ion binding]; other site 259536004410 putative aspartate binding site [chemical binding]; other site 259536004411 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 259536004412 putative allosteric regulatory site; other site 259536004413 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 259536004414 carbon storage regulator; Provisional; Region: PRK01712 259536004415 HopJ type III effector protein; Region: HopJ; pfam08888 259536004416 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 259536004417 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 259536004418 Bax inhibitor 1 like; Region: BaxI_1; cl17691 259536004419 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 259536004420 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 259536004421 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 259536004422 metal-binding site [ion binding] 259536004423 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 259536004424 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 259536004425 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 259536004426 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 259536004427 Transglycosylase; Region: Transgly; pfam00912 259536004428 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 259536004429 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 259536004430 binding surface 259536004431 Tetratricopeptide repeat; Region: TPR_16; pfam13432 259536004432 TPR motif; other site 259536004433 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 259536004434 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 259536004435 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 259536004436 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 259536004437 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 259536004438 purine monophosphate binding site [chemical binding]; other site 259536004439 dimer interface [polypeptide binding]; other site 259536004440 putative catalytic residues [active] 259536004441 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 259536004442 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 259536004443 periplasmic folding chaperone; Provisional; Region: PRK10788 259536004444 SurA N-terminal domain; Region: SurA_N_3; cl07813 259536004445 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 259536004446 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 259536004447 IHF dimer interface [polypeptide binding]; other site 259536004448 IHF - DNA interface [nucleotide binding]; other site 259536004449 Transcriptional regulator; Region: Rrf2; cl17282 259536004450 Rrf2 family protein; Region: rrf2_super; TIGR00738 259536004451 cysteine desulfurase; Provisional; Region: PRK14012 259536004452 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 259536004453 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 259536004454 catalytic residue [active] 259536004455 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 259536004456 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 259536004457 trimerization site [polypeptide binding]; other site 259536004458 active site 259536004459 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 259536004460 co-chaperone HscB; Provisional; Region: hscB; PRK05014 259536004461 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; cl02542 259536004462 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 259536004463 chaperone protein HscA; Provisional; Region: hscA; PRK05183 259536004464 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 259536004465 nucleotide binding site [chemical binding]; other site 259536004466 putative NEF/HSP70 interaction site [polypeptide binding]; other site 259536004467 SBD interface [polypeptide binding]; other site 259536004468 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 259536004469 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 259536004470 catalytic loop [active] 259536004471 iron binding site [ion binding]; other site 259536004472 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 259536004473 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 259536004474 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 259536004475 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 259536004476 ATP binding site [chemical binding]; other site 259536004477 putative Mg++ binding site [ion binding]; other site 259536004478 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 259536004479 nucleotide binding region [chemical binding]; other site 259536004480 ATP-binding site [chemical binding]; other site 259536004481 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 259536004482 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 259536004483 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 259536004484 NADH(P)-binding; Region: NAD_binding_10; pfam13460 259536004485 NAD binding site [chemical binding]; other site 259536004486 active site 259536004487 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 259536004488 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 259536004489 catalytic core [active] 259536004490 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 259536004491 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 259536004492 active site 259536004493 metal binding site [ion binding]; metal-binding site 259536004494 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 259536004495 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 259536004496 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 259536004497 active site 259536004498 dimer interface [polypeptide binding]; other site 259536004499 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 259536004500 IHF - DNA interface [nucleotide binding]; other site 259536004501 IHF dimer interface [polypeptide binding]; other site 259536004502 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 259536004503 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 259536004504 RNA binding site [nucleotide binding]; other site 259536004505 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 259536004506 RNA binding site [nucleotide binding]; other site 259536004507 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 259536004508 RNA binding site [nucleotide binding]; other site 259536004509 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 259536004510 RNA binding site [nucleotide binding]; other site 259536004511 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 259536004512 RNA binding site [nucleotide binding]; other site 259536004513 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 259536004514 RNA binding site [nucleotide binding]; other site 259536004515 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 259536004516 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 259536004517 CMP-binding site; other site 259536004518 The sites determining sugar specificity; other site 259536004519 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 259536004520 nucleoside/Zn binding site; other site 259536004521 dimer interface [polypeptide binding]; other site 259536004522 catalytic motif [active] 259536004523 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 259536004524 ligand binding site [chemical binding]; other site 259536004525 active site 259536004526 UGI interface [polypeptide binding]; other site 259536004527 catalytic site [active] 259536004528 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 259536004529 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 259536004530 Walker A motif; other site 259536004531 ATP binding site [chemical binding]; other site 259536004532 Walker B motif; other site 259536004533 arginine finger; other site 259536004534 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 259536004535 Walker A motif; other site 259536004536 ATP binding site [chemical binding]; other site 259536004537 Walker B motif; other site 259536004538 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 259536004539 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 259536004540 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 259536004541 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 259536004542 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 259536004543 substrate binding site [chemical binding]; other site 259536004544 active site 259536004545 gamma-glutamyl kinase; Provisional; Region: PRK05429 259536004546 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 259536004547 nucleotide binding site [chemical binding]; other site 259536004548 homotetrameric interface [polypeptide binding]; other site 259536004549 putative phosphate binding site [ion binding]; other site 259536004550 putative allosteric binding site; other site 259536004551 PUA domain; Region: PUA; pfam01472 259536004552 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 259536004553 GTP1/OBG; Region: GTP1_OBG; pfam01018 259536004554 Obg GTPase; Region: Obg; cd01898 259536004555 G1 box; other site 259536004556 GTP/Mg2+ binding site [chemical binding]; other site 259536004557 Switch I region; other site 259536004558 G2 box; other site 259536004559 G3 box; other site 259536004560 Switch II region; other site 259536004561 G4 box; other site 259536004562 G5 box; other site 259536004563 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 259536004564 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 259536004565 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 259536004566 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 259536004567 hypothetical protein; Provisional; Region: PRK08999 259536004568 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 259536004569 active site 259536004570 8-oxo-dGMP binding site [chemical binding]; other site 259536004571 nudix motif; other site 259536004572 metal binding site [ion binding]; metal-binding site 259536004573 Thiamine monophosphate synthase/TENI; Region: TMP-TENI; cl17228 259536004574 Hemin uptake protein hemP; Region: hemP; cl10043 259536004575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 259536004576 Family of unknown function (DUF490); Region: DUF490; pfam04357 259536004577 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 259536004578 Surface antigen; Region: Bac_surface_Ag; pfam01103 259536004579 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 259536004580 H+ Antiporter protein; Region: 2A0121; TIGR00900 259536004581 putative substrate translocation pore; other site 259536004582 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 259536004583 diiron binding motif [ion binding]; other site 259536004584 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 259536004585 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 259536004586 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 259536004587 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 259536004588 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 259536004589 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 259536004590 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 259536004591 Substrate binding site; other site 259536004592 metal-binding site 259536004593 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 259536004594 Phosphotransferase enzyme family; Region: APH; pfam01636 259536004595 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 259536004596 OstA-like protein; Region: OstA; cl00844 259536004597 Organic solvent tolerance protein; Region: OstA_C; pfam04453 259536004598 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 259536004599 SurA N-terminal domain; Region: SurA_N; pfam09312 259536004600 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 259536004601 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 259536004602 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 259536004603 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 259536004604 active site 259536004605 FMN binding site [chemical binding]; other site 259536004606 substrate binding site [chemical binding]; other site 259536004607 putative catalytic residue [active] 259536004608 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 259536004609 putative catalytic site [active] 259536004610 putative metal binding site [ion binding]; other site 259536004611 putative phosphate binding site [ion binding]; other site 259536004612 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 259536004613 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 259536004614 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 259536004615 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 259536004616 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 259536004617 Na2 binding site [ion binding]; other site 259536004618 putative substrate binding site 1 [chemical binding]; other site 259536004619 Na binding site 1 [ion binding]; other site 259536004620 putative substrate binding site 2 [chemical binding]; other site 259536004621 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 259536004622 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 259536004623 active site 259536004624 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 259536004625 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 259536004626 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 259536004627 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 259536004628 trimer interface [polypeptide binding]; other site 259536004629 active site 259536004630 UDP-GlcNAc binding site [chemical binding]; other site 259536004631 lipid binding site [chemical binding]; lipid-binding site 259536004632 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 259536004633 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 259536004634 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 259536004635 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 259536004636 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 259536004637 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 259536004638 Surface antigen; Region: Bac_surface_Ag; pfam01103 259536004639 zinc metallopeptidase RseP; Provisional; Region: PRK10779 259536004640 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 259536004641 active site 259536004642 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 259536004643 protein binding site [polypeptide binding]; other site 259536004644 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 259536004645 protein binding site [polypeptide binding]; other site 259536004646 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 259536004647 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 259536004648 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 259536004649 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 259536004650 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 259536004651 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 259536004652 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 259536004653 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 259536004654 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 259536004655 catalytic residue [active] 259536004656 putative FPP diphosphate binding site; other site 259536004657 putative FPP binding hydrophobic cleft; other site 259536004658 dimer interface [polypeptide binding]; other site 259536004659 putative IPP diphosphate binding site; other site 259536004660 ribosome recycling factor; Reviewed; Region: frr; PRK00083 259536004661 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 259536004662 hinge region; other site 259536004663 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 259536004664 putative nucleotide binding site [chemical binding]; other site 259536004665 uridine monophosphate binding site [chemical binding]; other site 259536004666 homohexameric interface [polypeptide binding]; other site 259536004667 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 259536004668 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 259536004669 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 259536004670 FeS/SAM binding site; other site 259536004671 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 259536004672 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 259536004673 dimer interface [polypeptide binding]; other site 259536004674 phosphorylation site [posttranslational modification] 259536004675 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 259536004676 ATP binding site [chemical binding]; other site 259536004677 Mg2+ binding site [ion binding]; other site 259536004678 G-X-G motif; other site 259536004679 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 259536004680 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 259536004681 active site 259536004682 phosphorylation site [posttranslational modification] 259536004683 intermolecular recognition site; other site 259536004684 dimerization interface [polypeptide binding]; other site 259536004685 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 259536004686 Walker A motif; other site 259536004687 ATP binding site [chemical binding]; other site 259536004688 Walker B motif; other site 259536004689 arginine finger; other site 259536004690 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 259536004691 Catalytic domain of Protein Kinases; Region: PKc; cd00180 259536004692 active site 259536004693 ATP binding site [chemical binding]; other site 259536004694 substrate binding site [chemical binding]; other site 259536004695 activation loop (A-loop); other site 259536004696 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 259536004697 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 259536004698 Walker A motif; other site 259536004699 ATP binding site [chemical binding]; other site 259536004700 Walker B motif; other site 259536004701 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 259536004702 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 259536004703 putative C-terminal domain interface [polypeptide binding]; other site 259536004704 putative GSH binding site (G-site) [chemical binding]; other site 259536004705 putative dimer interface [polypeptide binding]; other site 259536004706 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 259536004707 putative N-terminal domain interface [polypeptide binding]; other site 259536004708 putative dimer interface [polypeptide binding]; other site 259536004709 putative substrate binding pocket (H-site) [chemical binding]; other site 259536004710 DNA gyrase subunit A; Validated; Region: PRK05560 259536004711 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 259536004712 CAP-like domain; other site 259536004713 active site 259536004714 primary dimer interface [polypeptide binding]; other site 259536004715 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 259536004716 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 259536004717 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 259536004718 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 259536004719 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 259536004720 Methyltransferase domain; Region: Methyltransf_31; pfam13847 259536004721 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 259536004722 S-adenosylmethionine binding site [chemical binding]; other site 259536004723 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 259536004724 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536004725 Walker A/P-loop; other site 259536004726 ATP binding site [chemical binding]; other site 259536004727 Q-loop/lid; other site 259536004728 ABC transporter signature motif; other site 259536004729 Walker B; other site 259536004730 D-loop; other site 259536004731 H-loop/switch region; other site 259536004732 TOBE domain; Region: TOBE_2; pfam08402 259536004733 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 259536004734 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 259536004735 dimer interface [polypeptide binding]; other site 259536004736 conserved gate region; other site 259536004737 putative PBP binding loops; other site 259536004738 ABC-ATPase subunit interface; other site 259536004739 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 259536004740 dimer interface [polypeptide binding]; other site 259536004741 conserved gate region; other site 259536004742 putative PBP binding loops; other site 259536004743 ABC-ATPase subunit interface; other site 259536004744 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 259536004745 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 259536004746 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 259536004747 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 259536004748 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 259536004749 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 259536004750 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 259536004751 Sel1-like repeats; Region: SEL1; smart00671 259536004752 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 259536004753 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 259536004754 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 259536004755 putative active site [active] 259536004756 catalytic site [active] 259536004757 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 259536004758 putative active site [active] 259536004759 catalytic site [active] 259536004760 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 259536004761 catalytic site [active] 259536004762 putative active site [active] 259536004763 putative substrate binding site [chemical binding]; other site 259536004764 dimer interface [polypeptide binding]; other site 259536004765 GTPase RsgA; Reviewed; Region: PRK12288 259536004766 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 259536004767 RNA binding site [nucleotide binding]; other site 259536004768 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 259536004769 GTPase/Zn-binding domain interface [polypeptide binding]; other site 259536004770 GTP/Mg2+ binding site [chemical binding]; other site 259536004771 G4 box; other site 259536004772 G5 box; other site 259536004773 G1 box; other site 259536004774 Switch I region; other site 259536004775 G2 box; other site 259536004776 G3 box; other site 259536004777 Switch II region; other site 259536004778 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 259536004779 active site residue [active] 259536004780 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 259536004781 GSH binding site [chemical binding]; other site 259536004782 catalytic residues [active] 259536004783 preprotein translocase subunit SecB; Validated; Region: PRK05751 259536004784 SecA binding site; other site 259536004785 Preprotein binding site; other site 259536004786 adenylate kinase; Reviewed; Region: adk; PRK00279 259536004787 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 259536004788 AMP-binding site [chemical binding]; other site 259536004789 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 259536004790 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 259536004791 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 259536004792 binding surface 259536004793 TPR motif; other site 259536004794 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 259536004795 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 259536004796 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 259536004797 catalytic residues [active] 259536004798 central insert; other site 259536004799 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 259536004800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 259536004801 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 259536004802 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 259536004803 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 259536004804 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 259536004805 S-adenosylmethionine binding site [chemical binding]; other site 259536004806 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 259536004807 23S rRNA interface [nucleotide binding]; other site 259536004808 L3 interface [polypeptide binding]; other site 259536004809 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 259536004810 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 259536004811 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 259536004812 putative acyl-acceptor binding pocket; other site 259536004813 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 259536004814 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 259536004815 active site 259536004816 HIGH motif; other site 259536004817 dimer interface [polypeptide binding]; other site 259536004818 KMSKS motif; other site 259536004819 ScpA/B protein; Region: ScpA_ScpB; cl00598 259536004820 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 259536004821 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 259536004822 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 259536004823 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 259536004824 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 259536004825 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 259536004826 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 259536004827 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 259536004828 substrate binding pocket [chemical binding]; other site 259536004829 chain length determination region; other site 259536004830 substrate-Mg2+ binding site; other site 259536004831 catalytic residues [active] 259536004832 aspartate-rich region 1; other site 259536004833 active site lid residues [active] 259536004834 aspartate-rich region 2; other site 259536004835 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 259536004836 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 259536004837 HlyD family secretion protein; Region: HlyD_3; pfam13437 259536004838 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 259536004839 Protein export membrane protein; Region: SecD_SecF; cl14618 259536004840 Protein export membrane protein; Region: SecD_SecF; cl14618 259536004841 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 259536004842 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_aspartate_rich; cd04823 259536004843 dimer interface [polypeptide binding]; other site 259536004844 allosteric magnesium binding site [ion binding]; other site 259536004845 active site 259536004846 aspartate-rich active site metal binding site; other site 259536004847 Schiff base residues; other site 259536004848 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 259536004849 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 259536004850 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 259536004851 putative dimer interface [polypeptide binding]; other site 259536004852 N-terminal domain interface [polypeptide binding]; other site 259536004853 putative substrate binding pocket (H-site) [chemical binding]; other site 259536004854 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 259536004855 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 259536004856 H+ Antiporter protein; Region: 2A0121; TIGR00900 259536004857 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 259536004858 putative substrate translocation pore; other site 259536004859 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 259536004860 putative homodimer interface [polypeptide binding]; other site 259536004861 putative homotetramer interface [polypeptide binding]; other site 259536004862 putative metal binding site [ion binding]; other site 259536004863 putative homodimer-homodimer interface [polypeptide binding]; other site 259536004864 putative allosteric switch controlling residues; other site 259536004865 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 259536004866 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 259536004867 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 259536004868 Soluble P-type ATPase [General function prediction only]; Region: COG4087 259536004869 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 259536004870 Domain of unknown function (DUF305); Region: DUF305; cl17794 259536004871 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 259536004872 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 259536004873 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 259536004874 Multicopper oxidase; Region: Cu-oxidase; pfam00394 259536004875 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 259536004876 Protein of unknown function, DUF; Region: DUF411; cl01142 259536004877 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 259536004878 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 259536004879 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 259536004880 active site 259536004881 phosphorylation site [posttranslational modification] 259536004882 intermolecular recognition site; other site 259536004883 dimerization interface [polypeptide binding]; other site 259536004884 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 259536004885 DNA binding site [nucleotide binding] 259536004886 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 259536004887 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 259536004888 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 259536004889 dimer interface [polypeptide binding]; other site 259536004890 phosphorylation site [posttranslational modification] 259536004891 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 259536004892 ATP binding site [chemical binding]; other site 259536004893 Mg2+ binding site [ion binding]; other site 259536004894 G-X-G motif; other site 259536004895 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 259536004896 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 259536004897 HlyD family secretion protein; Region: HlyD_3; pfam13437 259536004898 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 259536004899 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 259536004900 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536004901 Walker A/P-loop; other site 259536004902 ATP binding site [chemical binding]; other site 259536004903 Q-loop/lid; other site 259536004904 ABC transporter signature motif; other site 259536004905 Walker B; other site 259536004906 D-loop; other site 259536004907 H-loop/switch region; other site 259536004908 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 259536004909 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 259536004910 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 259536004911 ligand binding site [chemical binding]; other site 259536004912 D-cysteine desulfhydrase; Validated; Region: PRK03910 259536004913 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 259536004914 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 259536004915 catalytic residue [active] 259536004916 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 259536004917 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 259536004918 TrkA-N domain; Region: TrkA_N; pfam02254 259536004919 TrkA-C domain; Region: TrkA_C; pfam02080 259536004920 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 259536004921 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 259536004922 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 259536004923 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 259536004924 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 259536004925 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 259536004926 PIF1-like helicase; Region: PIF1; pfam05970 259536004927 AAA domain; Region: AAA_30; pfam13604 259536004928 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 259536004929 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 259536004930 NAD(P) binding site [chemical binding]; other site 259536004931 catalytic residues [active] 259536004932 Protein of unknown function (DUF779); Region: DUF779; pfam05610 259536004933 choline dehydrogenase; Validated; Region: PRK02106 259536004934 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 259536004935 Nuclease-related domain; Region: NERD; pfam08378 259536004936 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 259536004937 transketolase; Reviewed; Region: PRK12753 259536004938 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 259536004939 TPP-binding site [chemical binding]; other site 259536004940 dimer interface [polypeptide binding]; other site 259536004941 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 259536004942 PYR/PP interface [polypeptide binding]; other site 259536004943 dimer interface [polypeptide binding]; other site 259536004944 TPP binding site [chemical binding]; other site 259536004945 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 259536004946 seryl-tRNA synthetase; Provisional; Region: PRK05431 259536004947 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 259536004948 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 259536004949 dimer interface [polypeptide binding]; other site 259536004950 active site 259536004951 motif 1; other site 259536004952 motif 2; other site 259536004953 motif 3; other site 259536004954 YcxB-like protein; Region: YcxB; pfam14317 259536004955 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 259536004956 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 259536004957 dimerization interface [polypeptide binding]; other site 259536004958 DPS ferroxidase diiron center [ion binding]; other site 259536004959 ion pore; other site 259536004960 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 259536004961 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 259536004962 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 259536004963 Walker A motif; other site 259536004964 ATP binding site [chemical binding]; other site 259536004965 Walker B motif; other site 259536004966 arginine finger; other site 259536004967 Domain of unknown function DUF20; Region: UPF0118; pfam01594 259536004968 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 259536004969 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 259536004970 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 259536004971 dimerization interface [polypeptide binding]; other site 259536004972 putative ATP binding site [chemical binding]; other site 259536004973 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 259536004974 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 259536004975 active site 259536004976 substrate binding site [chemical binding]; other site 259536004977 cosubstrate binding site; other site 259536004978 catalytic site [active] 259536004979 Transcriptional regulator [Transcription]; Region: LysR; COG0583 259536004980 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 259536004981 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 259536004982 substrate binding pocket [chemical binding]; other site 259536004983 dimerization interface [polypeptide binding]; other site 259536004984 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 259536004985 tetramer interface [polypeptide binding]; other site 259536004986 active site 259536004987 Mg2+/Mn2+ binding site [ion binding]; other site 259536004988 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 259536004989 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 259536004990 putative active site [active] 259536004991 putative metal binding residues [ion binding]; other site 259536004992 signature motif; other site 259536004993 putative triphosphate binding site [ion binding]; other site 259536004994 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 259536004995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 259536004996 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 259536004997 argininosuccinate synthase; Provisional; Region: PRK13820 259536004998 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 259536004999 ANP binding site [chemical binding]; other site 259536005000 Substrate Binding Site II [chemical binding]; other site 259536005001 Substrate Binding Site I [chemical binding]; other site 259536005002 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 259536005003 active site 259536005004 substrate binding pocket [chemical binding]; other site 259536005005 dimer interface [polypeptide binding]; other site 259536005006 ribonuclease T; Provisional; Region: PRK05168 259536005007 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 259536005008 active site 259536005009 catalytic site [active] 259536005010 substrate binding site [chemical binding]; other site 259536005011 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 259536005012 substrate binding site; other site 259536005013 dimer interface; other site 259536005014 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 259536005015 Septum formation initiator; Region: DivIC; cl17659 259536005016 enolase; Provisional; Region: eno; PRK00077 259536005017 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 259536005018 dimer interface [polypeptide binding]; other site 259536005019 metal binding site [ion binding]; metal-binding site 259536005020 substrate binding pocket [chemical binding]; other site 259536005021 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 259536005022 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 259536005023 metal-binding site [ion binding] 259536005024 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 259536005025 Soluble P-type ATPase [General function prediction only]; Region: COG4087 259536005026 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 259536005027 metal-binding site [ion binding] 259536005028 Heavy-metal-associated domain; Region: HMA; pfam00403 259536005029 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 259536005030 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 259536005031 CTP synthetase; Validated; Region: pyrG; PRK05380 259536005032 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 259536005033 Catalytic site [active] 259536005034 active site 259536005035 UTP binding site [chemical binding]; other site 259536005036 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 259536005037 active site 259536005038 putative oxyanion hole; other site 259536005039 catalytic triad [active] 259536005040 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 259536005041 trimer interface [polypeptide binding]; other site 259536005042 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 259536005043 eyelet of channel; other site 259536005044 malate synthase G; Provisional; Region: PRK02999 259536005045 active site 259536005046 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 259536005047 active site 259536005048 dinuclear metal binding site [ion binding]; other site 259536005049 dimerization interface [polypeptide binding]; other site 259536005050 polyphosphate kinase; Provisional; Region: PRK05443 259536005051 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 259536005052 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 259536005053 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 259536005054 putative active site [active] 259536005055 catalytic site [active] 259536005056 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 259536005057 putative domain interface [polypeptide binding]; other site 259536005058 putative active site [active] 259536005059 catalytic site [active] 259536005060 Transglycosylase; Region: Transgly; cl17702 259536005061 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 259536005062 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 259536005063 FAD binding domain; Region: FAD_binding_4; pfam01565 259536005064 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 259536005065 FAD binding domain; Region: FAD_binding_4; pfam01565 259536005066 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 259536005067 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 259536005068 Cysteine-rich domain; Region: CCG; pfam02754 259536005069 Cysteine-rich domain; Region: CCG; pfam02754 259536005070 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 259536005071 L-lactate permease; Region: Lactate_perm; cl00701 259536005072 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 259536005073 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 259536005074 phosphate binding site [ion binding]; other site 259536005075 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 259536005076 MltA-interacting protein MipA; Region: MipA; cl01504 259536005077 fumarate hydratase; Reviewed; Region: fumC; PRK00485 259536005078 Class II fumarases; Region: Fumarase_classII; cd01362 259536005079 active site 259536005080 tetramer interface [polypeptide binding]; other site 259536005081 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 259536005082 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 259536005083 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 259536005084 Found in ATP-dependent protease La (LON); Region: LON; smart00464 259536005085 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 259536005086 Walker A motif; other site 259536005087 ATP binding site [chemical binding]; other site 259536005088 Walker B motif; other site 259536005089 arginine finger; other site 259536005090 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 259536005091 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 259536005092 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 259536005093 active site 259536005094 interdomain interaction site; other site 259536005095 putative metal-binding site [ion binding]; other site 259536005096 nucleotide binding site [chemical binding]; other site 259536005097 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 259536005098 domain I; other site 259536005099 DNA binding groove [nucleotide binding] 259536005100 phosphate binding site [ion binding]; other site 259536005101 domain II; other site 259536005102 domain III; other site 259536005103 nucleotide binding site [chemical binding]; other site 259536005104 catalytic site [active] 259536005105 domain IV; other site 259536005106 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 259536005107 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 259536005108 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 259536005109 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 259536005110 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 259536005111 TolR protein; Region: tolR; TIGR02801 259536005112 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 259536005113 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 259536005114 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 259536005115 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 259536005116 Trp repressor protein; Region: Trp_repressor; cl17266 259536005117 anthranilate synthase component I, archaeal clade; Region: TrpE-arch; TIGR01820 259536005118 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 259536005119 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 259536005120 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 259536005121 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 259536005122 glutamine binding [chemical binding]; other site 259536005123 catalytic triad [active] 259536005124 glutamate dehydrogenase; Provisional; Region: PRK09414 259536005125 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 259536005126 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 259536005127 NAD(P) binding pocket [chemical binding]; other site 259536005128 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 259536005129 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 259536005130 substrate binding site [chemical binding]; other site 259536005131 catalytic Zn binding site [ion binding]; other site 259536005132 NAD binding site [chemical binding]; other site 259536005133 structural Zn binding site [ion binding]; other site 259536005134 dimer interface [polypeptide binding]; other site 259536005135 Transcriptional regulator [Transcription]; Region: LysR; COG0583 259536005136 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 259536005137 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 259536005138 dimerization interface [polypeptide binding]; other site 259536005139 Domain of unknown function DUF302; Region: DUF302; cl01364 259536005140 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 259536005141 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 259536005142 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 259536005143 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 259536005144 Protein of unknown function DUF58; Region: DUF58; pfam01882 259536005145 MoxR-like ATPases [General function prediction only]; Region: COG0714 259536005146 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 259536005147 Walker A motif; other site 259536005148 ATP binding site [chemical binding]; other site 259536005149 Walker B motif; other site 259536005150 arginine finger; other site 259536005151 Cytochrome c; Region: Cytochrom_C; cl11414 259536005152 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 259536005153 putative active site [active] 259536005154 heme pocket [chemical binding]; other site 259536005155 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 259536005156 metal binding site [ion binding]; metal-binding site 259536005157 active site 259536005158 I-site; other site 259536005159 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 259536005160 Radical SAM superfamily; Region: Radical_SAM; pfam04055 259536005161 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 259536005162 FeS/SAM binding site; other site 259536005163 elongation factor P; Validated; Region: PRK00529 259536005164 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 259536005165 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 259536005166 RNA binding site [nucleotide binding]; other site 259536005167 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 259536005168 RNA binding site [nucleotide binding]; other site 259536005169 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 259536005170 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 259536005171 putative ATP binding site [chemical binding]; other site 259536005172 putative substrate interface [chemical binding]; other site 259536005173 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 259536005174 active site 259536005175 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 259536005176 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 259536005177 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 259536005178 dimer interface [polypeptide binding]; other site 259536005179 ssDNA binding site [nucleotide binding]; other site 259536005180 tetramer (dimer of dimers) interface [polypeptide binding]; other site 259536005181 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 259536005182 Major Facilitator Superfamily; Region: MFS_1; pfam07690 259536005183 putative substrate translocation pore; other site 259536005184 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 259536005185 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 259536005186 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536005187 Walker A/P-loop; other site 259536005188 ATP binding site [chemical binding]; other site 259536005189 Q-loop/lid; other site 259536005190 ABC transporter signature motif; other site 259536005191 Walker B; other site 259536005192 D-loop; other site 259536005193 H-loop/switch region; other site 259536005194 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 259536005195 putative transposase OrfB; Reviewed; Region: PHA02517 259536005196 HTH-like domain; Region: HTH_21; pfam13276 259536005197 Integrase core domain; Region: rve; pfam00665 259536005198 Integrase core domain; Region: rve_3; pfam13683 259536005199 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 259536005200 Transposase; Region: HTH_Tnp_1; pfam01527 259536005201 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 259536005202 Protein of unknown function (DUF503); Region: DUF503; pfam04456 259536005203 Uncharacterized conserved protein [Function unknown]; Region: COG2966 259536005204 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 259536005205 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 259536005206 glutathione reductase; Validated; Region: PRK06116 259536005207 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 259536005208 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 259536005209 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 259536005210 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 259536005211 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 259536005212 Coenzyme A binding pocket [chemical binding]; other site 259536005213 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 259536005214 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 259536005215 Permutation of conserved domain; other site 259536005216 active site 259536005217 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 259536005218 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 259536005219 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 259536005220 active site 259536005221 Mor transcription activator family; Region: Mor; cl02360 259536005222 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 259536005223 Intracellular septation protein A; Region: IspA; pfam04279 259536005224 YciI-like protein; Reviewed; Region: PRK12863 259536005225 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 259536005226 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 259536005227 Uncharacterized conserved protein [Function unknown]; Region: COG4121 259536005228 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 259536005229 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 259536005230 UbiA prenyltransferase family; Region: UbiA; pfam01040 259536005231 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 259536005232 S-adenosylmethionine binding site [chemical binding]; other site 259536005233 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 259536005234 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 259536005235 Glycoprotease family; Region: Peptidase_M22; pfam00814 259536005236 signal recognition particle protein; Provisional; Region: PRK10867 259536005237 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 259536005238 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 259536005239 P loop; other site 259536005240 GTP binding site [chemical binding]; other site 259536005241 Signal peptide binding domain; Region: SRP_SPB; pfam02978 259536005242 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 259536005243 Transposase; Region: HTH_Tnp_IS630; pfam01710 259536005244 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 259536005245 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 259536005246 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 259536005247 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 259536005248 substrate binding site [chemical binding]; other site 259536005249 hexamer interface [polypeptide binding]; other site 259536005250 metal binding site [ion binding]; metal-binding site 259536005251 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 259536005252 S-formylglutathione hydrolase; Region: PLN02442 259536005253 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 259536005254 Peptidase C13 family; Region: Peptidase_C13; cl02159 259536005255 heat shock protein 90; Provisional; Region: PRK05218 259536005256 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 259536005257 ATP binding site [chemical binding]; other site 259536005258 Mg2+ binding site [ion binding]; other site 259536005259 G-X-G motif; other site 259536005260 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 259536005261 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 259536005262 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 259536005263 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 259536005264 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 259536005265 catalytic site [active] 259536005266 G-X2-G-X-G-K; other site 259536005267 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 259536005268 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 259536005269 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 259536005270 Zn2+ binding site [ion binding]; other site 259536005271 Mg2+ binding site [ion binding]; other site 259536005272 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 259536005273 metal binding triad [ion binding]; metal-binding site 259536005274 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 259536005275 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 259536005276 homotrimer interaction site [polypeptide binding]; other site 259536005277 putative active site [active] 259536005278 primosome assembly protein PriA; Validated; Region: PRK05580 259536005279 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 259536005280 ATP binding site [chemical binding]; other site 259536005281 putative Mg++ binding site [ion binding]; other site 259536005282 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; cl17351 259536005283 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 259536005284 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 259536005285 TrkA-N domain; Region: TrkA_N; pfam02254 259536005286 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 259536005287 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 259536005288 S-adenosylmethionine binding site [chemical binding]; other site 259536005289 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 259536005290 hexamer interface [polypeptide binding]; other site 259536005291 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 259536005292 Walker A motif; other site 259536005293 ATP binding site [chemical binding]; other site 259536005294 Walker B motif; other site 259536005295 recombination regulator RecX; Reviewed; Region: recX; PRK00117 259536005296 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 259536005297 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 259536005298 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 259536005299 dihydropteroate synthase; Region: DHPS; TIGR01496 259536005300 substrate binding pocket [chemical binding]; other site 259536005301 dimer interface [polypeptide binding]; other site 259536005302 inhibitor binding site; inhibition site 259536005303 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 259536005304 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 259536005305 Walker A motif; other site 259536005306 ATP binding site [chemical binding]; other site 259536005307 Walker B motif; other site 259536005308 arginine finger; other site 259536005309 Peptidase family M41; Region: Peptidase_M41; pfam01434 259536005310 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 259536005311 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 259536005312 S-adenosylmethionine binding site [chemical binding]; other site 259536005313 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 259536005314 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 259536005315 putative heme binding site [chemical binding]; other site 259536005316 NlpC/P60 family; Region: NLPC_P60; cl17555 259536005317 Protein of unknown function (DUF721); Region: DUF721; cl02324 259536005318 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 259536005319 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 259536005320 cell division protein FtsZ; Validated; Region: PRK09330 259536005321 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 259536005322 nucleotide binding site [chemical binding]; other site 259536005323 SulA interaction site; other site 259536005324 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 259536005325 Cell division protein FtsA; Region: FtsA; smart00842 259536005326 Cell division protein FtsA; Region: FtsA; pfam14450 259536005327 Cell division protein FtsQ; Region: FtsQ; pfam03799 259536005328 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 259536005329 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 259536005330 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 259536005331 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 259536005332 ATP-grasp domain; Region: ATP-grasp_4; cl17255 259536005333 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 259536005334 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 259536005335 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 259536005336 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 259536005337 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 259536005338 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 259536005339 active site 259536005340 homodimer interface [polypeptide binding]; other site 259536005341 glutathione synthetase; Provisional; Region: PRK05246 259536005342 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 259536005343 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 259536005344 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 259536005345 active site 259536005346 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 259536005347 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 259536005348 putative NAD(P) binding site [chemical binding]; other site 259536005349 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 259536005350 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 259536005351 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 259536005352 amidase catalytic site [active] 259536005353 Zn binding residues [ion binding]; other site 259536005354 substrate binding site [chemical binding]; other site 259536005355 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 259536005356 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 259536005357 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 259536005358 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 259536005359 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 259536005360 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 259536005361 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 259536005362 active site 259536005363 Riboflavin kinase; Region: Flavokinase; smart00904 259536005364 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 259536005365 malate dehydrogenase; Provisional; Region: PRK05442 259536005366 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 259536005367 NAD(P) binding site [chemical binding]; other site 259536005368 dimer interface [polypeptide binding]; other site 259536005369 malate binding site [chemical binding]; other site 259536005370 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 259536005371 B1 nucleotide binding pocket [chemical binding]; other site 259536005372 B2 nucleotide binding pocket [chemical binding]; other site 259536005373 CAS motifs; other site 259536005374 active site 259536005375 lytic murein transglycosylase; Provisional; Region: PRK11619 259536005376 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 259536005377 N-acetyl-D-glucosamine binding site [chemical binding]; other site 259536005378 catalytic residue [active] 259536005379 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 259536005380 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 259536005381 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 259536005382 FeS/SAM binding site; other site 259536005383 TRAM domain; Region: TRAM; cl01282 259536005384 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 259536005385 acetylornithine deacetylase; Provisional; Region: PRK07522 259536005386 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 259536005387 metal binding site [ion binding]; metal-binding site 259536005388 putative dimer interface [polypeptide binding]; other site 259536005389 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 259536005390 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 259536005391 Cell division protein ZapA; Region: ZapA; pfam05164 259536005392 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 259536005393 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 259536005394 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 259536005395 dimer interface [polypeptide binding]; other site 259536005396 motif 1; other site 259536005397 active site 259536005398 motif 2; other site 259536005399 motif 3; other site 259536005400 PspC domain; Region: PspC; pfam04024 259536005401 Protein of unknown function (DUF962); Region: DUF962; cl01879 259536005402 Nitroreductase-like family 4. 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_4; cd02140 259536005403 dimer interface [polypeptide binding]; other site 259536005404 FMN binding site [chemical binding]; other site 259536005405 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 259536005406 Integrase core domain; Region: rve; pfam00665 259536005407 Integrase core domain; Region: rve_3; pfam13683 259536005408 Transposase; Region: HTH_Tnp_1; pfam01527 259536005409 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 259536005410 haemagglutination activity domain; Region: Haemagg_act; smart00912 259536005411 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 259536005412 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 259536005413 Surface antigen; Region: Bac_surface_Ag; pfam01103 259536005414 Peptidase family M48; Region: Peptidase_M48; pfam01435 259536005415 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 259536005416 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 259536005417 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 259536005418 Helix-turn-helix domain; Region: HTH_28; pfam13518 259536005419 Winged helix-turn helix; Region: HTH_29; pfam13551 259536005420 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 259536005421 Helix-turn-helix domain; Region: HTH_28; pfam13518 259536005422 putative transposase OrfB; Reviewed; Region: PHA02517 259536005423 HTH-like domain; Region: HTH_21; pfam13276 259536005424 Integrase core domain; Region: rve; pfam00665 259536005425 Integrase core domain; Region: rve_2; pfam13333 259536005426 thioredoxin 2; Provisional; Region: PRK10996 259536005427 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 259536005428 catalytic residues [active] 259536005429 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 259536005430 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 259536005431 putative DNA binding site [nucleotide binding]; other site 259536005432 putative Zn2+ binding site [ion binding]; other site 259536005433 high affinity sulphate transporter 1; Region: sulP; TIGR00815 259536005434 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 259536005435 Sulfate transporter family; Region: Sulfate_transp; pfam00916 259536005436 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 259536005437 Putative phosphatase (DUF442); Region: DUF442; cl17385 259536005438 Putative phosphatase (DUF442); Region: DUF442; cl17385 259536005439 alkyl hydroperoxide reductase subunit F; Region: AhpF; TIGR03140 259536005440 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 259536005441 catalytic residue [active] 259536005442 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 259536005443 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 259536005444 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 259536005445 Protein of unknown function (DUF465); Region: DUF465; cl01070 259536005446 peroxiredoxin; Region: AhpC; TIGR03137 259536005447 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 259536005448 dimer interface [polypeptide binding]; other site 259536005449 decamer (pentamer of dimers) interface [polypeptide binding]; other site 259536005450 catalytic triad [active] 259536005451 peroxidatic and resolving cysteines [active] 259536005452 Transcriptional regulator [Transcription]; Region: LysR; COG0583 259536005453 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 259536005454 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 259536005455 dimerization interface [polypeptide binding]; other site 259536005456 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 259536005457 S-adenosylmethionine binding site [chemical binding]; other site 259536005458 Protein of unknown function DUF45; Region: DUF45; pfam01863 259536005459 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 259536005460 Imelysin; Region: Peptidase_M75; pfam09375 259536005461 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 259536005462 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 259536005463 Imelysin; Region: Peptidase_M75; cl09159 259536005464 putative outer membrane lipoprotein; Provisional; Region: PRK10510 259536005465 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 259536005466 ligand binding site [chemical binding]; other site 259536005467 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 259536005468 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 259536005469 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 259536005470 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 259536005471 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 259536005472 Switch I; other site 259536005473 Switch II; other site 259536005474 Septum formation topological specificity factor MinE; Region: MinE; pfam03776 259536005475 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 259536005476 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 259536005477 putative binding surface; other site 259536005478 active site 259536005479 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 259536005480 putative binding surface; other site 259536005481 active site 259536005482 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 259536005483 putative binding surface; other site 259536005484 active site 259536005485 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 259536005486 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 259536005487 putative binding surface; other site 259536005488 active site 259536005489 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 259536005490 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 259536005491 ATP binding site [chemical binding]; other site 259536005492 Mg2+ binding site [ion binding]; other site 259536005493 G-X-G motif; other site 259536005494 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 259536005495 Response regulator receiver domain; Region: Response_reg; pfam00072 259536005496 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 259536005497 active site 259536005498 phosphorylation site [posttranslational modification] 259536005499 intermolecular recognition site; other site 259536005500 dimerization interface [polypeptide binding]; other site 259536005501 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 259536005502 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 259536005503 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 259536005504 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 259536005505 dimer interface [polypeptide binding]; other site 259536005506 putative CheW interface [polypeptide binding]; other site 259536005507 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 259536005508 Response regulator receiver domain; Region: Response_reg; pfam00072 259536005509 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 259536005510 active site 259536005511 phosphorylation site [posttranslational modification] 259536005512 intermolecular recognition site; other site 259536005513 dimerization interface [polypeptide binding]; other site 259536005514 Response regulator receiver domain; Region: Response_reg; pfam00072 259536005515 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 259536005516 active site 259536005517 phosphorylation site [posttranslational modification] 259536005518 intermolecular recognition site; other site 259536005519 dimerization interface [polypeptide binding]; other site 259536005520 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 259536005521 HlyD family secretion protein; Region: HlyD_3; pfam13437 259536005522 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 259536005523 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 259536005524 active site 259536005525 phosphorylation site [posttranslational modification] 259536005526 intermolecular recognition site; other site 259536005527 dimerization interface [polypeptide binding]; other site 259536005528 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 259536005529 DNA binding site [nucleotide binding] 259536005530 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 259536005531 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 259536005532 dimerization interface [polypeptide binding]; other site 259536005533 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 259536005534 dimer interface [polypeptide binding]; other site 259536005535 phosphorylation site [posttranslational modification] 259536005536 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 259536005537 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 259536005538 ATP binding site [chemical binding]; other site 259536005539 G-X-G motif; other site 259536005540 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 259536005541 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 259536005542 Walker A/P-loop; other site 259536005543 ATP binding site [chemical binding]; other site 259536005544 Q-loop/lid; other site 259536005545 ABC transporter signature motif; other site 259536005546 Walker B; other site 259536005547 D-loop; other site 259536005548 H-loop/switch region; other site 259536005549 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 259536005550 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 259536005551 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 259536005552 Heme exporter protein D (CcmD); Region: CcmD; cl11475 259536005553 heme exporter protein CcmC; Region: ccmC; TIGR01191 259536005554 heme exporter protein CcmB; Region: ccmB; TIGR01190 259536005555 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 259536005556 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 259536005557 Walker A/P-loop; other site 259536005558 ATP binding site [chemical binding]; other site 259536005559 Q-loop/lid; other site 259536005560 ABC transporter signature motif; other site 259536005561 Walker B; other site 259536005562 D-loop; other site 259536005563 H-loop/switch region; other site 259536005564 Protein of unknown function (DUF445); Region: DUF445; pfam04286 259536005565 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 259536005566 active site 259536005567 metal binding site [ion binding]; metal-binding site 259536005568 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 259536005569 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 259536005570 Flavoprotein; Region: Flavoprotein; pfam02441 259536005571 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 259536005572 hypothetical protein; Reviewed; Region: PRK00024 259536005573 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 259536005574 MPN+ (JAMM) motif; other site 259536005575 Zinc-binding site [ion binding]; other site 259536005576 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 259536005577 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 259536005578 active site 259536005579 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 259536005580 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 259536005581 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 259536005582 hypothetical protein; Provisional; Region: PRK10621 259536005583 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 259536005584 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 259536005585 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 259536005586 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 259536005587 putative active site [active] 259536005588 putative CoA binding site [chemical binding]; other site 259536005589 nudix motif; other site 259536005590 metal binding site [ion binding]; metal-binding site 259536005591 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 259536005592 nudix motif; other site 259536005593 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 259536005594 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 259536005595 Peptidase M16C associated; Region: M16C_assoc; pfam08367 259536005596 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 259536005597 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 259536005598 Ligand Binding Site [chemical binding]; other site 259536005599 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 259536005600 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 259536005601 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 259536005602 putative dimerization interface [polypeptide binding]; other site 259536005603 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 259536005604 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 259536005605 DNA-binding site [nucleotide binding]; DNA binding site 259536005606 RNA-binding motif; other site 259536005607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 259536005608 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 259536005609 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 259536005610 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 259536005611 HIGH motif; other site 259536005612 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 259536005613 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 259536005614 active site 259536005615 KMSKS motif; other site 259536005616 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 259536005617 tRNA binding surface [nucleotide binding]; other site 259536005618 anticodon binding site; other site 259536005619 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 259536005620 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 259536005621 Uncharacterized conserved protein [Function unknown]; Region: COG0393 259536005622 hypothetical protein; Provisional; Region: PRK00967 259536005623 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 259536005624 phosphoserine phosphatase SerB; Region: serB; TIGR00338 259536005625 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 259536005626 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 259536005627 motif II; other site 259536005628 Domain of unknown function (DUF368); Region: DUF368; pfam04018 259536005629 biotin synthase; Region: bioB; TIGR00433 259536005630 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 259536005631 FeS/SAM binding site; other site 259536005632 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 259536005633 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 259536005634 ribonuclease PH; Reviewed; Region: rph; PRK00173 259536005635 Ribonuclease PH; Region: RNase_PH_bact; cd11362 259536005636 hexamer interface [polypeptide binding]; other site 259536005637 active site 259536005638 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 259536005639 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 259536005640 acyl-activating enzyme (AAE) consensus motif; other site 259536005641 putative AMP binding site [chemical binding]; other site 259536005642 putative active site [active] 259536005643 putative CoA binding site [chemical binding]; other site 259536005644 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 259536005645 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 259536005646 acyl-activating enzyme (AAE) consensus motif; other site 259536005647 putative AMP binding site [chemical binding]; other site 259536005648 putative active site [active] 259536005649 putative CoA binding site [chemical binding]; other site 259536005650 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 259536005651 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 259536005652 CAP-like domain; other site 259536005653 active site 259536005654 primary dimer interface [polypeptide binding]; other site 259536005655 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 259536005656 Uncharacterized conserved protein [Function unknown]; Region: COG1432 259536005657 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 259536005658 putative metal binding site [ion binding]; other site 259536005659 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 259536005660 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 259536005661 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 259536005662 active site 259536005663 motif I; other site 259536005664 motif II; other site 259536005665 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 259536005666 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 259536005667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 259536005668 NAD(P) binding site [chemical binding]; other site 259536005669 active site 259536005670 Predicted membrane protein [Function unknown]; Region: COG1289 259536005671 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 259536005672 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 259536005673 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 259536005674 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 259536005675 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 259536005676 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 259536005677 active site 259536005678 dimer interface [polypeptide binding]; other site 259536005679 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 259536005680 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 259536005681 active site 259536005682 FMN binding site [chemical binding]; other site 259536005683 substrate binding site [chemical binding]; other site 259536005684 3Fe-4S cluster binding site [ion binding]; other site 259536005685 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 259536005686 domain interface; other site 259536005687 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 259536005688 active site 259536005689 dimer interface [polypeptide binding]; other site 259536005690 metal binding site [ion binding]; metal-binding site 259536005691 shikimate kinase; Reviewed; Region: aroK; PRK00131 259536005692 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 259536005693 ADP binding site [chemical binding]; other site 259536005694 magnesium binding site [ion binding]; other site 259536005695 putative shikimate binding site; other site 259536005696 AMIN domain; Region: AMIN; pfam11741 259536005697 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 259536005698 Secretin and TonB N terminus short domain; Region: STN; smart00965 259536005699 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 259536005700 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 259536005701 Pilus assembly protein, PilP; Region: PilP; pfam04351 259536005702 Pilus assembly protein, PilO; Region: PilO; pfam04350 259536005703 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 259536005704 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 259536005705 Competence protein A; Region: Competence_A; pfam11104 259536005706 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 259536005707 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 259536005708 Transglycosylase; Region: Transgly; pfam00912 259536005709 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 259536005710 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 259536005711 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 259536005712 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 259536005713 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 259536005714 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 259536005715 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 259536005716 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 259536005717 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 259536005718 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 259536005719 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 259536005720 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 259536005721 DNA binding site [nucleotide binding] 259536005722 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 259536005723 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 259536005724 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 259536005725 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 259536005726 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 259536005727 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 259536005728 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 259536005729 RPB3 interaction site [polypeptide binding]; other site 259536005730 RPB1 interaction site [polypeptide binding]; other site 259536005731 RPB11 interaction site [polypeptide binding]; other site 259536005732 RPB10 interaction site [polypeptide binding]; other site 259536005733 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 259536005734 core dimer interface [polypeptide binding]; other site 259536005735 peripheral dimer interface [polypeptide binding]; other site 259536005736 L10 interface [polypeptide binding]; other site 259536005737 L11 interface [polypeptide binding]; other site 259536005738 putative EF-Tu interaction site [polypeptide binding]; other site 259536005739 putative EF-G interaction site [polypeptide binding]; other site 259536005740 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 259536005741 23S rRNA interface [nucleotide binding]; other site 259536005742 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 259536005743 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 259536005744 mRNA/rRNA interface [nucleotide binding]; other site 259536005745 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 259536005746 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 259536005747 23S rRNA interface [nucleotide binding]; other site 259536005748 L7/L12 interface [polypeptide binding]; other site 259536005749 putative thiostrepton binding site; other site 259536005750 L25 interface [polypeptide binding]; other site 259536005751 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 259536005752 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 259536005753 putative homodimer interface [polypeptide binding]; other site 259536005754 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 259536005755 heterodimer interface [polypeptide binding]; other site 259536005756 homodimer interface [polypeptide binding]; other site 259536005757 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 259536005758 elongation factor Tu; Reviewed; Region: PRK00049 259536005759 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 259536005760 G1 box; other site 259536005761 GEF interaction site [polypeptide binding]; other site 259536005762 GTP/Mg2+ binding site [chemical binding]; other site 259536005763 Switch I region; other site 259536005764 G2 box; other site 259536005765 G3 box; other site 259536005766 Switch II region; other site 259536005767 G4 box; other site 259536005768 G5 box; other site 259536005769 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 259536005770 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 259536005771 Antibiotic Binding Site [chemical binding]; other site 259536005772 elongation factor G; Reviewed; Region: PRK00007 259536005773 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 259536005774 G1 box; other site 259536005775 putative GEF interaction site [polypeptide binding]; other site 259536005776 GTP/Mg2+ binding site [chemical binding]; other site 259536005777 Switch I region; other site 259536005778 G2 box; other site 259536005779 G3 box; other site 259536005780 Switch II region; other site 259536005781 G4 box; other site 259536005782 G5 box; other site 259536005783 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 259536005784 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 259536005785 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 259536005786 30S ribosomal protein S7; Validated; Region: PRK05302 259536005787 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 259536005788 S17 interaction site [polypeptide binding]; other site 259536005789 S8 interaction site; other site 259536005790 16S rRNA interaction site [nucleotide binding]; other site 259536005791 streptomycin interaction site [chemical binding]; other site 259536005792 23S rRNA interaction site [nucleotide binding]; other site 259536005793 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 259536005794 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 259536005795 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 259536005796 dimer interface [polypeptide binding]; other site 259536005797 active site 259536005798 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 259536005799 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 259536005800 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 259536005801 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 259536005802 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 259536005803 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536005804 homodimer interface [polypeptide binding]; other site 259536005805 catalytic residue [active] 259536005806 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 259536005807 histidinol dehydrogenase; Region: hisD; TIGR00069 259536005808 NAD binding site [chemical binding]; other site 259536005809 dimerization interface [polypeptide binding]; other site 259536005810 product binding site; other site 259536005811 substrate binding site [chemical binding]; other site 259536005812 zinc binding site [ion binding]; other site 259536005813 catalytic residues [active] 259536005814 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 259536005815 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 259536005816 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 259536005817 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 259536005818 hinge; other site 259536005819 active site 259536005820 BolA-like protein; Region: BolA; pfam01722 259536005821 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 259536005822 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 259536005823 substrate binding pocket [chemical binding]; other site 259536005824 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 259536005825 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 259536005826 BON domain; Region: BON; pfam04972 259536005827 hypothetical protein; Provisional; Region: PRK14687 259536005828 Predicted methyltransferases [General function prediction only]; Region: COG0313 259536005829 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 259536005830 putative SAM binding site [chemical binding]; other site 259536005831 putative homodimer interface [polypeptide binding]; other site 259536005832 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 259536005833 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 259536005834 substrate binding site [chemical binding]; other site 259536005835 ATP binding site [chemical binding]; other site 259536005836 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 259536005837 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 259536005838 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 259536005839 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 259536005840 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 259536005841 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 259536005842 active site 259536005843 nucleotide binding site [chemical binding]; other site 259536005844 HIGH motif; other site 259536005845 KMSKS motif; other site 259536005846 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 259536005847 nudix motif; other site 259536005848 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 259536005849 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 259536005850 active site 259536005851 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 259536005852 active site 259536005853 catalytic triad [active] 259536005854 oxyanion hole [active] 259536005855 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 259536005856 Uncharacterized conserved protein [Function unknown]; Region: COG2353 259536005857 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 259536005858 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 259536005859 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 259536005860 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 259536005861 Peptidase family M23; Region: Peptidase_M23; pfam01551 259536005862 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 259536005863 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 259536005864 dimer interface [polypeptide binding]; other site 259536005865 phosphorylation site [posttranslational modification] 259536005866 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 259536005867 ATP binding site [chemical binding]; other site 259536005868 Mg2+ binding site [ion binding]; other site 259536005869 G-X-G motif; other site 259536005870 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 259536005871 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 259536005872 active site 259536005873 phosphorylation site [posttranslational modification] 259536005874 intermolecular recognition site; other site 259536005875 dimerization interface [polypeptide binding]; other site 259536005876 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 259536005877 DNA binding site [nucleotide binding] 259536005878 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 259536005879 putative active site [active] 259536005880 dimerization interface [polypeptide binding]; other site 259536005881 putative tRNAtyr binding site [nucleotide binding]; other site 259536005882 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 259536005883 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 259536005884 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 259536005885 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 259536005886 dimer interface [polypeptide binding]; other site 259536005887 conserved gate region; other site 259536005888 putative PBP binding loops; other site 259536005889 ABC-ATPase subunit interface; other site 259536005890 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 259536005891 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 259536005892 dimer interface [polypeptide binding]; other site 259536005893 conserved gate region; other site 259536005894 putative PBP binding loops; other site 259536005895 ABC-ATPase subunit interface; other site 259536005896 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 259536005897 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 259536005898 Walker A/P-loop; other site 259536005899 ATP binding site [chemical binding]; other site 259536005900 Q-loop/lid; other site 259536005901 ABC transporter signature motif; other site 259536005902 Walker B; other site 259536005903 D-loop; other site 259536005904 H-loop/switch region; other site 259536005905 transcriptional regulator PhoU; Provisional; Region: PRK11115 259536005906 PhoU domain; Region: PhoU; pfam01895 259536005907 PhoU domain; Region: PhoU; pfam01895 259536005908 HD domain; Region: HD_3; pfam13023 259536005909 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 259536005910 Isochorismatase family; Region: Isochorismatase; pfam00857 259536005911 catalytic triad [active] 259536005912 dimer interface [polypeptide binding]; other site 259536005913 conserved cis-peptide bond; other site 259536005914 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 259536005915 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 259536005916 dimer interface [polypeptide binding]; other site 259536005917 active site 259536005918 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 259536005919 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 259536005920 substrate binding site [chemical binding]; other site 259536005921 oxyanion hole (OAH) forming residues; other site 259536005922 trimer interface [polypeptide binding]; other site 259536005923 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 259536005924 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 259536005925 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 259536005926 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 259536005927 substrate binding pocket [chemical binding]; other site 259536005928 chain length determination region; other site 259536005929 substrate-Mg2+ binding site; other site 259536005930 catalytic residues [active] 259536005931 aspartate-rich region 1; other site 259536005932 active site lid residues [active] 259536005933 aspartate-rich region 2; other site 259536005934 Protein of unknown function DUF72; Region: DUF72; pfam01904 259536005935 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 259536005936 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 259536005937 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 259536005938 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 259536005939 active site 259536005940 dimerization interface [polypeptide binding]; other site 259536005941 trigger factor; Provisional; Region: tig; PRK01490 259536005942 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 259536005943 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 259536005944 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 259536005945 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 259536005946 oligomer interface [polypeptide binding]; other site 259536005947 active site residues [active] 259536005948 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 259536005949 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 259536005950 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 259536005951 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 259536005952 Walker A motif; other site 259536005953 ATP binding site [chemical binding]; other site 259536005954 Walker B motif; other site 259536005955 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 259536005956 Cytochrome c [Energy production and conversion]; Region: COG3258 259536005957 Cytochrome c; Region: Cytochrom_C; pfam00034 259536005958 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 259536005959 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 259536005960 Sporulation related domain; Region: SPOR; pfam05036 259536005961 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 259536005962 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 259536005963 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 259536005964 active site 259536005965 HIGH motif; other site 259536005966 nucleotide binding site [chemical binding]; other site 259536005967 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 259536005968 KMSK motif region; other site 259536005969 tRNA binding surface [nucleotide binding]; other site 259536005970 DALR anticodon binding domain; Region: DALR_1; smart00836 259536005971 anticodon binding site; other site 259536005972 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 259536005973 Methyltransferase domain; Region: Methyltransf_31; pfam13847 259536005974 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 259536005975 S-adenosylmethionine binding site [chemical binding]; other site 259536005976 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 259536005977 S-adenosylmethionine binding site [chemical binding]; other site 259536005978 methionine sulfoxide reductase A; Provisional; Region: PRK14054 259536005979 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 259536005980 Transglycosylase SLT domain; Region: SLT_2; pfam13406 259536005981 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 259536005982 N-acetyl-D-glucosamine binding site [chemical binding]; other site 259536005983 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 259536005984 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 259536005985 glutamate racemase; Provisional; Region: PRK00865 259536005986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 259536005987 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 259536005988 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 259536005989 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 259536005990 Probable sodium/alanine symporter; (start site possibly interrupted by transposase) 259536005991 Transposase, Mutator family; Region: Transposase_mut; pfam00872 259536005992 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 259536005993 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 259536005994 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 259536005995 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 259536005996 Na binding site [ion binding]; other site 259536005997 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 259536005998 DctM-like transporters; Region: DctM; pfam06808 259536005999 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 259536006000 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 259536006001 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 259536006002 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 259536006003 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 259536006004 putative active site [active] 259536006005 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 259536006006 active site 259536006007 malonic semialdehyde reductase; Provisional; Region: PRK10538 259536006008 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 259536006009 putative NAD(P) binding site [chemical binding]; other site 259536006010 homotetramer interface [polypeptide binding]; other site 259536006011 homodimer interface [polypeptide binding]; other site 259536006012 active site 259536006013 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 259536006014 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 259536006015 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 259536006016 active site 259536006017 HIGH motif; other site 259536006018 dimer interface [polypeptide binding]; other site 259536006019 KMSKS motif; other site 259536006020 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 259536006021 RNA binding surface [nucleotide binding]; other site 259536006022 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 259536006023 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 259536006024 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 259536006025 dimer interface [polypeptide binding]; other site 259536006026 active site 259536006027 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 259536006028 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 259536006029 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 259536006030 active site 259536006031 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 259536006032 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 259536006033 putative active site [active] 259536006034 catalytic triad [active] 259536006035 putative dimer interface [polypeptide binding]; other site 259536006036 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 259536006037 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 259536006038 Transporter associated domain; Region: CorC_HlyC; smart01091 259536006039 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 259536006040 hypothetical protein; Provisional; Region: PRK05170 259536006041 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 259536006042 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 259536006043 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 259536006044 GTP/Mg2+ binding site [chemical binding]; other site 259536006045 G4 box; other site 259536006046 G5 box; other site 259536006047 G1 box; other site 259536006048 Switch I region; other site 259536006049 G2 box; other site 259536006050 G3 box; other site 259536006051 Switch II region; other site 259536006052 Transposase, Mutator family; Region: Transposase_mut; pfam00872 259536006053 MULE transposase domain; Region: MULE; pfam10551 259536006054 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 259536006055 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 259536006056 minor groove reading motif; other site 259536006057 helix-hairpin-helix signature motif; other site 259536006058 substrate binding pocket [chemical binding]; other site 259536006059 active site 259536006060 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 259536006061 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 259536006062 DNA binding and oxoG recognition site [nucleotide binding] 259536006063 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 259536006064 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 259536006065 active site 259536006066 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 259536006067 catalytic triad [active] 259536006068 dimer interface [polypeptide binding]; other site 259536006069 ATP-dependent helicase HepA; Validated; Region: PRK04914 259536006070 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 259536006071 ATP binding site [chemical binding]; other site 259536006072 putative Mg++ binding site [ion binding]; other site 259536006073 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 259536006074 nucleotide binding region [chemical binding]; other site 259536006075 ATP-binding site [chemical binding]; other site 259536006076 glycerate dehydrogenase; Provisional; Region: PRK06487 259536006077 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 259536006078 putative ligand binding site [chemical binding]; other site 259536006079 putative NAD binding site [chemical binding]; other site 259536006080 catalytic site [active] 259536006081 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 259536006082 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 259536006083 active site 259536006084 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 259536006085 catalytic residues [active] 259536006086 transcription termination factor Rho; Provisional; Region: rho; PRK09376 259536006087 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 259536006088 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 259536006089 RNA binding site [nucleotide binding]; other site 259536006090 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 259536006091 multimer interface [polypeptide binding]; other site 259536006092 Walker A motif; other site 259536006093 ATP binding site [chemical binding]; other site 259536006094 Walker B motif; other site 259536006095 Predicted metalloprotease [General function prediction only]; Region: COG2321 259536006096 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 259536006097 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 259536006098 IHF - DNA interface [nucleotide binding]; other site 259536006099 IHF dimer interface [polypeptide binding]; other site 259536006100 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 259536006101 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 259536006102 putative tRNA-binding site [nucleotide binding]; other site 259536006103 B3/4 domain; Region: B3_4; pfam03483 259536006104 tRNA synthetase B5 domain; Region: B5; smart00874 259536006105 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 259536006106 dimer interface [polypeptide binding]; other site 259536006107 motif 1; other site 259536006108 motif 3; other site 259536006109 motif 2; other site 259536006110 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 259536006111 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 259536006112 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 259536006113 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 259536006114 dimer interface [polypeptide binding]; other site 259536006115 motif 1; other site 259536006116 active site 259536006117 motif 2; other site 259536006118 motif 3; other site 259536006119 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 259536006120 23S rRNA binding site [nucleotide binding]; other site 259536006121 L21 binding site [polypeptide binding]; other site 259536006122 L13 binding site [polypeptide binding]; other site 259536006123 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 259536006124 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 259536006125 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 259536006126 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 259536006127 metal binding site [ion binding]; metal-binding site 259536006128 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 259536006129 sec-independent translocase; Provisional; Region: tatB; PRK00182 259536006130 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 259536006131 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 259536006132 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 259536006133 Family description; Region: UvrD_C_2; pfam13538 259536006134 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 259536006135 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 259536006136 FMN binding site [chemical binding]; other site 259536006137 active site 259536006138 catalytic residues [active] 259536006139 substrate binding site [chemical binding]; other site 259536006140 MAPEG family; Region: MAPEG; cl09190 259536006141 OsmC-like protein; Region: OsmC; cl00767 259536006142 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 259536006143 putative active site [active] 259536006144 Ap4A binding site [chemical binding]; other site 259536006145 nudix motif; other site 259536006146 putative metal binding site [ion binding]; other site 259536006147 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 259536006148 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 259536006149 tetramer interface [polypeptide binding]; other site 259536006150 catalytic Zn binding site [ion binding]; other site 259536006151 NADP binding site [chemical binding]; other site 259536006152 NRDE protein; Region: NRDE; cl01315 259536006153 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 259536006154 thymidylate synthase; Reviewed; Region: thyA; PRK01827 259536006155 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 259536006156 dimerization interface [polypeptide binding]; other site 259536006157 active site 259536006158 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 259536006159 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 259536006160 folate binding site [chemical binding]; other site 259536006161 NADP+ binding site [chemical binding]; other site 259536006162 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 259536006163 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 259536006164 GIY-YIG motif/motif A; other site 259536006165 active site 259536006166 catalytic site [active] 259536006167 putative DNA binding site [nucleotide binding]; other site 259536006168 metal binding site [ion binding]; metal-binding site 259536006169 UvrB/uvrC motif; Region: UVR; pfam02151 259536006170 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 259536006171 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 259536006172 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; cl17557 259536006173 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 259536006174 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 259536006175 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 259536006176 RimM N-terminal domain; Region: RimM; pfam01782 259536006177 PRC-barrel domain; Region: PRC; pfam05239 259536006178 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 259536006179 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 259536006180 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 259536006181 dimerization interface [polypeptide binding]; other site 259536006182 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 259536006183 dimer interface [polypeptide binding]; other site 259536006184 phosphorylation site [posttranslational modification] 259536006185 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 259536006186 ATP binding site [chemical binding]; other site 259536006187 Mg2+ binding site [ion binding]; other site 259536006188 G-X-G motif; other site 259536006189 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 259536006190 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 259536006191 dimerization interface [polypeptide binding]; other site 259536006192 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 259536006193 dimer interface [polypeptide binding]; other site 259536006194 phosphorylation site [posttranslational modification] 259536006195 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 259536006196 ATP binding site [chemical binding]; other site 259536006197 Mg2+ binding site [ion binding]; other site 259536006198 G-X-G motif; other site 259536006199 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 259536006200 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 259536006201 active site 259536006202 phosphorylation site [posttranslational modification] 259536006203 intermolecular recognition site; other site 259536006204 dimerization interface [polypeptide binding]; other site 259536006205 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 259536006206 DNA binding site [nucleotide binding] 259536006207 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 259536006208 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 259536006209 gamma subunit interface [polypeptide binding]; other site 259536006210 epsilon subunit interface [polypeptide binding]; other site 259536006211 LBP interface [polypeptide binding]; other site 259536006212 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 259536006213 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 259536006214 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 259536006215 alpha subunit interaction interface [polypeptide binding]; other site 259536006216 Walker A motif; other site 259536006217 ATP binding site [chemical binding]; other site 259536006218 Walker B motif; other site 259536006219 inhibitor binding site; inhibition site 259536006220 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 259536006221 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 259536006222 core domain interface [polypeptide binding]; other site 259536006223 delta subunit interface [polypeptide binding]; other site 259536006224 epsilon subunit interface [polypeptide binding]; other site 259536006225 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 259536006226 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 259536006227 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 259536006228 beta subunit interaction interface [polypeptide binding]; other site 259536006229 Walker A motif; other site 259536006230 ATP binding site [chemical binding]; other site 259536006231 Walker B motif; other site 259536006232 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 259536006233 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 259536006234 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 259536006235 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 259536006236 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 259536006237 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 259536006238 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 259536006239 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 259536006240 ATP synthase I chain; Region: ATP_synt_I; cl09170 259536006241 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 259536006242 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 259536006243 intersubunit interface [polypeptide binding]; other site 259536006244 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 259536006245 metal binding site 2 [ion binding]; metal-binding site 259536006246 putative DNA binding helix; other site 259536006247 metal binding site 1 [ion binding]; metal-binding site 259536006248 dimer interface [polypeptide binding]; other site 259536006249 structural Zn2+ binding site [ion binding]; other site 259536006250 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 259536006251 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 259536006252 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 259536006253 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 259536006254 ABC-ATPase subunit interface; other site 259536006255 dimer interface [polypeptide binding]; other site 259536006256 putative PBP binding regions; other site 259536006257 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 259536006258 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 259536006259 active site 259536006260 metal binding site [ion binding]; metal-binding site 259536006261 hexamer interface [polypeptide binding]; other site 259536006262 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 259536006263 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 259536006264 active site 259536006265 HIGH motif; other site 259536006266 nucleotide binding site [chemical binding]; other site 259536006267 active site 259536006268 KMSKS motif; other site 259536006269 cell division protein FtsW; Region: ftsW; TIGR02614 259536006270 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 259536006271 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 259536006272 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 259536006273 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 259536006274 Sulfate transporter family; Region: Sulfate_transp; pfam00916 259536006275 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 259536006276 Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]; Region: UspA; COG0589 259536006277 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 259536006278 Ligand Binding Site [chemical binding]; other site 259536006279 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 259536006280 Nitrogen regulatory protein P-II; Region: P-II; smart00938 259536006281 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 259536006282 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 259536006283 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 259536006284 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 259536006285 active site 259536006286 substrate binding site [chemical binding]; other site 259536006287 Mg2+ binding site [ion binding]; other site 259536006288 Uncharacterized conserved protein [Function unknown]; Region: COG1434 259536006289 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 259536006290 putative active site [active] 259536006291 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 259536006292 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 259536006293 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 259536006294 putative active site [active] 259536006295 catalytic site [active] 259536006296 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 259536006297 putative active site [active] 259536006298 catalytic site [active] 259536006299 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 259536006300 Methyltransferase domain; Region: Methyltransf_11; pfam08241 259536006301 S-adenosylmethionine binding site [chemical binding]; other site 259536006302 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 259536006303 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 259536006304 Mg++ binding site [ion binding]; other site 259536006305 putative catalytic motif [active] 259536006306 putative substrate binding site [chemical binding]; other site 259536006307 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 259536006308 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 259536006309 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 259536006310 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 259536006311 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 259536006312 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 259536006313 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 259536006314 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 259536006315 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 259536006316 Cell division protein FtsL; Region: FtsL; pfam04999 259536006317 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 259536006318 MraW methylase family; Region: Methyltransf_5; cl17771 259536006319 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 259536006320 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 259536006321 HIGH motif; other site 259536006322 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 259536006323 active site 259536006324 KMSKS motif; other site 259536006325 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 259536006326 aconitate hydratase; Validated; Region: PRK09277 259536006327 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 259536006328 substrate binding site [chemical binding]; other site 259536006329 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 259536006330 ligand binding site [chemical binding]; other site 259536006331 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 259536006332 substrate binding site [chemical binding]; other site 259536006333 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 259536006334 hypothetical protein; Provisional; Region: PRK01752 259536006335 SEC-C motif; Region: SEC-C; pfam02810 259536006336 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 259536006337 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 259536006338 putative active site [active] 259536006339 putative dimer interface [polypeptide binding]; other site 259536006340 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 259536006341 homoserine kinase; Provisional; Region: PRK05231 259536006342 Phosphotransferase enzyme family; Region: APH; pfam01636 259536006343 active site 259536006344 substrate binding site [chemical binding]; other site 259536006345 ATP binding site [chemical binding]; other site 259536006346 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 259536006347 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 259536006348 substrate binding site [chemical binding]; other site 259536006349 glutamase interaction surface [polypeptide binding]; other site 259536006350 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 259536006351 homopentamer interface [polypeptide binding]; other site 259536006352 active site 259536006353 transcription antitermination factor NusB; Region: nusB; TIGR01951 259536006354 putative RNA binding site [nucleotide binding]; other site 259536006355 thiamine monophosphate kinase; Provisional; Region: PRK05731 259536006356 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 259536006357 ATP binding site [chemical binding]; other site 259536006358 dimerization interface [polypeptide binding]; other site 259536006359 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 259536006360 tetramer interfaces [polypeptide binding]; other site 259536006361 binuclear metal-binding site [ion binding]; other site 259536006362 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 259536006363 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 259536006364 Substrate binding site; other site 259536006365 Mg++ binding site; other site 259536006366 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 259536006367 active site 259536006368 substrate binding site [chemical binding]; other site 259536006369 CoA binding site [chemical binding]; other site 259536006370 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 259536006371 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 259536006372 glutaminase active site [active] 259536006373 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 259536006374 dimer interface [polypeptide binding]; other site 259536006375 active site 259536006376 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 259536006377 dimer interface [polypeptide binding]; other site 259536006378 active site 259536006379 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 259536006380 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 259536006381 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 259536006382 active site 259536006383 phosphorylation site [posttranslational modification] 259536006384 intermolecular recognition site; other site 259536006385 dimerization interface [polypeptide binding]; other site 259536006386 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 259536006387 DNA binding site [nucleotide binding] 259536006388 sensor protein QseC; Provisional; Region: PRK10337 259536006389 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; cl00080 259536006390 dimer interface [polypeptide binding]; other site 259536006391 phosphorylation site [posttranslational modification] 259536006392 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 259536006393 ATP binding site [chemical binding]; other site 259536006394 Mg2+ binding site [ion binding]; other site 259536006395 G-X-G motif; other site 259536006396 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 259536006397 ApbE family; Region: ApbE; pfam02424 259536006398 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 259536006399 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 259536006400 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 259536006401 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 259536006402 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 259536006403 HlyD family secretion protein; Region: HlyD_3; pfam13437 259536006404 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 259536006405 ssDNA binding site; other site 259536006406 generic binding surface II; other site 259536006407 DEAD-like helicases superfamily; Region: DEXDc; smart00487 259536006408 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 259536006409 ATP binding site [chemical binding]; other site 259536006410 putative Mg++ binding site [ion binding]; other site 259536006411 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 259536006412 nucleotide binding region [chemical binding]; other site 259536006413 ATP-binding site [chemical binding]; other site 259536006414 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 259536006415 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 259536006416 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 259536006417 nucleophile elbow; other site 259536006418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4719 259536006419 N-acetylglutamate synthase; Validated; Region: PRK05279 259536006420 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 259536006421 putative feedback inhibition sensing region; other site 259536006422 putative nucleotide binding site [chemical binding]; other site 259536006423 putative substrate binding site [chemical binding]; other site 259536006424 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 259536006425 Coenzyme A binding pocket [chemical binding]; other site 259536006426 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 259536006427 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 259536006428 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 259536006429 Conserved TM helix; Region: TM_helix; pfam05552 259536006430 Conserved TM helix; Region: TM_helix; pfam05552 259536006431 Conserved TM helix; Region: TM_helix; pfam05552 259536006432 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 259536006433 classical (c) SDRs; Region: SDR_c; cd05233 259536006434 NAD(P) binding site [chemical binding]; other site 259536006435 active site 259536006436 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 259536006437 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 259536006438 putative acyl-acceptor binding pocket; other site 259536006439 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 259536006440 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 259536006441 ATP binding site [chemical binding]; other site 259536006442 Mg2+ binding site [ion binding]; other site 259536006443 G-X-G motif; other site 259536006444 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 259536006445 anchoring element; other site 259536006446 dimer interface [polypeptide binding]; other site 259536006447 ATP binding site [chemical binding]; other site 259536006448 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 259536006449 active site 259536006450 metal binding site [ion binding]; metal-binding site 259536006451 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 259536006452 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 259536006453 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 259536006454 Transposase; Region: HTH_Tnp_1; cl17663 259536006455 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 259536006456 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 259536006457 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 259536006458 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 259536006459 active site 259536006460 dimer interface [polypeptide binding]; other site 259536006461 motif 1; other site 259536006462 motif 2; other site 259536006463 motif 3; other site 259536006464 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 259536006465 anticodon binding site; other site 259536006466 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 259536006467 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 259536006468 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 259536006469 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 259536006470 ribonuclease R; Region: RNase_R; TIGR02063 259536006471 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 259536006472 RNB domain; Region: RNB; pfam00773 259536006473 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 259536006474 RNA binding site [nucleotide binding]; other site 259536006475 Transposase; Region: HTH_Tnp_IS630; pfam01710 259536006476 Homeodomain-like domain; Region: HTH_23; pfam13384 259536006477 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 259536006478 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 259536006479 catalytic residues [active] 259536006480 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 259536006481 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 259536006482 E3 interaction surface; other site 259536006483 lipoyl attachment site [posttranslational modification]; other site 259536006484 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 259536006485 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 259536006486 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 259536006487 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 259536006488 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 259536006489 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 259536006490 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 259536006491 catalytic loop [active] 259536006492 iron binding site [ion binding]; other site 259536006493 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 259536006494 FAD binding pocket [chemical binding]; other site 259536006495 FAD binding motif [chemical binding]; other site 259536006496 phosphate binding motif [ion binding]; other site 259536006497 beta-alpha-beta structure motif; other site 259536006498 NAD binding pocket [chemical binding]; other site 259536006499 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 259536006500 ApbE family; Region: ApbE; pfam02424 259536006501 Protein of unknown function (DUF539); Region: DUF539; cl01129 259536006502 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 259536006503 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 259536006504 putative substrate translocation pore; other site 259536006505 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 259536006506 active site 259536006507 catalytic triad [active] 259536006508 oxyanion hole [active] 259536006509 switch loop; other site 259536006510 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 259536006511 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 259536006512 Walker A/P-loop; other site 259536006513 ATP binding site [chemical binding]; other site 259536006514 Q-loop/lid; other site 259536006515 ABC transporter signature motif; other site 259536006516 Walker B; other site 259536006517 D-loop; other site 259536006518 H-loop/switch region; other site 259536006519 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 259536006520 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 259536006521 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 259536006522 TPR repeat; Region: TPR_11; pfam13414 259536006523 binding surface 259536006524 TPR motif; other site 259536006525 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 259536006526 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 259536006527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536006528 homodimer interface [polypeptide binding]; other site 259536006529 catalytic residue [active] 259536006530 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 259536006531 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 259536006532 putative active site [active] 259536006533 oxyanion strand; other site 259536006534 catalytic triad [active] 259536006535 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 259536006536 putative active site pocket [active] 259536006537 4-fold oligomerization interface [polypeptide binding]; other site 259536006538 metal binding residues [ion binding]; metal-binding site 259536006539 3-fold/trimer interface [polypeptide binding]; other site 259536006540 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 259536006541 phosphoglycolate phosphatase; Provisional; Region: PRK13222 259536006542 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 259536006543 motif II; other site 259536006544 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 259536006545 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 259536006546 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 259536006547 Walker A motif; other site 259536006548 ATP binding site [chemical binding]; other site 259536006549 Walker B motif; other site 259536006550 arginine finger; other site 259536006551 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 259536006552 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 259536006553 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 259536006554 FeS/SAM binding site; other site 259536006555 HemN C-terminal domain; Region: HemN_C; pfam06969 259536006556 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 259536006557 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 259536006558 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 259536006559 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 259536006560 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 259536006561 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 259536006562 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 259536006563 catalytic residue [active] 259536006564 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 259536006565 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 259536006566 Methyltransferase domain; Region: Methyltransf_11; pfam08241 259536006567 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 259536006568 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 259536006569 nucleotide binding site [chemical binding]; other site 259536006570 GrpE; Region: GrpE; pfam01025 259536006571 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 259536006572 dimer interface [polypeptide binding]; other site 259536006573 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 259536006574 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 259536006575 DNA protecting protein DprA; Region: dprA; TIGR00732 259536006576 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 259536006577 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 259536006578 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 259536006579 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 259536006580 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 259536006581 pyridoxal 5'-phosphate binding site [chemical binding]; other site 259536006582 catalytic residue [active] 259536006583 NusB family; Region: NusB; pfam01029 259536006584 16S rRNA methyltransferase B; Provisional; Region: PRK10901 259536006585 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 259536006586 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 259536006587 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 259536006588 putative active site [active] 259536006589 substrate binding site [chemical binding]; other site 259536006590 putative cosubstrate binding site; other site 259536006591 catalytic site [active] 259536006592 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 259536006593 substrate binding site [chemical binding]; other site 259536006594 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 259536006595 Lumazine binding domain; Region: Lum_binding; pfam00677 259536006596 Lumazine binding domain; Region: Lum_binding; pfam00677 259536006597 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 259536006598 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 259536006599 catalytic motif [active] 259536006600 Zn binding site [ion binding]; other site 259536006601 RibD C-terminal domain; Region: RibD_C; cl17279 259536006602 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 259536006603 ATP cone domain; Region: ATP-cone; pfam03477 259536006604 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 259536006605 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 259536006606 trmE is a tRNA modification GTPase; Region: trmE; cd04164 259536006607 G1 box; other site 259536006608 GTP/Mg2+ binding site [chemical binding]; other site 259536006609 Switch I region; other site 259536006610 G2 box; other site 259536006611 Switch II region; other site 259536006612 G3 box; other site 259536006613 G4 box; other site 259536006614 G5 box; other site 259536006615 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 259536006616 membrane protein insertase; Provisional; Region: PRK01318 259536006617 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 259536006618 hypothetical protein; Provisional; Region: PRK14370 259536006619 Ribonuclease P; Region: Ribonuclease_P; cl00457 259536006620 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399